CC ****************************************************************
CC                                                                *
CC   REPBASE UPDATE                                               *
CC   (C) 1997-2004  Genetic Information Research Institute        *
CC   All rights reserved                                          *
CC                                                                *
CC   A REFERENCE COLLECTION OF FUGU REPETITIVE SEQUENCES          *
CC   RELEASE 1.0.0; FEBRUARY 2002                                 *
CC                                                                *
CC   This release was supported in part by U.S.                   *
CC   Department of Energy grant DE-FG0395ER62139                  *
CC   and by N.I.H. grant 1P41LM06252-01.                          *
CC                                                                *
CC ****************************************************************
XX
ID   SAMURAI_LTR repbase; DNA; VRT; 464 BP.
CC   SAMURAI_LTR DNA
XX
AC   X85044;
XX
DT   11-JAN-1999 (Rel. 3.0, Created)
DT   11-JAN-1999 (Rel. 3.0, Last updated, Version 1)
XX
DE   LTR from SAMURAI retrotransposon.
XX
KW   Gypsy superfamily; LTR retrotransposon; SAMURAI_I; SAMURAI_LTR.
XX
OS   Fugu rubripes
CC   Fugu rubripes.
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-464
RC   [1]  (bases 1 to 464)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (January, 1999)
XX
CC   SAMURAI_LTRs flank an internal sequence SAMURAI_I.
XX
DR   GENBANK; AF083221; 109.0.
CC   Positions   16694   17157  Accession No AF083221     GenBank (rel. 109.0)
XX
SQ   Sequence 464 BP; 65 A; 129 C; 100 G; 170 T; 0 other;
     tgttgtggct cgggtttctc gcctccacac ccacctgcag gatcggcagg caggggcggg        60
     ccgaactctg atgagcgctg agcctctggc gcacctgcag cgcattacct taattcggcg       120
     gctacttaaa ctcccctctc tttgcctccg gtgacggatt gttgtttcgc cactagctcc       180
     caccctctgt gatctccagt tttttgcctc ctgttttccg tgtttacttc cagcgtgtga       240
     gtttgttcca gtgcctcgtc actgcgtttt cgtttgtact ttttctcgac ggtttcttcc       300
     ctttatggtg atttttagtt cgtagatttt ctgttgttac tttgctagag ttgtttccgt       360
     tgctactttg attgattcct tcgtcttgca cctttttgtt atcaataaaa agccgtatct       420
     tctactctgc atctgggtcc aggcctcctt gactttccat aaca                        464
//
ID   SAMURAI_I repbase; DNA; VRT; 4116 BP.
CC   SAMURAI_I DNA
XX
AC   X85044;
XX
DT   11-JAN-1999 (Rel. 3.0, Created)
DT   11-JAN-1999 (Rel. 3.0, Last updated, Version 1)
XX
DE   SAMURAI retrotransposon; an internal sequence.
XX
KW   Gypsy superfamily; LTR retrotransposon; gag; pol; internal sequence;
KW   SAMURAI_LTR; SAMURAI_I.
XX
OS   Fugu rubripes
CC   Fugu rubripes.
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4116
RC   [1]  (bases 1 to 4116)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (January, 1999)
XX
CC   SAMURAI_I codes for gag and pol polyproteins. SAMURAI was an active 
CC   retrotransposon relatively recently since there is 98% identity
CC   between its LTRs found in GenBank sequence AF083221. It has
CC   5 bp-long target site duplications. SUSHI retrotransposon is SAMURAI's
CC   closest relative; there is 63% identity between their internal sequences.
XX
DR   GENBANK; AF083221; 109.0.
CC   Positions   16694   17157  Accession No AF083221     GenBank (rel. 109.0)
XX
SQ   Sequence 4116 BP; 889 A; 1315 C; 1025 G; 887 T; 0 other;
     gaacaatccg gccactatgg acccagcaaa gtcagatctg ctgaagcaga cgctttccgt        60
     gcaagcagag cgggtccacc aggtggagtc ggctctgcgc caaatgtcag agcacatgca       120
     gcgcatcacg gccggcgtct ctcaactcag tggtcagctg gtggccctgg acgaacggct       180
     tcctcgcgta caggacatcg ccgcgtcagt cccagtcgac agcccgccga ccaaccctgc       240
     tacacagcca cgtgagcctt atatccccat cccaggaagg tattcaggag acttggggac       300
     atgctcccag tttttgcacc agtgccagct ggtttttacc cagcaacccc tcacctactc       360
     caccccgcaa gccaagactg cctttgtcat gagtttgctc accggacaag ccgctgcctg       420
     gtccgtagct gtcgccccac agcgacagga gttgatgggc gattacaccg ggttcgtggg       480
     ggagatgaag ccaattgcta gacctccgac agggtagctc ctctgcttct gactacgctg       540
     taaactttcg cattctagcg gcagagagtg ggtgggggga ttcagccttg caagccatat       600
     tcctcaaggg gctagcagga gagctgaagg acgaattagc tgttcgtgat gagtgccacc       660
     cccgcagagg ggacagttcc acacctgcac ccagttttac tcacctgact ccttcccgag       720
     atctcctgcc gcctcccact acgcccagga gcaaccgccg cagcccgcag aggagcccat       780
     gcagttagga aggacacgcc tcatggcagc cgagagacaa cgccacatgc agcaccagct       840
     ctgcctctac tgcgcgcagc agggacacta tatttcccga tgtcctgagg tgccaagggg       900
     acggggttca cctataagcc gagggaccga gctgagttgt atctcttcct cctccctact       960
     aaagtgttag tggattccgg cgcagatgaa agtttcatcg actcagactt tgttaacact      1020
     catggcatcc ccacttatga cttgtcggtc ccgaaagagg tgcactcagt agatggtaaa      1080
     cttctaacgt tagtaacgcg caaaacgcaa cccctgaaat tgaatctctc cagcaaccac      1140
     cacgagttca tagagatgtt tgttatctgc actcctctga attccatcat cctgggcatc      1200
     ccctggctga agcttcacaa cccccacatc gattggtcta ctgccaccat ccgcaactgg      1260
     agtaaccatt gccacgccca ctgccttaaa tccgctctgc caaccaggcc cacgaaccca      1320
     tctccagcac ccgaggagat caacttaacc aatgttcctt ccgactacca cgacctgcag      1380
     caggttttca gcaaagcatc tgcctcctcg ttaccccccc atagacctta cgactgcgcc      1440
     atagacttgc tccccggcgc cactcttccc accaagagac tttttcacct ggccaagcca      1500
     gagcgggagg cgatggagaa gtacattacg gagtcagtgg cagccggtct cattcgtccc      1560
     tcctcgtctc ccgtgggggc ggggttcttc ttcgtagaaa agaaagataa atccttacgc      1620
     ccctgtattg actacaccgg actaaatgac atcaccgtga agaacaagta ccccctccct      1680
     ctgattgact cagctttcag ccccctacac acagctacgg tgtttactaa attagatttg      1740
     agaaacgctt atcacctcat cagaatcagg gagggggaca agtggaaaac ggctttcaac      1800
     accccgctag gtcacttcga atacttggtg atgccctttg gactaactaa tgcccctgcc      1860
     gtatttcaat gtctagtcaa cgacatgctg cgggatctgc tgaataagtc ggtgttcgtt      1920
     tacctggatg acatactgat cttttccagg tcgttggagg agcatgttgg acacgtgcgg      1980
     gaagtgttga agagactatt ggaaaataag ctgtacgcca aagcggaaaa gtgtgaattc      2040
     catgtttcct ctgtaagttt cctaggcttt gtgattgaga agggacagct tcgcgcagat      2100
     ccttccaagg tggcagcagt caaggactgg cccatgccca ctactcgtga gcagcttcag      2160
     cgtttcttag cctttgccaa tttctatcga cgtttcatac gaaactacag ccgcctggca      2220
     gcaccactca cgcgtctcac atcccccaag ctcactttcg tctggtctcc agatgaacag      2280
     caggccttcg aaaaactaaa aaacatgttt attaataccc ctgtccttac gcacccagat      2340
     ccggagcgac agttcgtggt tgaagttgat gcctcagact ccggggtagg ggccatcctc      2400
     tctcagcgtc atgccactga taacaagctt cacccctgcg cctttttctc acgccgtctc      2460
     tccccagcag aagccaatta tgatgtaggt aaccgggaac tcctgctggt ggtcctggct      2520
     ctgcaggagt ggaggcactg gctggaggga gggacacagc ctttcacctt tcacctgcgc      2580
     accgctcgcc gcctgaactc acgacaggcc cgcggggcct tgttcctcag caggttcagc      2640
     ttcacgatca cgtatcgccc cggctcgcgg aacacaaagc ctgatgcact ctccccccag      2700
     ttttcctcgg aggagaggga gccctccagg gagaccgtct tggacccgga gtgtgtgctg      2760
     ggcgaggtcc actggccagt cgaggcggag gttcgggaag cgctccaggg acagttggtc      2820
     ccagacggat gcccggtcat cggtactctc atggggacac acctcccgaa tagcctgcca      2880
     cccaggagtc catcgcactt tagccctcat ccgacagcgc ttctggtggc catccatggc      2940
     ggcggacgtc cggacctttg ttgcggcgtg caccgtgtgt atacacagca aatcttcaca      3000
     cagggccccc gcaggactcc tgcagccgct acccattccc cctcgtccct ggtcccacat      3060
     cgctgtggac ttcgttaccg ggctgccccc cctgaaggta acactactat cttaacagta      3120
     gtcgattgtt tctccaaggc ggtacatttt gttccccttc ctaaactccc caccgccttg      3180
     gagacggcaa acctcctgat tcaacatgtt tttagacttc atggaatccc gcaggacatc      3240
     gtgtcagacc gcggacctca attcacctct caggtgtgga aggcgttctg ctgggccctg      3300
     ggaaccacct ccagcctcac cttgggttac cacccccagt ccaacgggca gacagaacga      3360
     gctaaccaga gtttggaggc atccctgagt tgtgtggtct cccgcctccc gtcctcctgg      3420
     gcctcacatc taccctgggt ggagtacgcc cacaactctc tcgtcagtgc agcaaccggt      3480
     ctgtctccct ttatggtcaa ccacggctac caacctcctc tgttccccag ccaagagtcc      3540
     gacgtggcag tacccttggt ccgagcccag ttccgccgga tcagacgggt gtggtgggag      3600
     actcgagccg cactggacag gacagcggag cataacagac gcctggcgga ccgccaccga      3660
     gcaccggcgc ctaattacca agtgggtcag caagtgtggc tctcctcccg cgatctcccc      3720
     ctccagactg attccagaaa actcgccccc aggtacatcg gcccttaccc cgtggacaaa      3780
     atcatcaacc cttgtgcagt ccgtctccgc ctcccagctt ccctgaacat ccacccagtg      3840
     tttcatgtct ccctcctcaa gcccccacca acctcctgcg ccaccaccgc ccccccgcac      3900
     cttgtcgaag gccatccggc ctacacggtc aacaagattt tggatgtacg caggcgggga      3960
     aggggattcc agtatttggt cgactgggag gggtacggcc cggaggagcg ctcctggatt      4020
     gggcgcgccc tcattttaga cccgcaactg ttgagggatt tttatctcag gttcccagac      4080
     aagccaggta ggcgtccatt gggggggggg gggtac                                4116
//
ID   SUSHILTR  repbase; DNA; VRT; 560 BP.
CC   SUSHILTR DNA
XX
AC   AF030881;
XX
DT   15-JAN-1999 (Rel. 3.0, Created)
DT   15-JAN-1999 (Rel. 3.0, Last updated, Version 1)
XX
DE   LTR from SUSHI retrotransposon.
XX
KW   LTR retrotransposon SUSHI; SUSHII; SUSHILTR.
XX
OS   Fugu rubripes
CC   Fugu rubripes.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-560
RC   [1]  (bases 1 to 5645)
RA   Poulter R.T.M., Butler M.I.;
RT   "A retrotransposon family from the pufferfish (fugu) Fugu rubripes";
RL   Gene 215 (2), 241-249 (1998)
XX
RN   [2]
RP   1-560
RC   [2]  (bases 1 to 5645)
RA   Poulter R.T.M., Butler M.I.;
RT   "Direct Submission";
RL   Submitted (22-OCT-1997) Biochemistry, University of Otago, P.O. Box
RL   56, Dunedin, New Zealand
XX
CC   SUSHILTR is an LTR from SUSHI retrotransposon.
XX
DR   GENBANK; AF030881; 109.0.
CC   Positions       1     560  Accession No AF030881     GenBank (rel. 109.0)
XX
SQ   Sequence 560 BP; 83 A; 218 C; 95 G; 164 T; 0 other;
     tgactcctac tctggcccca cctcctcctg ggcaatcagc tcaaccacca ccacctgggc        60
     cctctccttc agctgcaccc aatccgccca aatgactctg cacccataaa aggcccctat       120
     gcactcaggc cagtgcttga tcttactgat gtttttggca actcttcccg ttgacccaac       180
     atctctccag gctccccagt gactccctgc gtctccctgc gtcttccagg gactcccagc       240
     gactcccagc gactcccccg gctcttctgc taccttccta gcccctcttc ctctgacctc       300
     ttcctcttcc ccttcctcgg acggatttct cctggcctct ggacacttgg actctcccac       360
     ggactctcgc ccctggatct cgaacttggt tcgtctgccg catcacgcac ctatagtttg       420
     tctcggcctc tctcatttag tttcttccct cctgtttctt ttgcttcatt aaaccgtctg       480
     agttcacttt taattcctgt gtctgtctgc cttctttggg gttccgccac acttgaccgc       540
     cagtcctctc gagcttaaca                                                   560
//
ID   SUSHII    repbase; DNA; VRT; 4475 BP.
CC   SUSHII DNA
XX
AC   AF030881;
XX
DT   15-JAN-1999 (Rel. 3.0, Created)
DT   15-JAN-1999 (Rel. 3.0, Last updated, Version 1)
XX
DE   An internal part of SUSHI LTR-retrotransposon.
XX
KW   LTR retrotransposon SUSHI; internal part; gag; pol; Gypsy 
KW   superfamily; SUSHILTR; SUSHII.
XX
OS   Fugu rubripes
CC   Fugu rubripes.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4475
RC   [1]  (bases 1 to 5645)
RA   Poulter R.T.M., Butler M.I.;
RT   "A retrotransposon family from the pufferfish (fugu) Fugu rubripes";
RL   Gene 215 (2), 241-249 (1998)
XX
RN   [2]
RP   1-4475
RC   [2]  (bases 1 to 5645)
RA   Poulter R.T.M., Butler M.I.;
RT   "Direct Submission";
RL   Submitted (22-OCT-1997) Biochemistry, University of Otago, P.O. Box
RL   56, Dunedin, New Zealand
XX
CC   SUSHII is an internal part of SUSHI LTR-retrotransposon; its LTR 
CC   is deposited in RepBase as SUSHILTR. SUSHI was an active element 
CC   relatively recently since there is 99& identity between its LTRs. 
CC   Two long open reading frames (ORFs) are predicted from the sequence.
CC   The first has homology to retroviral GAG genes. The second includes 
CC   sequences homologous to protease, reverse transcriptase/RNaseH
CC   and integrase domains. Sequence comparisons of the predicted ORFs 
CC   indicate that this element is related to the gypsy class of 
CC   LTR-retrotransposons [1].
XX
DR   GENBANK; AF030881; 109.0.
CC   Positions     561    5035  Accession No AF030881     GenBank (rel. 109.0)
XX
SQ   Sequence 4475 BP; 809 A; 1568 C; 1169 G; 929 T; 0 other;
     gaaagatcaa gccaagatga gtcaaggtgg aaccccgggg cagccgggcg gccctaggac        60
     ccccacgtta ccctcccccc tcgaaagaag agtggaggcc cactctgccc agctctcctc       120
     ccttcagtcg gagctaacca aggccttccc cacaatccag ggggagattt ccgagctcca       180
     gagctcctcc cagaccacct ccagtaccct gtccgccctc tccaaccaga tgtccgccat       240
     ggcaaccgtt ttggcttcca ttattcagaa gctaggcagc gaccccggtg gggctgctcc       300
     atcagaacca tctctcccgc tttctccccg agccgagccc aaccttgcca gcccccgtgt       360
     gttcggcggg gatttcgacc tgggcaaggg gttcctccac caatgtgagc tgctcttccg       420
     ccatcagccc tccagatttg tttccgacga ggccaaggtt ggatttataa cctccctcct       480
     ggccgacaag gcattgagct gggccatagc tgccgtcgac ctggaccccc gcctctcctc       540
     agactacagc gcctttcgac gggagttcaa ggctgtgttc gagcacccca cctacggtga       600
     agacgccgcg agtcgtctgc tcgctctcca gcaggggtca cggtcagttg cggagtacac       660
     ccttgagttc cgcatcctgg ctgcagagag ccgctggggc gagaccgcgc tccgtagcgc       720
     ctatcgacgg ggcctgagtg aggcaatcaa ggacctgatt gtgagggacc gcccctcgtc       780
     actcaacgag ctgatcaccc tctcgctcca gatggatgaa cgactacggg agcgccgcca       840
     ggagcgcgcc caacgtgcgg gcggttctac ccgccaactc tcccaccgca cttcctctgc       900
     ccctgatttc tcccttacca gcactgccgc cccgcctcct cacatcctct tgcaatcccc       960
     agctcacccc tcccccagag tcggagagga acccatgcag atcggccggt cccgtctctc      1020
     acggcaggag cgggagcaaa gactccgaga ccagttgtgc ctgtactgcg gaaacaacgg      1080
     ccacttcatc caagcctgcc ccgtccgacc aaaagggcct gctcaccagt agggggagta      1140
     ttggtgagcc gagctgtgat tccccaaccc accgaacaac acaaccgcct cttccccgca      1200
     accctctcct gggataagga gtctattccg gtgagtgttc tcattgactc tggggctgat      1260
     gagtccctga tggattttct ctcgcgcgtc aagctggcat tcccctggtt cctctcgatc      1320
     gctccctgtc cccccaggcg atcgatggcc gctctctggg taacatcaac gcatcgcacc      1380
     atcccactca ccctaacact ctcgggtaat cacatagaga gtacaccttt cctggttttg      1440
     cacgccccca ccgctccact cgtgttagga agaccgtggt tggaaaggca cgacccccac      1500
     atctcatggg cttcgggtcg gatcctgggg tggagcgtgg cctgtcacgc caactgcctt      1560
     cggtccgccc cctctccatc cagtaatccc aggcccgcgc tcactccccc ggatctcagt      1620
     ggtgttcccc ctatctacaa tgatttagcc ccagtgttca gtaaggacaa tgctctgtcc      1680
     cttccccctc actggcccta tgattgcccc atcgacctcc tccccggggc tccctacccc      1740
     acgggtcgac tttacaatct ctccatccca gagaaggagg tgatgcgcaa ttacatcact      1800
     gaatcacttg cctctgggat cataagacca tcgtcatccc ccttagctgc aggtttcttc      1860
     tttgtagcca aggaggatgg cggcctgagg ccctgcatcg acttccgcaa acttaacaac      1920
     atcaccgtta agaacaagta ccctcttccc cttatgagtt ccacgttcga gcctctcact      1980
     catgcccggg tgttcactaa gttagacctc cgcaacgctt accacttggt gcagatcagg      2040
     aaaggggacg aatggaagac cgccttcaac actcacctcg ggcacttcga atacctggtc      2100
     atgcccttcg gcctctccaa cgcccccgcc gtcttccagg agttggtcaa cgatgtgctc      2160
     cgggacatga tcaacgtctt tgtggtggtc tacttggacg acatcttgat cttctcccgc      2220
     accatggagg agcaccacca gcatgttcgc ctggtcctac aacggctttt ggagaaccga      2280
     ctattcatca aagccgagaa gtgcatcttc cactccgcct cagtggggta cctcggctac      2340
     atcgtggagg aggggcgggt gcgcgcagat ccggccaaga tccaagctgt ggtggagtgg      2400
     ccacgcccca ccgaccgcac tcagcttcgc cggttccttg ggttcgccgg gttcatccgg      2460
     cggttcatca aagggttcag tcaagtggct gcccctctct ccgctctcac ctccacctcg      2520
     cgccctttcg catggacacc ggaggctgag accgccttct cggccctcaa ggacaggttc      2580
     acgacggctc cggtgctcgc ccatccagac cccgctcggc agttcatcgt cgaggtcgat      2640
     gcttcggacg cgggcatcgg ggcagtcctc tcccagcggt ccgaggcaga ccagaagatt      2700
     cacccatgtg cctacttttc ccgccgtttt gatccggctg aacgaaatta cgatgtgggc      2760
     aacagggaac ttctggcggt ctatggagcc ttggtggagt ggaaacactg gctggaggga      2820
     gcaaagcacc cgttccttgt gtggtcggac cataagaact tgacctatgt gagaacggcc      2880
     aagagactca atcccagaca gggccgctgg gctctcttca gtcggtttga tttcaccctc      2940
     actttccgtc ctggttccaa gaatatccgg gctgatgccc tctcccgcca gtttccggag      3000
     gaattccccg gggcccccag ggatcctgac accatcgttc ccccggcccg ggtcataggg      3060
     gtcatctcct ggccgatcga gacggccgtc gagcaagccc agagagacga gccatatcct      3120
     gggaacgggc ctcagggccg aatgttcgtg ccttcctccg tccggccgca ggtgctagag      3180
     tggggccact ccagttgttt cgcctgccat cctggcgtgc gtcggacggc ggagtttgtg      3240
     cagcggcgct tctggtggcc caacctccaa gaggatgttc gggagtttgt gggcgcctgc      3300
     acggtctgtg cccgcagcaa ggcctcccat cgctcgccag caggccttct gcaccccctt      3360
     cccgtcccca gtcgaccctg gtctcacgta gccctggatt ttgtgacggg cctccccgtc      3420
     tcgcagggga acgacaccat cctgaccatt gtggaccgct tctccaaggg ggtccacttt      3480
     gtcgccctcc ccaaactccc ttctgctgca gaaacagctg aactcctggt ctcccacgtt      3540
     gtgcgtctcc atgggatccc cctggacgtg gtctctgacc gtggccccca attcacttct      3600
     agggtgtggc aggccttctg caaggggatt ggggccacgg tcagcctgtc ctctgggtac      3660
     cacccccagt ccaacggaca agccgaacgg gccaaccagg ctatggaggc ggccctgcgc      3720
     tgcgtgacca ccagcaatcc tgcctcctgg tccaagttcc tgccgtgggt ggaatactcc      3780
     ctcaacgcca tggaaagctc tgctactggt atgtccccct ttcaatgttt cctgggctac      3840
     caaccccctc tgttccccca gcaggagctg gagatcgcag tgccgtctac cagggcccat      3900
     ctccgccgat gtaggcgcat ctggaaaact gcccgcaaag ccatcttgcg ggccactgag      3960
     cagtcccggc gttcggccaa ccggcgaagg aggccggccc ctgcttaccg gcctggccag      4020
     aaggtctggc tgttggcccg ggacctgccc ctccagacct cgcagacttc ctccagaaag      4080
     ctgaaccccc gcgacatcgg tccatacacc atctgcagca tcatcaaccc ctctgcagtc      4140
     catttggatc tccctgccgc cctcaaggtt cacccggtct tccacgtttc gctcattaaa      4200
     cccttttcca ccagccccct gtcccctcct gctccgattc cacctccccc acaggtcctg      4260
     tcggacggag agccggtgtg gagcgttaac aagctgctgg cggtccgccg acggggaagg      4320
     ggcttccagt acctggtgga ttgggtgggt tacggccccg aagaccagag ctgggtgccc      4380
     ccatcctatc tcgctgaccc ctccctcctc gaagactttt taccgagagc acccggatgc      4440
     tcctgggcgg tcgtccggtg cctcccgtaa ggggg                                 4475
//
ID   CATCH1_I  repbase; DNA; VRT; 6162 BP.
CC   CATCH1_I DNA
XX
AC   AF108421;
XX
DT   09-JUL-1999 (Rel. 3.0, Created)
DT   09-JUL-1999 (Rel. 3.0, Last updated, Version 1)
XX
DE   CATCH1_I is an internal part of endogenous retrovirus CATCH1.
XX
KW   endogenous retrovirus; LTR-retrotransposon; BCDPR superfamily; ORF1;
KW   gag; reverse transcriptase; endonuclease; CATCH1_LTR; CATCH1_I.
XX
OS   Fugu rubripes
CC   Fugu rubripes.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-6162
RC   [1]  (bases 1 to 6162)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (July, 1999)
XX
CC   CATCH1_I is an internal part of CATCH1 endogenous retrovirus flanked
CC   by CATCH1_LTR long terminal repeat. It contains one long ORF1 
CC   (position 34-6102) that encodes gag-like reverse transcriptase
CC   and endonuclease domains. CATCH1 has been integrated in the
CC   fugu genome recently since its proviral copy is flanked by identical
CC   LTRs and there is only one putative stop-codon accumulated in
CC   ORF1. Target-site duplication is 5 bp long.
CC   CATCH1 belongs to the BCDPR superfamily (see DIPER_I in 
CC   invrep.ref).
XX
DR   GENBANK; AF108421; 110.0.
CC   Positions   39210  33049  Accession No AF108421   GenBank (rel. 110.0)
XX
SQ   Sequence 6162 BP; 1806 A; 1313 C; 1637 G; 1406 T; 0 other;
     gtaaaaaacc accgtctgga gaactacctg aaaatggcag tcgcagctac tggaaaaaca        60
     gtggaagagc taagaaaaga cagagtaact gcaaaaaggc tctttacaaa agtttgcaac       120
     acaatatccc gaaatcatga ggacatgaat gaggaggaac ttaaggacat tttaagtaaa       180
     ctcaaaagtg aagcggaaaa actcatggaa gccaatgatg acctacaagc tgggataatt       240
     gcggatcagg aagcagaaga agactctggt gaggaagctg tactagatga gcaagtaagg       300
     actgatcttg agaaaacaac atcagattgt aaaaggagat tggccgaagg tagaaacctc       360
     attcagcaga gcctatggtc caactttgca caagctgact tgtccattgc tgtcaggacg       420
     acagagaccg tatatgacca tgctcaaacc atgagacctg aagatggccc aggggtgtac       480
     gaccatgtca tcagtcaact acaggagctg tttaagagag caaaggagga atacaacaag       540
     tggacgtcgt ggattccagg acacaatcgg agagagatcc aggatcaact aagggagctt       600
     gagttttcca ttcctgcgct cattacacga aaggcggact tcataaaggt gactgtaaag       660
     aaggatccga tgccacaggc agcagcgact gtaaattact ctactccagc aattaggcta       720
     aagccaacag cgctgccaag attcaatggc tgccaacggg agtttttcag atggagaaaa       780
     gactgggaag cgcttcaaag tcaaggtgag ccaacgggtt caagagaagt caaaaaggcc       840
     cagttgttgg attgtattga cgagaaaatt atcaaagact tgcgcttgtc catgtacagt       900
     acagctgatg aaatcttcag ggttctggag agtcgttatg gaaacaaaac ccctattgca       960
     ctagagatag ttgaagaact ccagcggacg ccatcagtca ggaggaacca accacgtaag      1020
     atagtggagt tgattcgaac cgtggagaag gctttacaag acttatgtga attgggagac      1080
     actggtgcga ttaaaaaccc cttggtgact aaatcgatcg agagtaagct acctgattca      1140
     cttaaaaaag aatggctgat ttatgctaca gacactagga acgcggtgca gccggagaaa      1200
     agatttgatt gcttacttgc attcctgaag gggcaggaac ccatttatga gcaattagag      1260
     ctgcttttgg aggaggagcc agtcagaaaa gaggccagag ctgagctacg gcatgcacga      1320
     accaaagtga caaagtcaga tggtgaccaa gctgggtgtg tggtctgtgg tgatgttaag      1380
     cacaagagga agctttattt ctgcaggcag ttccgttcat ctaagttgga ggataagcag      1440
     gctgctgtaa ggagaatccg tgcatgtcca aagtgtctcg aaattcatgg agacgagttg      1500
     tgctgcaaac ccggcttctt gtgcaaaggc cagcgctgta ttgatggacg agcagaacat      1560
     cattatatct tgtgccctta tgcaaaagag aagaagaatg acccaagaag agacagacat      1620
     agtaaggagg ggccggcagc gaaggcattc accgaggacc aagaaaagtt ctttagtaga      1680
     ttgtcaccag agcttgccaa acagtgtcgg gatgtgtttt ccaatagtgc ctcaaaaacc      1740
     ttcaatgctg tgagtaatca ttctagcctc cttgccgaaa gtgggctgca ggaactgcca      1800
     gttattatga tgttactaga ggtcactgca aatgcaggtc agagacttgg gacactaata      1860
     gacctggcat ctgacacaaa ctacatcact cactcagctg ccagcagatt aaatctcaga      1920
     agtgaggaga tcaccctggt tgttcatggt gttggtggca tggaggtatg tgtggagact      1980
     aagcgatatc tactgagaat cagagtcaag acgtctcaag gcacactcaa gtcccaccag      2040
     atggtttgct atggattgga caggatagcc gaagttcatc aaagtgtcac tgcagggcag      2100
     cttcaaagat tcttccccag aattgcgcaa gctgaacttg aaaggcctaa ggaggtggat      2160
     ttattaatta gccacagaga aggacgactg gccccccaaa gagttcaagc tgtgggcgac      2220
     ctggtgctgt gggatggacc actagggaaa actgtcggtg gagcccatcc tcatctgttt      2280
     gagaagcttg tcttgtcagc tcatgcatct agaactcact ttgctcgctc aatgagaacg      2340
     gccgctgtca ggtacgtgga gatggctggc accccaccca agccaccact taactctcat      2400
     tacataggca agaccaactc agcccatcaa gagtttttaa agtggtggag gtgggacagc      2460
     atcggaacag catgtgagcc caaatgtgga ggctaccgtt gtggcaactg ccagcccggc      2520
     ggaaaagaaa tgactcttgc agaagagagg gagcttgagg tggtgcgagc aggcctcaca      2580
     catgtaatga gtgatgacca tagtacagaa cctcactggc atgccaagta tccgtgggtg      2640
     gacgatcttc agtccctgcc aaacaacagg aatgctgttc aagctacgtt tctgaggatg      2700
     gagaggaagt tggccaaaga acccaattgg aaagttgcct atgctgctca ggtgcatgag      2760
     atgttaagca gaggtgctgc tgcgaagctg tccgatagca caattgcaga gtggacaggc      2820
     ccaatttggt acataagcca cctcatagcc cctaatccac attctgtcac tacccctgtg      2880
     agacttgtgt ggaacagtag tcaaagattt aaaggtgtca gcctgaatga cttattgctg      2940
     aagggtcccg acgtgcttaa ccaaatcaga gctgttctcc ttagattccg gtccggagtt      3000
     tatgcagcca ttggagatgt gagaaaaatg tacaactctg tttggctcga ggaccgtgaa      3060
     gtacatctgc ataggttcct ctggcgaaac agtgctgagg aggaaattca agaatacgca      3120
     gttaccaggg tcaacattgg tgacaagcca gcaggatgca ttgcgcaact ggctatgcgg      3180
     gagactgcca gtcttcccca gtttagtcac ctgacagctg agcgtgaagt tcttcatcgc      3240
     aatgcgtatg tggatgatat actcacatca cataatgatc tgaagcaatt gcaggctact      3300
     acaaaagggg tggaggacat tcttaaagca ggagggtttg cccttaagcc atgggttttt      3360
     tctggccaaa gtgggagggg agaccacatc gacagacaag agaccgtgca aaaagatgcc      3420
     tttgtgttgc ccaaccaaat gagtgatgat gacaacaaag cacttggcct cggatatatt      3480
     gtcaaggaag aaaaacttca tgttatggtg gctatcaact tctcaaaaag aaggaaaaaa      3540
     atgcatcttg ggaaagactt ggagcctcag caggtcaggt tttgtacacc aagcccccta      3600
     acacgcaggg agctcctcag tcaagtttcc ggcctttatg acccagttgg cttagtggca      3660
     ccagtcaagc aaaagggtgc cattctcgtg cggcgggcgt ttcaggaggc tagaagtgag      3720
     cagcatcctg caaaggatac gtgggacaag gccctctcag cggagctaag agaggatgct      3780
     atcaagctct tcgaggaatg tgtcaggctc agagatgtga aatttgacag agctctaaca      3840
     ccatcaaact tcatcggaaa gccatgggcg ctcacgttct ctgatggaag tgagcactcc      3900
     tatggggcag tgatgtacct aagatgggag acggatgaga gcccaatcat cagacttgtg      3960
     gaggccaaag ctaaactgtc accccttgac cagaagggcg aagctgtgaa ggcagaggtg      4020
     tgcggtgctg tcatcgcttc acggctaaag aagtattttc agtcccacag tccaattcaa      4080
     gttgacagat ggttccactt cgtggatagt caaaccgtcc ttggagccat tcagcgagaa      4140
     tgttatgggt ttcaaacatt cttttccaat cggattggtg agatccaaac caactccaga      4200
     gctgaggact ggtggtgggt ccccggccca caaaatgtcg ctgacatgat cacaaggggt      4260
     gcgagtcctg agagtctgac ggagcattcc atttggcaga gagggcccga tttcctgaaa      4320
     gatccaatag acacttggcc agtcaagtct gccaaagaca tagcaaccaa tgccagagaa      4380
     aacataagca aactgcaaag aaaagctttt gtagatgcca taaccaggtc catggcaaat      4440
     gacccaaagc aaaagatggt gacgtctaaa gcggaatcaa gaagaccatc ggcagggtct      4500
     gaaatcaaac accttgttga tgccaagcga ttcagcactc tcgcaaaatt catcaagacg      4560
     gtagcgctag tctggagggc tgctaagaac ttcttgagct ttttaaaaga tgttgaaaac      4620
     aaatactcca gtgtgtctaa gtgggaggca gtttcttcaa agggactcat ttctgttaaa      4680
     gagagagagg acgccctgag ggacatcttt cttgccacgc agcaaggtgt aaaatttcag      4740
     gactctactc gaaatcgtct ggtggtctat aaagatccaa gcactggact gctagtcgct      4800
     agtgggcgtg ttcagagctt tagaaatgat aacagaggag ttcctctatt accttatgat      4860
     gcctgggtgt ccacgctgat ggctcgtgaa gctcacggtt ggagtcatga tggagtggca      4920
     gggacattgc ttaagatgag gtgcaaagcg tgggtcatca aaggcagaag ggttgctcaa      4980
     agggtcgttg acggctgtgt gttgtgtagg aagatacggg caagacggtg ccagcaggtg      5040
     atggctgacc taccccctga aaggactcgg cctgcagcac cattccaatt taccactgtg      5100
     gatctctttg gtccttacct tgtgaaggat gatgtcaaga gaagggtgac actgaaaacc      5160
     tggggtgttg tgttttcctg catggcttgt agagcaatcc atctagacct agtgaattct      5220
     gtgtcaagtg aaagcttctt gatggcatat caacgattca cagccataag agggcatccc      5280
     agtaagcttt ggtcagatcc tggtactaat ttcatcggag caaagccggt actacaagac      5340
     ctataccagt ttctggaatc ccaaaataaa gcagctttgg cggagtatgc agtgagtaga      5400
     ggcactgagt ggaggtggca gatccatcca gctgactcgc cacaccggaa cggcgctgcg      5460
     gaggctgctg tacgtgttgc taaaagagct ctccaagccc ttgacaagaa caccatgttg      5520
     agctacagtg agttccagac ggtccttttc acagctgcaa acttggctaa tgaaagacca      5580
     attgaagcca gagtgcagag caaggaagac tgtatccggt acgtctcacc aaattctctc      5640
     ctgcttggcc gcgcttctaa cagcggagac tttaacagct tcgactttta gagttactct      5700
     tacaaaagac tccaggtgat ccaatgtgag gtaaacaact tctggaaaag ctggagtcaa      5760
     ctggtcggcc caaacctgtt cattcgaaac aagtggcaca ccttgcatcg aaatgtctca      5820
     gaaggggaca ttgtttgggt gtgtgaccag aattctctcc ggggacagta caaagtggtc      5880
     aaggccaacc ctgatgcaag aggcattgtc agagatgttg acgtaaaagt ggtccaaagt      5940
     cattgcattc caatgtttaa acatgtaaat gattctgtta actgtaagac agctaaaaat      6000
     gacaagttgc attccacagt tctccataga gatgtgaggc ggttggtggt tctattgcct      6060
     gttgaggaag gtaagggtaa gatctctgta acagaaaaaa attagtttgt cttttgtaca      6120
     tggcgatcat cacaacagta gtttgtgtga tcgagtggga gg                         6162
//
ID   CATCH1_LTR repbase; DNA; VRT; 722 BP.
CC   CATCH1_LTR DNA
XX
AC   AF108421;
XX
DT   09-JUL-1999 (Rel. 3.0, Created)
DT   09-JUL-1999 (Rel. 3.0, Last updated, Version 1)
XX
DE   CATCH1_LTR is a long terminal repeat from endogenous retrovirus CATCH1.
XX
KW   endogenous retrovirus; LTR-retrotransposon; BCDPR superfamily;
KW   CATCH1_I; CATCH1_LTR.
XX
OS   Fugu rubripes
CC   Fugu rubripes.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-722
RC   [1]  (bases 1 to 722)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (July, 1999)
XX
CC   CATCH1_LTR is a long terminal repeat from CATCH1 endogenous 
CC   retrovirus.
XX
DR   GENBANK; AF108421; 110.0.
CC   Positions   333048  32327  Accession No AF108421   GenBank (rel. 110.0)
XX
SQ   Sequence 722 BP; 203 A; 129 C; 157 G; 233 T; 0 other;
     tgtaaagcca aacccctggt tacctgcttg gcactttagt ggttcctggt ggtgggtaag        60
     tgtaattgca ggtatgatag ggaaaggttc gtgacgtcac cacgcagagg cgtgccttcc       120
     tcacttgcaa ggtgtttcca attgtcctaa ttcccaagtt agaaaagcag tgagacaatt       180
     ctcgaggggt ttgctcgcaa gatcgggagg gacagttggt aagcaccatt ttaatttgtt       240
     ttaagcctta aatttcagtg tgtcggaagg aagacgtgat actgtattgt gactgcgctg       300
     attgttgtgt taagaacgtt cactttcaca aacggcactg tctacaatta ggatgttggt       360
     tacattattg cgactttgca catttatatt tgtaactatt gggttttatg tgtaatgtct       420
     gaatttctta aatatgttca tttctttatt aagcaatttc atatgtttat atttttcttt       480
     tctatttcaa ggttttttac ctattggcca ctgggctacc tgctgtggtc ttgggctgtc       540
     tgtaaactaa aagtcaccct gatgaaaatg ttataataaa gggaaaaaga aaacggaaac       600
     ccagactgtt ggctctgagt gaaaccctac taaaccttca atcttgcaat tcccttcaag       660
     ttggaaaata agggcaaata aaagaggaaa ggaaaacctt tacccccaaa aataacttga       720
     ca                                                                      722
//
ID   BRIDGE1_FR repbase; DNA; VRT; 4209 BP.
CC   BRIDGE1_FR DNA
XX
AC   ;
XX
DT   28-JUL-1999 (Rel. 3.1, Created)
DT   30-NOV-2000 (Rel. 4.0, Last updated, Version 3)
XX
DE   BRIDGE1_FR is a non-LTR retrotransposon - a consensus
DE   sequence.
XX
KW   Non-LTR retrotransposon; LINE; BRIDGE superfamily; ORF1;
KW   ORF2; ORF3; reverse transcriptase; BRIDGE1_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4209
RC   [1]  (bases 2713 to 4135)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (July, 1999)
XX
RN   [2]
RP   1-4209
RC   [2]  (bases 1 to 4209)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (August, 1999)
XX
CC   BRIDGE1_FR is a non-LTR retrotransposon that belongs to the
CC   BRIDGE superfamily. Its consensus sequence has been recovered
CC   from numerous (~120) GSS sequences. 
CC   BRIDGE1_FR is a young retrotransposon since its 
CC   copies are, on average, 95% identical with the consensus
CC   sequence. BRIDGE1_FR has three overlapping open reading frames:
CC   ORF1 (position 684-1556), ORF2 (1307-2512 or 1466-2512) and
CC   ORF3 (2455-4206). ORF3 encodes reverse transcriptase similar
CC   to those encoded by the Penelope non-LTR retrotransposon in 
CC   drosophila and BRIDGE2_FR in fugu.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 4209 BP; 515 A; 239 C; 258 G; 418 T; 0 other;
     gggggaattg ggttcccccg cgtggcggcc gtttagaaat agtgttcccc cggggtgcag        60
     ggatttgata cccctaatct taccctaacc ctaaatccta acccaaagat taaatattac       120
     atttgatatc aaactaattt aatttggcat ttagggggtt aaaatggtag ggtgaaaaaa       180
     tgaaaaaaga aaaaacatcg cgtatatagt gttttttaaa aaaaagcgat gccacagcag       240
     acactatata agggactcga gttcgcaaaa agggaccatt tgcttttcaa ccagcgtatg       300
     gaacacatcg tccacagcca atacagcgag ccagcttttg gttatttagt gtgccctacc       360
     tgaagaagac ccataggggg tcgaaacgtc gttttttggc acactcttcc ttagttattt       420
     aatacattta ttgatttttg gttttatttt acttaccttt taagaaaagg gagaaattaa       480
     aagaaaaaaa tacttaccct taaaaaaata aaaaaaaaaa caaaataaac aaaaaaaaca       540
     ttaaaatact tacctttttc ctttcctatt ttttggaaag cgcttttatt tcaaaaaact       600
     ttctaaaata aataactttc ctattttttg gaaagcactt ttagttcaaa aaactttcta       660
     aaataaataa cttaccttga tttatggagc cgggttggac ggaggtgcgc tatggcaggg       720
     gtcgccagcg tgcccatcgt caacaacaag gatttcaggg ttatgggagg tcggttggga       780
     ggaaggaccg tgctttccct gtctcgtatg ggaggcaggg tacattcccc taccctatcc       840
     ggccagtgct tcctccacgg atcgcccatt accctgttcc tcaacagcgt acatatgcag       900
     cagtggttcg gcaagggtac ccgcaagcat cccaaagacg ggtgtttcca agggccagta       960
     ggccgggggt ccaataccaa taccaatacc aaccagctga cccccagttt gggaaactgg      1020
     tacgcaaact acattcagtg atcaaaacag tccaccacct acaaaatgtg gctccaaagg      1080
     aggggaaacc tgaaccccgg atgatttctc ggatggtgga tatcctgaca gatatgatta      1140
     agcctgctgc tcccacacag cgcacaaaag acttgatttc tgggaatgct aaaaattggg      1200
     gttataatac ctacctgatt ttgatggagc actacgaagc aaacctagca gaatatctgg      1260
     atgaagtatc tggcctcctc acgccagaat ggagggcagc ctttgaggtg gctgttcgtt      1320
     gggctcgacg aaacttacct cgtattacac gggacgagat agaccatgcc caggcattgg      1380
     taacagctcg agtggacact atggtcccgg cagtggttca ggtcccgcag cagaccacag      1440
     tcagtacaga cacgagggac ctggcatgtg ggcattcacc acgacagact gttgtcacag      1500
     ctgcaaccca gtgttgtgga cagtgtatag ctcaagtggt tctagggacg agatagaagg      1560
     aagggctgag actccattac agccgacaac caagagagcg gtcgttacta tgactgactc      1620
     tactggccag cattcggact ggcactttga tcccccatac gtagagcctc ctcgggagct      1680
     tagagtggga cgtaagtgcc taaggaagac caaacatttt gtcccaaatg aggacgactt      1740
     actacaggat gacccagaag atttgatggg gagggggaca cccgttggag acgccacact      1800
     cctggaccta agcggtcttt ttgtggaatc tcaaaatgag gaagctgagg tcgggaccgc      1860
     tagacacgag atggttgttc aggctccccg agggccctcc ttatttgagg aggatagctt      1920
     tgaggactcc ttcgaccatt tcgtagaggc gggccctcca atgtttcagg tgttgagaca      1980
     ccctaatacc caaaggaaat tgattgattg ggacttggtg gttagaaaga aatggttgat      2040
     cattggggat tcaaatctct gcagtttccc agattttgcc atcaagaacc tacagattga      2100
     tagttatcca ggggcccact tccgccatgc acaggctctt attgaaaaaa ctgaaccacc      2160
     tttagatttg gtagtggaaa agattgtact gtcctttggg atcaacagta gggggaatag      2220
     ctcgaaggga actacggtaa aaaacgtcca ggctgccctt cgggttgcaa agaaaaaatt      2280
     tccctatgca gagatgtggg ttcctctgct caatttctcg aataatcttc ctgaggagga      2340
     aagggagaac ctccaacttc tcaatcacca cctggagagg aacatgccct tcattcctct      2400
     tctgccggga agattctttc gcacagggac agataatgtt cattggacag ttgaaacagg      2460
     aagggctatg tttcaccatt ggatggagtt tttaaacttc accacccctt gagtctggaa      2520
     cagagaggga tagatggacc acagtcctct cattctcagg aagtggttgt tctagctaaa      2580
     aatttcaaac tttttagacc acaacaggac ctgttaagca aagggttgtc gttcattcct      2640
     tcttggaacg taggcaggga tcaaaaggta cagctccaat tggacattca aaattatcac      2700
     cgtaagatta aattggcaac ttattacaga gattcaacta aaaaactata ttcaaagttt      2760
     attggaacct cagattggac accaccattg ggggaattgc caccggtaat tggagaattg      2820
     attagaaaag atctggaaac atttaaaaat cattttattt cagtcaagga aaatctaaat      2880
     atttcattac cagaaataaa agcattacag gagctacaac ataaaaagaa tatagttatt      2940
     aaaccagcag acaaagggtc tgcaattgtc attctggacc gggaacaata tatttttgaa      3000
     gtagagcgac aacttaatga cacggaatat tataaaaagt tagaaaaacc aatttattta      3060
     gatacaattc ccatggtagc tacaatttta gacacattaa agagaaagaa attcatttgc      3120
     gaaaaacaaa ggaagtattt agttggggat gtagaaccta gggaaaggag attctatatt      3180
     cttcccaaaa ttcacaagga gccagaaaag tggacaattc catatgaact gcccccggga      3240
     aggccaatcg tctctgactg tgggagcgag acatatttca ctgcggaatt cttagatttt      3300
     tacctgaatc cgctgtccac aaaacatcct gcctttgtca gagacactta tcatttcata      3360
     gagattataa aaaccttgaa gattcctgca gattcctatt tcttctctat ggatgtggat      3420
     agtctatata ctaatatccc cattgaatct ggcatcaact gtattagaaa tatatttgaa      3480
     aaatatcctg accccaagag accagatgaa gagctcttac aattattaga aataaatttg      3540
     agcagaaatg atttcatatt taatggtaaa tactatttac aaaccaaagg aactgctatg      3600
     ggcaaaaggt ttgccccggc atatgcgaat attttcatgg caaactggga agaagaggca      3660
     ctattgaaat gtaaacataa accagctcac tatctacggt atttagatga tgtttgggga      3720
     atatggacag gatctgaact acagtttagg gaatttgttg agaccttaaa ttcccacgat      3780
     ccctctatta aacttaaaac agaaattaat aaacattcaa ttaatttttt agatacaaca      3840
     gttttcaaag ggccagattt tctaaaaact gccaaattgg acattaaagt atattttaaa      3900
     agcactgata cccatgcatt gcttcataaa acaagttttc atccaaaaca tacatttaaa      3960
     ggcatagtaa aatctcaaat tattagattt aagcgaattt gcacaaggga tgaggaattc      4020
     aaggaagcag taaatgtttt atttaaggcc cttcgtaaaa gagggtattc caaacccttt      4080
     ttgaaacact gctttaaatc tgttcaaaaa agaaaaaatg ggggagatcg tggggatttg      4140
     atccctctta ttacaacata ttcttcggtt aataaatctc taaacatagg tttgaaaaca      4200
     atttgaaaa                                                              4209
//
ID   EXPANDER  repbase; DNA; VRT; 3362 BP.
CC   EXPANDER DNA
XX
AC   ;
XX
DT   13-AUG-1999 (Rel. 3.1, Created)
DT   13-AUG-1999 (Rel. 3.1, Last updated, Version 1)
XX
DE   EXPANDER is a non-LTR retrotransposon from RTE superfamily - a 
DE   consensus sequence.
XX
KW   Non-LTR retrotransposon; LINE; RTE superfamily; ORF1;
KW   endonuclease; reverse transcriptase; EXPANDER.
XX
OS   Fugu rubripes (consensus)
CC   consensus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-3362
RC   [1]  (bases 1 to 3362)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (August, 1999)
XX
CC   EXPANDER is a non-LTR retrotransposon that belongs to the
CC   RTE superfamily. Its consensus sequence has been recovered
CC   from numerous (~200) GSS sequences. Putatively, EXPANDER 
CC   constitutes ~1% of the fugu genome.
CC   Its copies are, on average, 92% identical with the consensus
CC   sequence. EXPANDER has one open reading frames encoding
CC   endonuclease and reverse transcriptase (ORF1: 158-3337).
CC   Its 3' UTR ends with several tandem copies of 4 bp-long repeat
CC   (GATG), analogously to other RTE-like elements.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 3362 BP; 633 A; 849 C; 1142 G; 738 T; 0 other;
     cccctcctgg gctaccacct tatcgtggtg gaggggtttg cgtgtcccaa tgatcctagg        60
     agctccgttg tctggggctt tatgcccctg gtagggccac ccatggcaaa caggtcctag       120
     gtgagggacc agacaaagcg tagcccagga ccccctaatg atgataaaca acattggtgc       180
     caagtttccc ttgcccggat gcgggtcacc ggggccccct cctggagcca ggcctggggg       240
     tggggcacgt tggcgagcgc ctggtggccg gacctctgcc catggagtcc ggccgggcgc       300
     agcccgaaga ggcaacatgg gacccccttc ccgtgggctc accacctgca ggaggggcca       360
     agggggtcgg gtgcattgtg ttttgggtag cagccggagg cagggacctt ggcggtctga       420
     ttcccggctg cacaaactgg ctctagggac atggaatgtc acctctctgg tgggaaagga       480
     gcctgagttg gtgcgcgagg ttgagaagtt ccgactagat atagttggcc tcacctcgac       540
     gcacggcaag ggctctggaa ccagtcttct tgagaggggt tggactctct accactctgg       600
     agttgccgat ggtgagaggc gacgagcagg ggtggcaatt ctggttgctc cccagctcag       660
     tgcctgtgta ttggagttta ccccggtgga tgagagggta gcctcccttc gccttcgggt       720
     ggggggacgg atcctgactg ttgtttgtgc ctatggtcca aacagcagtt cagcgtatcc       780
     accctttttg gagtccttag agggagtgct ggagagtgcc ccttctgggg gctccctcgt       840
     cctcctgggt gacttcaatg ctcacgttgg caatgacagt gtgacctgga gaggtgtgat       900
     tgggaagaac ggcccccctg atctgaaccc gagtggtgtt ttgttattgg acttctgtgc       960
     tcgtctcaga ttgtccataa cgaacacctt gttcagacat aaaggcgtcc acatgtgcac      1020
     ttggcaccag gacgccttag gccgcagatc gatgatcgac tttgtggttg tgtcatcgga      1080
     tttgcggccg catgttctgg acactcgggt gaagagaggg gcggagctgt caactgatca      1140
     ccacctggtg gtgagttggc tccgatggtg gggaaggatg ccggacagac ctggcaggcc      1200
     caaacgtgtt gtgagggtct gctgggaacg cctggcagag tcccctgtca gaaggagctt      1260
     caactcacac ctccgggaga gctttgacca tgtcccgggg gaggcggggg acattgagtc      1320
     cgagtggacc atgttccgtg cctccattgt tgaggcggct gaccggtgct gtggccgcaa      1380
     ggtggttggt gcctgtcgtg gcggcaatgc ccgaacccgc tggtggacac cagcggtgag      1440
     ggatgccgtc aagctgaaga aggagtcgta tcgggcctta ctggcctgtg ggactcctga      1500
     ggcagcagat gggtaccggc gtgccaagcg gagtgcagct acggcggttg ccgaggcaaa      1560
     gactcgggca tgggaagagt tcggtgaggc catggagaac gactttcgga cggcctcgaa      1620
     aaggttctgg accaccatcc ggcgtctgag gagggggaag cagtgcactg tcaacactgt      1680
     gtatagtggt gatggtgtgc tgctgacctc aactcgggat gttgtggatc ggtggaagga      1740
     atacttcgag gacctcctca atcccaccaa cacgccttcc agtgaggaag tagggcctgg      1800
     ggacctggag atgggctctc gtatctccgg ggctgaagtt gccgaggtag ttaaaaaact      1860
     cctcggtggc aaggccccgg gggtggatga gatccgccca gagtccctta aggctctgga      1920
     tgttgtaggg ctgtcttggt tgactcgact ctgcaacatc gcgtggacat cgggggcagt      1980
     gcccctggat tggcagaccg gggtggtagt ccctcttttt aagaaggggg accggagggt      2040
     gtgttccaac tataggggga tcacactcct cagcctccct gggaaggtct attcaagggt      2100
     actggagagg aggatccgcc ggatagtcga acctcggatt caggaggaac aatgtggttt      2160
     tcgtcctggg cgtggaacag tggaccagct ctacaccctc agcagggtct ttgagggtgc      2220
     atgggagttt gcccaaccag tccacatgtg ttttgtggac ttggagaagg cattcgaccg      2280
     tgtccctcgg ggggtcctgt ggggggtcct ccgagagtat ggggtgtcgg gcccgctgat      2340
     acgggccgtc cgctccctgt acgatcggtg ccagagtttg gtccgaattg ctggcagtaa      2400
     gtcgaactcg tttccggtga gggttggact ccgccagggc tgccctttgt caccgattct      2460
     gttcataatt tttatggaca gaatttctag gtgcagtcat ggtgtggagg gggtccggtt      2520
     tggtgacctc aggatctcgt ctctgctttt tgcggatgat gtggtcctgt tggcttcatc      2580
     ggcccgtgac ctccaactat cactggatcg gttcgccgcc gcctgtgaag cggctgggat      2640
     gagaatcagc acctccaaat ccgaggccat ggttctcaac cggaaaaagg tggagtgcct      2700
     tctccgggta aaggaggaga tcctgcccca agtggaggag ttcaagtacc tcggggtctt      2760
     gttcacgagt gagggaagaa tggagcggga gatcgacagg cggatcggtg cggcgtccgc      2820
     agtaatgcgg actctgcacc ggtccgtagt ggtgaagaga gagctgagcc gaaaggcgaa      2880
     gctctcgatt taccggtcga tcttcgttcc taccctcacc tatggtcatg agctttgggt      2940
     aatgaccgaa agaacaagat cacgggtaca agcggctgaa atgagcttcc tccgtagggt      3000
     ggctgggctc tcccttagag atagggtgag aagctctgcc atccgggagg agctcggagt      3060
     agagccgctg ctcctccgcg ttgagaggag ccagatgagg tggcttgggc atctagttag      3120
     gatgccccct ggacgcctcc ctggtgaggt gttcagggca tgtccctccg gtaggagacc      3180
     cccgggaaga cccaggacac gttggagaga ctatgtctct cgactggcct gggaacgcct      3240
     ggggatcccc ccggatgagc tggaagaagt agctggggag agggaagtct gggcttctct      3300
     ccttaggctg ctgcccccgc gacccgaccc cggataagcg gtagaggatg gatggatgga      3360
     tg                                                                     3362
//
ID   FUGUREP1  repbase; DNA; VRT; 1674 BP.
CC   FUGUREP1 DNA
XX
AC   ;
XX
DT   20-AUG-1999 (Rel. 3.1, Created)
DT   20-AUG-1999 (Rel. 3.1, Last updated, Version 1)
XX
DE   FUGUREP1 is a dispersed repeat - a consensus sequence.
XX
KW   Dispersed repeat; FUGUREP1.
XX
OS   Fugu rubripes (consensus)
CC   consensus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1674
RC   [1]  (bases 1 to 1674)
RA   Kapitonov V.V., Jurka J.
RT   ;
RL   Direct submission (August, 1999)
XX
CC   FUGUREP1 is a repetitive element; its consensus sequence has
CC   been reconstructed based on multiple GSS fragments.
CC   FUGUREP1 does not have any clear hallmarks of known
CC   mobile elements, therefore its classification cannot be
CC   defined. It's possible, that FUGUREP1 may be expanded when
CC   there will be new sequencing data available. 
CC   FUGUREP1 has been multiplied recently in the F.rubripes genome
CC   since its copies are >90% identical to the consensus sequence.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1674 BP; 365 A; 461 C; 381 G; 465 T; 2 other;
     tctgtactgc agagtgaacg ccaagcatcg gatgtcatgt gaggaataat cgactctccc        60
     tctctgatcc tctcaccgcg ctctgatacc agagcgacgc gccccgagcc ttccaacgcc       120
     gccattatgc tcccactgtg gccccggtgg ctgctaatta ttgctctgct gctgtagctc       180
     tgaatctgcg tgatggagag gggtcagata gcgagagcgc cgccgactcc ccgtatcgac       240
     cgcgtgtcga gtcgctacgc ttgcaaaagc ttttttattg caatataaca gctgcctgcc       300
     agtgggtttt tctgtaggac gtaaaagcca ccagaaatca atagctgagt gagattttcc       360
     tcctcttatt ttgaaaagac ggaggtattt ttggcgggta aatggaaaag tggccttaaa       420
     tgtgcgtgag cgcaaagacg aaaacctctg atttcagctt ttcttttcct ctgaatcgtc       480
     gtctttacgg ggcctccacc cggcctttcg aacactccgt ccacctgcac gtccttcggc       540
     ggcgccgtgt ttcggcggcg atttccgctg gtcccaccac cgaagcagaa ctcgtcaccg       600
     tcagatttaa acacgtggct gttttgactg cagcagctcg gcgtgaancg aaggagtcac       660
     gcaggtcctc tttgttcctg tgatcaaccg accatgcact gttttgattt cccctctgat       720
     ttgacagacc cccccaacac acccacacac acacacacac acacctgctg acatgagccc       780
     agcgttgttg tactgccgtt ctcacatttg tggcaggtnt gtctcattta taacaagtga       840
     agccgccaga ctggccaaaa agtctttaaa ttcctaatct gtttgcattt atttggctcc       900
     agacgggttg tgatgctttt acacttaaag tctaacatca taaaatcaac cttcttctct       960
     caggggaacc agatttattc cagaagatga aaataacact ctgtattcaa agaatcaggt      1020
     ttgaacactc tgaccggggc aggtacaata gcagcgtcat tgattttcca tgcagccacc      1080
     attttctttt gttttccttc tgcttctctg acaaatgtgg ctcattagac tcacttcctg      1140
     tttctccaag tggtgttttt gagccgtgtc tcgcattcat ctgtcttgtt ttgcattaaa      1200
     aagctgaatc tcgcgttcaa caaaggaccg acgaggctgc cagtcgtgaa tcacatttcg      1260
     ggtttcatca tcaccagcgg gcctgatgtt ttctttaact cgcgtctgtc cgtcggtttt      1320
     ttacggtcga gccgtatcat ttcacgcccg tgtagaactg tcacggcagc gcaaaaaaag      1380
     gacctcaaat gggacgctac ggttgcgtcg ctctcttcct attagggaga acgttgccgt      1440
     gatccatgcg acaggcttca aacgtggagc cggagatctg cggttgccat ggcgggggtt      1500
     tcactccgaa acaacagaaa agcgtccatt ggatgatgtg tatatctctc tcaggtccac      1560
     tttgtgcagt ctccatagcc gaaccagtca caggaagtcc gtcttccctg ctccttccat      1620
     cgttcctcct cacggttgga tctgtgttct ccgctcctct gcctgccagg cttg            1674
//
ID   BRIDGE2_FR repbase; DNA; FUG; 1573 BP.
CC   BRIDGE2_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   non-LTR retrotransposon; Penelope/BRIDGE superfamily; Xena;
DE   Poseidon; Neptune; BRIDGE2_FR.
XX
KW   non-LTR retrotransposon; Penelope/BRIDGE superfamily; Xena;
KW   Poseidon; Neptune; BRIDGE2_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1573
RC   [1]  (bases 116 to 502)
RA   Kapitonov V.V., Jurka J.;
RT   ";";
RL   Direct submission to Repbase Update (July, 1999)
XX
RN   [2]
RP   1-1573
RC   [2]
RA   Volff J.N., Hornung U., Schartl M.;
RT   "Fish retroposons related to the Penelope element of Drosophila 
RT   virilis define a new group of retrotransposable elements. ";
RL   Mol. Genet. Genomics 265(4):711-20 (2001)
XX
RN   [3]
RP   1-1573
RC   [3]
RA   Dalle Nogare D.E., Clark M.S., Elgar G., Frame I.G., Poulter R.T.M.;
RT   "Xena, a basal LTR-retrotransposon from the tetraodontoid fish lineage";
RL   GenBank entry AF355377.
XX
RN   [4]
RP   1-1573
RC   [4]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 3 (2002)
XX
CC   This is a 5' truncated consensus sequence for a retrotransposon 
CC   of the basal Penelope group. At the DNA level, it is 80-82% 
CC   similar over almost its full length to BRIDGE1_TN (BRIDGE1_TN was 
CC   rediscovered as 'Neptune' by [2]). 
CC   A fragment of the old BRIDGE2_FR entry [1] is in here (pos 
CC   116-502 corresponds to bp 1-387 of old entry). The remainder of 
CC   the old BRIDGE2_FR (positions 503-618) is an unrelated repeat. 
CC   On average, copies are 8% diverged from the consensus, but some 
CC   copies are obviously very young (<1% diverged from each other). 
XX
CC   [4] (Consensus)
XX
SQ   Sequence 1573 BP; 507 A; 444 C; 338 G; 275 T; 9 other;
     actcaaacta cgtccagaag agacatggta tcttacgatg tcacgtcact cttcacgtgc        60
     atccctaccg ccagcgcnat agacaccatc cacaagcacc ttctattgga caagaatctt       120
     ccagaaagaa caaccttaac accggcccaa atctgcacca tgctggacct gtgtttgaac       180
     accacctatt tccagtacag agaaggcttc tacaggcaga aacatggctg tgccatgggc       240
     tcaccagtat cccccatagt tgccaatcta tacatggaga aggtggaanc ccaggccctg       300
     acatccttca caggaactgc nccaagccac tggttcagat atgtggatga cacctgggtc       360
     aaaattcgaa cacaagaatt ggaagcgttc tcaaatcacc tcaacaaaac agacgagcat       420
     gtaaaattca cccgggaaga tgtaaaagga aacagtctgg cctttctgga ctgcgcagtc       480
     aagatcactg aggacagaaa cctcaccatc gaagtctaca gaaaacctac acataccgac       540
     cagtacctcc agtttgactc tcaccaccca ctggaacaca agttgggagt gatcagaacc       600
     ctccaacacc gggccagaga aatacccacc acatcccaag gcaggaagaa ggaacaggac       660
     cacattaaga cagctctcaa aacatgtggc tacccagact gggccttcac caagacctca       720
     agaaagcgag accccagcaa aggagaggag gagagaaaca aacgccgcag cgtttccatc       780
     ccctacctgt ccggagtctc tgagaagttt aggaggatcc tccagaaaca cgacataccg       840
     gttcagttca aacccagcaa cactctcaga cagaggctgg tacacccgaa ggacaagaca       900
     ccaagacnca aacaaagtaa tgttgtttat gctgtacagt gccaggagga atgcaaggaa       960
     ctgtacattg gggaaaccaa acaacctctc cacagaagaa tggcacaaca cagacgtgcc      1020
     acctcttcgg gtcaggactc agcagtccac ttacacctaa aggagagcgg gcactccttc      1080
     gaggacagcc aagtacgggt actggccaga gaagaccgct ggtttgagag gggtgtcaag      1140
     gaagctatcc atgtcaaatt ggaaaaacca tccttaaaca gaggtggtgg nctgaggcac      1200
     ttcctatcac ccacatacaa tgcagtcctc cactccttcc aacagcaaac caaacgttca      1260
     caccattcca ggagacccgg tgactcacca ccatgtganc cagcagacaa aggggagaca      1320
     cctcaacnga aactaggtga acgacccgac caacgaccct gccaacgact ctcaggtgac      1380
     cacccagatc attagcatgc naatggtcca caggggctat atattttcaa gctctctccc      1440
     cagcganttc agaactgaag aagccttctg gatagaaggc gaaacgtctt caaagagaag      1500
     aaacccagtc cagttgacag agaaaactac cttggataac aatgacctgg atgattgaga      1560
     atctacacag aca                                                         1573
//
ID   CHAPLIN1_FR repbase; DNA; FUG; 1702 BP.
CC   CHAPLIN1_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN1_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN1_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1702
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 5 (2002)
XX
CC   The CHAPLIN transposons are hobo-Activator-Tam3 like elements 
CC   belonging to the distinct MER1/Charlie branch. This clade is 
CC   characterized by the preferred 8 bp duplicated target site 
CC   NTCTAGAN. 
CC   The current CHAPLIN1_FR is not a full-length, autonomous element.
CC   The ORF from bp 300-720 region encodes a fragment of a protein 
CC   most similar to the CHAPLIN8 and mammalian CHARLIE8 transposases. 
CC   On average, copies are 6% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1702 BP; 489 A; 290 C; 371 G; 537 T; 15 other;
     caggggtcgg caacccgcgg ctctggagcc gcatgcggct ctttagcgcc gccctagtgg        60
     ctccctggag ctttttcaaa aatatgaaaa tggaaaaaga tggtgtgaat atattttttg       120
     ttttaatata atttctgtag gaggaaaaac atgacaaaca ttcttaaagt tttccaatgc       180
     tgtaaaaatg tgtataataa atatttaatt tcaacatctc tgtcaacgaa gatttacgtc       240
     atagcctgcg acacacgttt ctttcagctc ggcgtggtgc cagacaggtg gctgttgcaa       300
     acaaaccggc gggtgtgtca tgggccatgg ataccaaagg gaaaaagaga aagatagctg       360
     aggagaacag aggattcaac agttcttgga ccgaatcatt tgcnttcatt gccaatgcgg       420
     aaggattacc tgcatgtttg ctttgtagcg agaagttgtc aaataacaaa aagagtaatg       480
     tggaaagaca tttccaggna aggcatgcta catttgcagc cgagtaccca gctgggagaa       540
     aaagtgcgat tgcattactt ctggagaaat tagaggagca caaagacgat ttaagangtg       600
     gattgcatct ccaaacaaca ctactgctgc tagttttgtt gcaacctggg agatanttaa       660
     gcgtggaaaa ccgttcacag gtggtgacta catgaaggat tcattcatta aaatatcaga       720
     gcacctattt tcctcattgt ttattatttc tataatttaa tcaatgcaac gaaacataat       780
     acattaatat tataatggaa gttaaactta aagcaccatc gtacagcaga gtggtcacat       840
     ggtgcgtcat tctctccagg atgcgcngca gggaaaataa acatttcatc attgtaactg       900
     tctgagagac atgttaattg aaaaattcag tcaatattta ttttacattt ttaaaatggt       960
     cataatttca tttaatgtct caattcgtta ttgttgaaat ggcttaaaaa tgtattgttc      1020
     tttatgtatg tttcctttga tagagtcata ggtcacntgt agggttcaga ggtcgcaccc      1080
     gtggcattgt gggtgaggca gtgcagtaac agcgtggcta cagagcagag cgccaacata      1140
     gtttaaagaa agtatacacg gccttaaaat aataattctg cacggtccaa gaggcgcaca      1200
     cggtaacgat tgttntacgt ttatttgttt ttgtatgttt ttgatctgtg tgtgcccttg      1260
     aatagacagt ttggtatgtt tttctatgtt actgtgctng ctngtcggga cctgtcnaaa      1320
     tgctgganan ttattaagag actttcaana atnagatatt tactttttca aatgctgttt      1380
     atgtntttta ttttctagtt ttcacggcgt ctgcggagga tggagagttg ggagtaaaac      1440
     ttttaaaaag acatctgtat gatgcgtggc cattatttca ttggaccggt gtagctacaa      1500
     tcatggatgc tcattatgta tttgtagcct acttatcatt tggaaagtag gctaatacag      1560
     ctaatataga cacttacagc atgtgttgcc ttcattataa gccctatata aggcttttaa      1620
     ttttttgcgg ctccagacag atttgtttct tgtttttttg gtccaatatg gctctttcaa      1680
     cattttgggt tgccgacccc tg                                               1702
//
ID   CHAPLIN1A_FR repbase; DNA; FUG; 521 BP.
CC   CHAPLIN1A_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN1A_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN1A_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-521
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 4 (2002)
XX
CC   Common internal deletion product of CHAPLIN1_FR.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 521 BP; 148 A; 97 C; 104 G; 172 T; 0 other;
     caggggtcgg caacccgcgg ctctggagcc gcatgcggct ctttagcgcc gccctagtgg        60
     ctccctggag ctttttcaaa aatatgaaaa tggaaaaaga tggtgtgaat atatttttgt       120
     tttaatataa tttctgtagg aggaaaaacg tgacaaacat tcttaaagtt ttccaatgct       180
     gtaaaaatgt gtataataaa tatttaattt caacatctca ttataatgga agttaaactt       240
     aaagcaccat cgtacagcag agtggtcacg tggtgcgtca ttctctccag gatgcgctgc       300
     agggaaaata aacatttaat catgaatgct cattatgtat ttgtagccta cttatcattt       360
     tgaaagtagg ctaatacagc taatatagac acttacagca tgtgttgcct tcattataag       420
     ccctatataa ggcttttaat tttttgcggc tccagacaga tttgtttctt gtttttttgg       480
     tccaatatgg ctctttcaac attttgggtt gccgacccct g                           521
//
ID   CHAPLIN2A_FR repbase; DNA; FUG; 1044 BP.
CC   CHAPLIN2A_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN2A_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN2A_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1044
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 6 (2002)
XX
CC   Like CHAPLIN1, the consensus for CHAPLIN2A_FR has internal 
CC   deletions and a partial coding sequence. It's products best 
CC   matches the transposases of Chaplin8 (55% similarity) , Cheshire 
CC   and Charlie5. See CHAPLIN1_FR. 
CC   On average, copies are 3.7% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1044 BP; 285 A; 209 C; 264 G; 286 T; 0 other;
     caggcctggc caacccgcgg ctcccgagcc gcatgcggct ctttgcctgg tttcatgcgg        60
     ctctaacgtt catatcgaag tttgggtttg tgttttttta atgtgcgtgt tcgcttcgct       120
     tgagttcaat acggtacttt cgccaaaagc gcatgcgcgt tagatgaaaa taccgcaaag       180
     tttctcagta gggacaagat cttttgagta aacaattagt gtcaagttcg ccttcaaaat       240
     ggcaggaaaa aaatgcacag ccaaacgaga aaacctgcac gaaagcttcg tgacccggtt       300
     ccgtgatcta caactgaaaa ggccacagat tgcattcctc gctgcccctt ttaatgtgga       360
     gacgcactgt tggaaagccc cgctagtcac agatgaggct gcagctgagt tggagatgat       420
     cgatctttgt gaggaggacc aactgaaacc tgctttaagg gaaggggcca ttgagttctg       480
     gaaaagtgtg ccaatggaaa aataccccaa tgtcaaacgg gctgcgctta agatactgtc       540
     aatatttggg tcaacatacg tctgcgagtc tgtgttttct accctgaaac acgtgaaacc       600
     aaagcatcga tctgttctga ctgacaccca tgtgaaagaa ttgcttcgcg tggcaacaac       660
     tgaatacaag ccagatttga agaggattgt tcaaagcaag gaatgccaga agtcccacta       720
     agcaacatgc atagtaagag aaaaaaagat attttaatta ttatattttt gtttgtggac       780
     ttagttgaat tgagagtttg tgtgtgtgag acagtgcaca caatgttcat tgttgaaaat       840
     gactggcccg tggtctgtag aagtcaaatt ctgtcattat catgttggtg tgtgacattt       900
     acaataaatc tggctaagca gaggtctgtg tgtgtgagga agggatgagg tgatgttcat       960
     gtgtgcccat gtgtatgatg tggctctttg cggtaacaca gtaaaaaatg tggctcttag      1020
     gctctgactg gttggccacc cctg                                             1044
//
ID   CHAPLIN3_FR repbase; DNA; FUG; 1065 BP.
CC   CHAPLIN3_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN3_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN3_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1065
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 7 (2002)
XX
CC   CHAPLIN3 currently has internal deletions and a partial coding 
CC   sequence. The product is very (90%) similar to that of the 
CC   primate Charlie3 element. Theee is another element in the fugu 
CC   genome with close similarity to Charlie3. See CHAPLIN1.
CC   On average, copies are 8% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1065 BP; 318 A; 240 C; 249 G; 254 T; 4 other;
     cagtggtccc caaccaccgg gccgcggacc ggtaccggtc cgtggatcaa ttggtaccgg        60
     gccgcacaag aaataattaa atatttccgt tttatgcatt agctgagtct gaacgatctt       120
     ttattttgaa aaacnttttg ggaaatgacc ggattctctc ggttacgtct taagcgccaa       180
     aattgaaccc acaagcgagc aaaatgagta agaaacagac gtctttgaaa aatttctttg       240
     cgaaaaagaa aagccccaat caagagacgg gagaagagcc cncttccaag aaaaagaaag       300
     cttttaacag acaatatcan gagttctact gaaaatatgg atttatcccg gtaggtgatt       360
     cccgcatacc aagcccactc tgcgtaattt gcggcgaccg gcttgctaat gaggcaatga       420
     agccttcaaa actacttcgc cacttggaga cccagcaccc tagtttaaaa gacaagcccc       480
     tggagtattt tgaaaggaaa aaaaacagga acacgatggg cagaagaaat tactgagggc       540
     caccacatca gtaaatgtga acgcactgag agcatcgtac ctggtggtcc agtattctgg       600
     attaaagtca tggcagaata ccctgaaatc gccaccacag cactgaaaac ccggttgcca       660
     tttccgacat cctatctgtg tgaagcggga ttttctgcgg tgacagcaac caaaacaaaa       720
     caatggagta gactgggcat aagcaacaca cttcgggtgt cattgtctcc catcactccc       780
     agatgggacc gtctcgttgc agagaaacaa gcncagggct cccattgatt tgtcgttatg       840
     gtgagttaaa attttcatga aaataaaatg ttctttatat tcgtctttgt agcgtatctg       900
     tagcttattt tgaagggatg tttaaacgtt atcgtagcga gtaggagaga gtagcgcttg       960
     tgagtctttg tgggcacact tatccggcag ttcaaccccc ccgggccgca gtaaaattgt      1020
     caagcgctga ccggtccgcg gtgataaaaa ggttggggac cactg                      1065
//
ID   CHAPLIN4_FR repbase; DNA; FUG; 2559 BP.
CC   CHAPLIN4_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN4_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN4_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2559
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 8 (2002)
XX
CC   CHAPLIN4 is an autonomous MER1-group DNA transposon. The protein 
CC   encoded by bp 283-1965 is 64% similar to the Charlie8 transposase
CC   On average, copies are 2.3% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2559 BP; 756 A; 486 C; 600 G; 711 T; 6 other;
     caggggtgtc aaacatacgg cccgcgggcc ggatccggcc cgcctggggg ttcggtacgg        60
     cccggggaat aaatctgcat tattaaaaaa aaaaaaaana tcttgaaaat gtgtgattca       120
     tatattgtcc gctagggggc gcagcatttt agtacgcgca gacaacatga aagcaacact       180
     gcggcggaac taggagatgg tagcattgaa cgtctgttca gcgtctgttg gcggcaattg       240
     cattatccac ttttctgttg gcctcgcacc ctcatcagcg aaatgtcttt gtcaaaaagg       300
     agaaaagtgg acacagagtg tcggattttt caagaaaaat ggacatattc ttatatgttc       360
     acggaggtga atgggaaacc cgtatgccta gtgtgccagc agcaagtttc ggtgcttaaa       420
     gaatacaata ttcggcgcca ttatgaaact cagcatggtg aaaaatacag cagcttgcat       480
     ggagaactga gaaaacagaa ggtaaatgaa atgatggtgc atctgaggaa acagcaatct       540
     gttttcaccc ggagtcgaga agccagtgat gctgcggtga aagctagcta cctaattgcg       600
     agccaaatag cattagcctc aaagccatat agcgatggag agttcgtcaa aaactgcatg       660
     ctgacggctg ccgaaattgt gtgtcctgag aagcgacatg cttttgccaa tattagcttg       720
     acaagaaata ccgtggcaga caggatttcg gaactatcgg cagatttgga ccaccaaatg       780
     aaacgcaaag tggagtcatt tctggcattt tctgttgcga ttgatgagag tactgatatt       840
     acggacatcg ctcaactggc catattcatt cgtggagttg acaagacttt gactgtcagc       900
     gaggagtttc tcgagctggt gcctatgacc gacaccacga cagctgagga cattttccgc       960
     tccgtagttg gagcgctgga cagaatcggg gcggactggt cacgcgccgt aagcctggct      1020
     actgatggtg cgccgtcaat gatcggtaaa aaggcaggcg ttgtgacaaa gttcagagat      1080
     aaagtacaag ccacaaatgg agggggtaat ttttggacat ttcattgtat tttgcatcag      1140
     gaggcattat gcagcaaatc gctaaaaatg gatcacgtca tggaggtggt tgtccgaact      1200
     gttaatttca tccgagccag aggtctcaat catcgtcagt ttgacagcct tctcagtgac      1260
     tgcaacatta cccatggtgt gccttaccac acggaagtac gatggttaag cagaggtgct      1320
     gtgctgaagc gcttctttga tttacgtggc aaaattggtc aattcatgga gaaaaaaagt      1380
     aaacctgtta aggaattaca gtgccatctg tggctgcagg accttgcgtt tatggttgac      1440
     atcactgagc acttgaataa tctcaacaaa atgttgcaag gacgcaaaaa aatcataaca      1500
     cagtattatg acagcatacg tgcattcaag ctaaagctca gnttatggga gacgcagata      1560
     gcaagcggtg acnctgctca ttttccctgt ttaaaagata tgtgcgcagc aagcgttaat      1620
     tttgatgcaa aacggtacaa agacaagatt tcacggttgt tgagggagtt tgagaaacga      1680
     tttcaggttt ttagmgaact tgagacagaa tttgcagttt ttcgctcacc attcacagtc      1740
     agagcttctg atttgcccgt tgacatgcaa cttgaaatca ttgatttgca gtgtgatgta      1800
     gaactgaagg acaaatttgc ctctgtgggc ttagacacat tttacaagta cctcctacca      1860
     ggctatccta cattgacagc actggctgca aaaattagat tagattgttg tcaatgttgt      1920
     ccatgtttgg gactacctat ctttgtgagc aggttttctc actaatgaac attaataaaa      1980
     cgaagctgcg ctcaaagctc acacataagc agttaaatga gattctgaaa ttagctgctt      2040
     ctcaggacat gatgcctaat attgatgcac ttgtgcaggg taaacgatgc caagtttcag      2100
     gggcaaatac taagcaagac gagtaattgc tgtgaaagtt attcacttgt tcaaattgct      2160
     ttcaagatgt tgaaaaaaca gtgtttttaa gttccacaag gctgtgacta aatgttttgc      2220
     aacattgtta ctatcactgt gatcagtttt atgcatcgcg cacttaaata aatgttaaga      2280
     cttatttagt tactaagtaa aagtgttgtt aaaattactt ttttaagttc ttaggttgtt      2340
     cataatgtat ttagtaaaag gaaaattcat ttaataaaga ttttttataa ttgacttctt      2400
     ctttgcacta attattagta ttagtgacta atacaaagaa aaaatngtgc ttattgttat      2460
     tgttcgatgt aattttgcaa tgagtttact ggcccggccc gcttgagatc anattaagct      2520
     gtattcggcc cccagaccaa aatgagtttg acacccctg                             2559
//
ID   CHAPLIN5_FR repbase; DNA; FUG; 2334 BP.
CC   CHAPLIN5_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN5_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN5_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2334
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 10 (2002)
XX
CC   CHAPLIN5 is an autonomous MER1-group DNA transposon. The protein 
CC   encoded by bp 592-2154 is 60% similar to the Charlie1 transposase 
CC   Most copies are internal deletion products (CHAPLIN5A) though and
CC   bp 592-2154 are not a consensus.
CC   On average, copies are 2.2% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2334 BP; 716 A; 483 C; 497 G; 637 T; 1 other;
     cagcgcttct caaatagtgg ggcgcgcgat gccagggggg gcgcgtgtga ccccggagaa        60
     catgtttttt ttttttgccg tactagaata aagtgtaatt gcacatcccg cgcgcacaca       120
     ccacagagca agagatagga agtgcagtga acaaaccacc aagagacagc atgaaaaaat       180
     acttaacagt gatgaaaaga aaggcggaga gagacggaga taatgagaca tacgaaagtc       240
     tcccgaaagc taagacgagg aaatatgacg aagcatatat agcgcttggc ttcactgcga       300
     ctacggtggg agacgaggaa agaccggtgt gtttactgtg tctaaaaatg ttggcaggac       360
     agcatgaagc caaataaatg aaggcgtcac ttaaagacat tacaccccag tcacgctgat       420
     aacnctaacc ctggttaacc ctaaccctgg ttaaccctaa ccctggttaa ccctaaccct       480
     ggttaaccct aaccctcact taaagacatt acaccccagt cacgctgatc agccgcttga       540
     gttttttcgg caaaaacgtg ccgaatattg gcaacaatca tcccgctttg tgaatgctac       600
     ttcagtaaac cagcgagcac agttggcatc atataaggta gcgtaccaaa tagctcagtg       660
     caaaaatccc cacaccatag cagaggagct gatactgcct gcagcaatag acatggtctc       720
     tgtcatgctg gatgaagcaa gtgctgcaaa aataaaaact atccctctgt ccaatgacac       780
     tgtcgccaga cgtataaatg acattgctga cgatcttaaa gaacagctgg tagataaact       840
     caaagacaaa cgttttgcct tacaatttga tgaagcaact gacagcaaca aagactgttt       900
     gttcattgct tatgtacgtt ttgacatgac aaactctgcc taatgctgag tggacacact       960
     gtgttataca cagagaagca ctggcatcaa gacacctttc ctctgaatta agtgaggtta      1020
     tgactgacat tgtaggtgta gtcaatttta taaagaccag accactaaaa acaagagtct      1080
     tctctgctat ctgtgaggag atgggagctg aacatcaagc tgtgctgttt cacagtgaag      1140
     caaggagtct tgtcccgagt ttttgagcag ataagaatgt ttttggagca ggagcacaag      1200
     tccgaagtcg cagaaaaatt tagtgatgag aactttctgg cgaaactggc ctacctgagt      1260
     gacatatttg gaaagctaaa ctaactaaat ctacagcttc aagggaaaga taaacacctc      1320
     cctcaggtca cagacaagat cagctctttc acccgaaagc ttgcaatgtg gggcagttcg      1380
     acttgatgaa ggacatactg attcattcga gaacctgcat gaatttgttg acactactgg      1440
     ctatgatgcc acttcagtga ttccacatat taagcagcac atttcatcac tgatgggatt      1500
     ctttaaaaag tacttccctg aagaaagttc ccagtatgac tgggtgagag atcctttcaa      1560
     tgcacaagtt ccaactggtt tcagctctgc agaggaggac cagttcattg acatgacgtc      1620
     tgactccacg ttgagactga agttcacatc acagacactg agtgaattct tgctgggtgt      1680
     agagaggcag tacccactct tggggcagag ggctatgggc atccttcttc cttttgcaac      1740
     atcttatctt tgtgagactg gcttctctgc tgttgctgca ctgaagacca agtacaggtc      1800
     ccagctaaac attgagcagg agctgagagt tgcagtatca tgcttcaaac cccgcttcga      1860
     aaagctgtgc actgcaaaac gtgctcattg tagccattaa tcctgacttc ctcattttca      1920
     taaaaaaagt cagcacaaat tgtttcattg agttaatgtt gctgatcaat ttaaatttat      1980
     tatcatttat tgattttatt tttcagtatc aaatggttca attagtcatt caaaaaagtt      2040
     tatagtttca ataagaattt tattttattt tgaatttcag gttaattgat gcactttata      2100
     tcgtttctgt tacagactaa aaaacaatgt taataaagct attctttgtt gtacgttggt      2160
     ctatatttct ttcttttttt gttttcttta atattaataa ggatacaatg ttatgcagag      2220
     gtgtacttat aacaatttca tagacaaatg atactaatta tagtcacggc ggggggcgca      2280
     aaatgttttc ttcttcctag ggggggcgta acagaaaata attgagaagc actg            2334
//
ID   CHAPLIN5A_FR repbase; DNA; FUG; 769 BP.
CC   CHAPLIN5A_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN5A_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN5A_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-769
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 9 (2002)
XX
CC   Common internal deletion product of CHAPLIN5_FR.
CC   On average, copies are 2.2% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 769 BP; 240 A; 166 C; 176 G; 186 T; 1 other;
     cagcgcttct caaatagtgg ggcgcgcgat gccagggggg gcgcgtgtga ccccggagaa        60
     catgtttttt ttttttgccg tactagaata aagtgtaatt gcacatcccg cgcgcacaca       120
     ccacagagca agagatagga agtgcagtga acaaaccacc aagagacagc atgaaaaaat       180
     acttaacagt gatgaaaaga aaggcggaga gagacggaga taatgagaca tacgaaagtc       240
     tcccgaaagc taagacgagg aaatatgacg aagcatatat agcgcttggc ttcactgcga       300
     ctacggtggg agacgaggaa agaccggtgt gtttactgtg tctaaaaatg ttggcaggac       360
     agcatgaagc caaataaatg aaggcgtcac ttaaagacat tacaccccag tcacgctgat       420
     aacnctaacc ctggttaacc ctaaccctgg ttaaccctaa ccctggttaa ccctaaccct       480
     ggttaaccct aaccctcact taaagacatt acaccccagt cacgctgatc agccgcttga       540
     gttttttcgg caaaaacgtg ccgaatattg gcaacaatca tcccgctttg ttggtctata       600
     tttctttctt tttttgtttt ctttaatatt aataaggata caatgttatg cagaggtgta       660
     cttataacaa tttcatagac aaatgatact aattatagtc acggcggggg gcgcaaaatg       720
     ttttcttctt cctagggggg gcgtaacaga aaataattga gaagcactg                   769
//
ID   CHAPLIN6_FR repbase; DNA; FUG; 2351 BP.
CC   CHAPLIN6_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN6_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN6_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2351
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 11 (2002)
XX
CC   CHAPLIN6 is an autonomous MER1-group DNA transposon. The protein 
CC   encoded by ORF 272-2164 is over 70% similar (over 583 AA) to the
CC   Mesozoic mammalian Charlie6 transposase.
CC   There are some 'subfamilies', some of which appear young (down 
CC   to 2% div), some older. Could indicate multiple invasions or, 
CC   less likely, evolution in the germline. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2351 BP; 679 A; 473 C; 580 G; 603 T; 16 other;
     cagtgttttt caaccactgt gccgcggcac accagtgtgc cgcgagatat tatcaggtgt        60
     gccgtgggaa attatcaaat ttttgtgcct gtgcggtcta gcgcctggca gagtaaccat       120
     gtagtactct tccataccag taggtggcgg caggtaggta gctaattgtt aattgcattg       180
     tgcttggaga caagcgaatt agtgacgcat cgatgccgcg gcaggtgacg tttacggtgg       240
     cgttgtggat agcgggacag cggtgagagt gatggatang tttttgaaga gaaaaaattc       300
     tggctctgaa ctggaccctg gacaaaatcc agacccagat gaaggcccca gtatgagtgg       360
     aggtcaaaag aaagcaaaga cggtgacgtc gagcaaagtt tctggcgcga ggcaatacaa       420
     cgaaagctat ctttcatttg gatttacttt taccggagat gcaacggcgc cgactccgtt       480
     gtgtttggta tgtggtgaaa agctntccaa cagtgctatg gtcccaagta agcttaaacg       540
     ccatctccaa acgaaacacc cttcacttca gaacaagaat gcngantatt ttgttcgcct       600
     gcgtgaacac acagagaaac aggcaacttt catgagaaaa accacaaagg taaacgagag       660
     agcccttaaa gctagctacc acgtcgctga acttgtagct aaatcaaaaa agtcccacac       720
     tgtggcagag anactaatac ttcccacctg caaagccatt gtaaatgaga tgctcggacc       780
     cgaagcggct aaagaaatag ccaaagtccc tctctcagat aacacgattt ccagacgtat       840
     tgatganatg tctgcagaca tcgaaagtgt ggttttggan aagatccgta tcagtaataa       900
     gtttgcattg caacttgatg agtctactga tatnagtgga catgctcagc tcttggccaa       960
     tgtgcgtttt gtggatggag atgcnatcag agaaaacttc ctattttgca aggcattgcc      1020
     agaaaaaaca acaggagagg aaatttttcg ggtcacatca gaatatcttg aaaaaggagg      1080
     acttaagtgg gaaaactgca cgagtgtctg cactgatggn gctgcagcca tggtcggacg      1140
     caccaaaggc tttgtaagca gagtgaagga aagaaaccca aatgtgatta ttacgcactg      1200
     tttcttacac cgcgaagccc tcgtagccaa gactttacca gcagacctcg ttcctgtgtt      1260
     ggatgatgtt gtgcgcatag taaactttgt gaagtcacga cctgtgaaaa gtcgcatatt      1320
     tgcggctttg tgtgaggaaa tgggagcgga gcataaagcc ttgctgtttc atacggaggt      1380
     ccgatggttg tcgcgcggca aggtgctggc ccgtgtttat gagctgcgag aggaacttaa      1440
     agtgtttctg acaaatgagg ggtccgatta cgcaaagctg cttgcangtg atgagtggtg      1500
     tgcaaggctg gcatacctgg cagatatttt tcatcatctg aatgaactga acacacgaat      1560
     gcaaggccga aatgaaaacc tgcttacaag tacagataaa ataaatggat tccgttcaaa      1620
     ggtgcaactc tggcagcagc atgtggaaag tggcaatctt gaaatgttcc cactcaccaa      1680
     taaatggcaa gatgttaata ctgctgcact gngtgagata atagttaaac atctgaaaac      1740
     tcttgaggag aagatgtcat tttatttctc ttcagcctcc acngagtgcc ttgactgggt      1800
     tagggaccca ttcagctcag catcagctgt tggaaaggac atgactttac aggagcagga      1860
     ggaactaact gaactgagac aagatcgtgg tctcaagcta agctttgctg atctaccttt      1920
     ggacagtttt tggttggcag ctgcnaagga gttcccnatg ctggccaaca aagctatttt      1980
     gacactgctc ccattttcca caacatatct gtgtgaggtg agcttttcaa gcctgactgc      2040
     tgtaaaaact aaaaacagag aaagactgag agctgtggag gaagagcttc gtgtgtgtct      2100
     ttcatcgatt cctgccagga tatcagctct gtgttcatcc aaacaggccc aggtttcaca      2160
     ctgagtgagt aaaaaatgtg aaagattata aaataccttt ttcgttttgt ttacttgatt      2220
     cctattcaag acnctataat ataacataat tcttcagtgt taaaataagc tttttttctg      2280
     ctggtggtgt gccgcgagat tttttcaatg aaaaaaatgt gccttggctc aaaaaaggtt      2340
     gaaaaacact g                                                           2351
//
ID   CHAPLIN8_FR repbase; DNA; FUG; 3160 BP.
CC   CHAPLIN8_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN8_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN8_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-3160
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 13 (2002)
XX
CC   CHAPLIN8 is an autonomous MER1-group DNA transposon. The protein 
CC   encoded by ORF 932-2767 is 63 similar to the CHAPLIN4 and >60% 
CC   similar to Charlie8 transposase.
CC   On average, copies are 5.5% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 3160 BP; 886 A; 647 C; 768 G; 849 T; 10 other;
     cagtggtctc aagctcgcgg cccgcgggcc aactgcggcc cccgggacga tagtttgtgg        60
     cccccacctt aatatgaaag tttaatgtta gtgcggcccg cgagtttgat atgaatggca       120
     ctttacagtg ttgtgtgcgg agctgaacga acccaccaat cacggtgggg tatatggctc       180
     tcgggggcgg gacatcggcc gggcttgttg cgaactcgtg acattacgcc tcctctcttc       240
     gaggaccaat cacagccctc gcggcgtccg agacacggag ccggattggt cctcgaagag       300
     agggggcgtt ccaaggtgga gagaagacgc tttgcatgtg gagaggaggc gctttgcaga       360
     gctctgccgc tttttctaaa cacggaactt tgtcttgtat aaaagtcgct tcacagcaaa       420
     ttttacaaat cagccgcttg tgcaactgtc acattttagt gttgatgcat gtgtgtgtgt       480
     tggtagggac tatgatggac ctctgctttc gcgtgggtga ggctacctga ctggcggcac       540
     cactaaatgt ccatcactct gtcgcagcca atgaaatagc ggcgcaatgg cgggttatca       600
     tagctccgaa tacatctcgg agtcggaacc tctcataaac aaaacgtgaa gtaatttaaa       660
     atagttttta ttaatgctac cacatgcgta gtatattgaa atatttatat tactaaatgt       720
     agattttcgc tatattaaaa taaaatggta aatattggta gggactattt tgtattcccc       780
     aaacattgat tgtgatatat ccctaccacc atccctatat aaacctacgc ccgtggtgtg       840
     tgtgagtgtg tgtgggggtg cgtcggctaa acactgaaac agaaacttca gtggcaccaa       900
     gtggaattat atagattaca cagccccaaa catgtctttt tcaaagcctg cagtgaagag       960
     aaaggtgggt gatgagcaca gacaatttca ggaaaagtgg gaaatgcaat atttctttgt      1020
     tgagcacagg ggcaccccga cgtgtcttat ttgcagagag aaagttgcag tgcacaagga      1080
     atacaatttg aaacgtcatt ncacaactag gcatgctgag gagtacgcaa aatgccaggg      1140
     agatgagaga gccaacgggg ttgccaatct taaaacangt ctnctgaggc aacaagattt      1200
     ctttaagaaa gcaaccaaag agagtgatgc agcagtcgaa gctagctacg tggttagtga      1260
     gatgattgct aaagcaggaa agccattcac agagggtgaa tttgtcaaaa agtgcatatt      1320
     agaggctgca ggtattgtct gtccagaaaa gaaagatcag tttagcaaca tcagcctttc      1380
     tgccaacacc atggcagagc gcatttctga cctgtcaagt gacatttatg atcaactntg      1440
     tgagaaagca aaatgtttca gtgtatactc agtcgctctt gatgagacca cagacatcac      1500
     cgacactgcc cagctcgcaa tatatgtccg tggtgttgaa gacaattttg aagttatgga      1560
     ggagttgctc acagtaattc caatgcatgg ccagaccaca gctcaggaga tatttcacca      1620
     gctgtgtgat gccattcaga atgccggttt gcnatggnag aggtttgttg gaataacaac      1680
     cgatggagcg ccatcaatga cagggagaaa aaatggactg gtggcacttg ttaaaaaaaa      1740
     actggaagag gagggtgtgg aagaggccat tgctctgcac tgcattatcc atcagcaggc      1800
     cctttgcagc agatgcctga agtttgataa tgtgatgtct gtcgttgtga aatgcatcaa      1860
     ccacatcaaa tccagggntt taaagcacag aaggttctgt acttttttag aggagatgga      1920
     atcagaatat ggagatgtgc tctacttcac tgaggtacgt tggctcagca ggggaaacat      1980
     gctgaagaga ttttttgagt tgagagaaga agtgaaagcc ttcatggaga aggatggggt      2040
     ggctgttcct gtgctgagtg atcccaaatg gctcatggac ttagcttttc ttgttgacat      2100
     aacacatgag cttaatgtac tgaacaagaa gttacaaggc caggggcaac ttgtcagtgc      2160
     tgcctatgac aacgtgagag cattcnccac aaaacttttg ttatggaaag cccaggtctc      2220
     tcaggcaaac ctttgccatt tcccagcatg caaggcactc atggatgcag gcacaccatt      2280
     cagtgatcag aagtatgttg atgtaatttt gaagctgcag gaggaatttg aacacagatt      2340
     cgcagacttc aagacgcaca gagccagatt tcaaattttt gcggacccct tctcctttga      2400
     tgtgcaagat gcccctcctg tgcttcaaat ggagctgatg gaccttcagt gcaactctga      2460
     acttaaagcc aagttcaggg aggtnagtgg aaaagcagac aagcttgggc aatttttgag      2520
     agaattgacc cccagcttcc ctgagctttc ccggatgttc aagcggacca tgtgcctttt      2580
     tgggagcaca tacttgtgcg aaaagctctt ctccaccttg aacttcaata agttcaaata      2640
     caggtccaga cttactgatg agcatcttca agccctactg agggtctcaa ctgcttcctc      2700
     cctcaagcca aatgtggctc ggctatgcga gaggaagcgc tgccaggtct ctagcagcaa      2760
     gaagtaggca agagaagcca tgttcagaac agttcatgtt caatgttcca ttcatgttca      2820
     gaaagttaaa ggttaaagaa ctgttaatac agacatttga aactgaataa taataattag      2880
     atttctctag tcagcaacta tgtgtggttt cttcagtctt ctatatctgc tgtattatta      2940
     tttatttatt tattantgat tgagtgattt attttcttat tcattcttaa gttgtttatt      3000
     tatttttcat cttattttgt gttaaaaaat aaaaataaag atatttgaga acattggaat      3060
     gtttttatca gagcttttct tgtggaaaac ctgatgcggc ccagcctctc ccagactctg      3120
     cctccagcgg cccccaggaa aattgagttt gagaccactg                            3160
//
ID   DONG_FR2  repbase; DNA; FUG; 1562 BP.
CC   DONG_FR2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Non-LTR retrotransposon; site-specific LINE; R4/Dong superfamily; 
DE   DONG_FR2.
XX
KW   Non-LTR retrotransposon; site-specific LINE; R4/Dong superfamily;
KW   DONG_FR2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1562
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 14 (2002)
XX
CC   The current DONG_FR2 consensus misses much of the 5' end and is 
CC   83% identical to bp 1891-3576 of DONG_FR
CC   On average, copies are 20% diverged from the consensus. 
CC   DONG_FR2 may be ancestral to DONG_FR, though few intermediates 
CC   are obvious in the Fugu genome. The consensus may be build of a 
CC   variety of subfamilies. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1562 BP; 479 A; 373 C; 449 G; 238 T; 23 other;
     ctgntgttct gtataggcct gaacccctct gagccagatc actaaaaaga ctggctatgg        60
     ataccagctg caaaatgggg caaccatcag ccacctcctc tacatggatg acatcaagct       120
     gtatgccaag agcgagcgag acattgactc nctgatccac accaccagga tctacagcaa       180
     tgacatcggg atgtcattcg gtctcgacaa gcgtggncga atngtaacca naagagggag       240
     ggtagtcggg actgaaggag tcggactacc agatgggaac atcgcagatg tcgaggacag       300
     ctacaagtac cttgggatcc cgcaggcaaa tgggaacctt gaggaggcta cnaggaagtc       360
     ggccacagcc aaatacctcc agagagtaag gcaggtcctg agaagtcagc tgaatggaaa       420
     gaacaaaatc cnggcaataa acncctacgc cctgccgntc aaatcagata ccccgctggt       480
     ataataanct ggccggagga ggagatagag gccactgaca taaagacaag aaagctcctc       540
     ncantgcatg tgagggttcc accccaagtc cagcaccctg aggctgtaca cnaagcggaa       600
     ggagggaggc cgaggaccag tgagcatcag agccactatc caggatgaaa cgacaagatc       660
     aatgagtaca tcagaaagat ggcccccgga gacnagntgc taagtgaata cctcaggcag       720
     cagaaacccg atggggaaga acagctggaa ccatcatggg aggacaagcc cctgcatggc       780
     acgtnccacc gccaaactga ggaagtggct gatatcggaa atcctaccag tggctggaaa       840
     aggctggact gaaagacagc acagaggcac tgatcatggc agcacaagaa caggctctga       900
     gcacaagagc gatagaagcc gggatctacc acaccaggca agatccaagg tgcaggctgt       960
     gcaaagaagc ccctgagaca atccagcaca taacagcagg gtgtaagatg ctagcaggta      1020
     aagcgtacat ggaacatcac aaccaagtag ctggcatagt gtacaggaac atctgtaccg      1080
     agtttggact ggaaactccg aggtcaaagt gggacacacc tccaaaggtg gtggagaatg      1140
     accgngctaa gatcctgtgg gacttccaga tacagactga caaacaggtg atggcgaacc      1200
     agccggacat tgtggtggtg gacaaagagc agaagagggc tgtggtgata gatgtggcag      1260
     tcccnagtga cagcaacatc aggaagaagg aacacgagaa actggagaaa taccagggtc      1320
     tgagagagca gntggagagg atgtggggng tgaagacanc agtgatcccc gtggtnatcg      1380
     gagcacttgg ggctgtgacc cccaagctgg aggagtggct ccagcagatc ccaggaacaa      1440
     catctgagat ctctgtccag aagagtgcag tgctaggaac agctaagata ctncgcagga      1500
     ccctcaagct cccaggcctc tggtagagga cccgagcttg aaggagaaac agaccgccca      1560
     gg                                                                     1562
//
ID   EXPANDER2 repbase; DNA; FUG; 3369 BP.
CC   EXPANDER2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   non-LTR retrotransposon; RTE superfamily; REX3_FR2; EXPANDER2.
XX
KW   non-LTR retrotransposon; RTE superfamily; REX3_FR2; EXPANDER2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-3369
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 15 (2002)
XX
CC   EXPANDER2 is a sister lineage to EXPANDER/REX3_FR, to which it 
CC   is 80% similar at the DNA level over the coding region. A full 
CC   coding open reading frame is present from 172-3348. 
CC   On average, copies are 6% diverged from the consensus, but 
CC   younger elements are present. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 3369 BP; 653 A; 850 C; 1181 G; 681 T; 4 other;
     tcctcctccg tgaaccatca ccttatcgtg gtggaggagt ttgcgtaccc taatgagcct        60
     gggagctatg ctgtccgggg cagtttgccc ctggtagggt ctcccaaggc agattggtcc       120
     taggtgaagg gtcagacaaa gaatggttca caagacccat catggaacat cnaaaaggga       180
     agccgcgtac ccggcccgga gggttaccgg ggccccaccc tggagccagg cctggggctg       240
     gggctcgatg gcgagcgcct ggtggccggg cctacgtcca tggggcccgg ccgggcccag       300
     cccgaaccag ctatgtggac actcccgtct ccagtggacc caccacccgc aggaggagca       360
     tgaagggtcc ggtgcagtgt ggattgggcg gcggaccaag gcgggggcct tggcggtccg       420
     atcctcggtt atggaaattg gctttcggaa catggaacgt cacctctctg gcggggaaag       480
     agctggagct tgtgggggag gttgagcgct accgactaga tatggtcggc ctcacctcca       540
     cacatagcgt cggctcggga acccaagtcc ttgagggggg ttggacactc ttctacgctg       600
     gagttgctca gggtgagaga cggagagckg gggtgggctt tttgcttgcc cccagactct       660
     ctagttcgac gttggggttc tcgcggtcga gcgaaagggt cgcttccctg cgccttcggg       720
     tcggggaacg ggttctgacg gttgtttgtg cgtatgcacc gaacaatagt tcagagtacc       780
     cgcccttttt ggaggaccta ggacggacgc tggacagtgt cccgactggg gactccatcg       840
     tgctgctggg agacttcaac gctcacgtgg gcaacgacag cgtgacctgg aaaggcgtga       900
     ttgggaggaa cggtctgccc gatcagaacc agagtggtgt ncagttattg gacttctgtg       960
     ctagtcgcag tttggccata actaacacca tgttcgagca taaggttgtt catcggtgct      1020
     cttggcacca tgacggcctg ggccgtaggt caatgattga cttcatagtc gtgtcagctg      1080
     atctgcggcc atatgttttg gacactcggg tgaagagagg agcagagctg tcaactgatc      1140
     actacctggt ggtgagttgg atcaggtggg gggggaagcc accgcgcgga cctggcaggc      1200
     ccaaacgctt agtgagggtc tgttgggaac gcttggtgga ggaacccgtc aggctggtct      1260
     tcaactccca cctccgacag agctttgatc gcgttccggg ggcggtaggg gacattgagt      1320
     ctgaatgggc catgttccgc tccgccattg tcgaggcggc tgtcgcgagc tgcggctgca      1380
     aggccgctgg tgctggtcgt ggcggtaatc cccgtacccg atggtggaca ccagaggtga      1440
     ggggagccgt caggctgaag aaagaggcct acaggtcatg gctggtctgt gggtctccgg      1500
     aagcagctga ccggtacagg ttggctaagc gggctgcggc cgagacggtc gcggaggcaa      1560
     aaactcgggc gtgggaggag ttcggtgagg ctatggagga agactttcgg tcggcaccga      1620
     gaagattctg gcaaactgtc cggcgcctta ggggcggcag gcggcaactc gctcacaccg      1680
     tgctaggtgt gcgtggggag ctgctgacgt ctcctggggc aattatccgg cggtggaagg      1740
     aatacttccg ggagctcctc aatcctacca acacgtatcc ncaaggagga acagagtcgg      1800
     gagaccagga ggtggaccat ccaatttccg gagcggaagt tgccgaggta gtgaaacagc      1860
     tgcctggcgg cggagctccg ggagcggatg agatccgccc ggggtatctt aaggctctgg      1920
     atgttgtagg gctgtcctgg ttgacacgcc tctgcaacat tgcgtggaca tcgggggcag      1980
     tgcccttgga ctggcagacc ggggtggtgg tccctatttt caagagtggg gaccagaggg      2040
     tgtgttccaa ctataggggg atcacactcc tcagcctccc tgggaaagtc tatgccaggg      2100
     tgctggaaaa gaggattaga tcgatagtcg aacctctgat cgaggaggaa caatgcgggt      2160
     ttcgccccgg tcgtggaacc acggatcagc tctttaccct tgctggggtg cttgagggga      2220
     gttgggagtt tgcccaacca gtccacatgt gctttgtgga cttggaaaag gcctatgacc      2280
     gggtccccag gagcatcctg tggggggtgc tccgagagta tggggtggat ggtcccttga      2340
     taagggccgt ccagtccctg taccgaagga gcaggagctt ggtccggata gccggttgta      2400
     agtcggactc gttcccagtg agggttggac tccgccaggg ctgccctttg tcaccggttc      2460
     tgttcataac ttttatggac agaatttcta ggcgcagccg gggagtggag ggtgtcgagt      2520
     tcggtgggcg gaagatctcg tcgctgcttt ttgcggatga cgtggttctt ctggcaccat      2580
     cgagcaaggg cctccaacac atgctggggc ggttcgcgac cgagtgtgaa gcggcaggga      2640
     tgcggatcag cacctccaag tcagaggcca tggtcctcgc tcggaaaaag gtagagtgcc      2700
     ttctccgggt cggggaggag gtcctgcctc aggtggagga gttcaagtat ctcgggatct      2760
     tgttcacgag tgagggtagg atggaacggg agatcgacag gcggatcgga gcggcgtcag      2820
     cagtgatgcg ggcgcttaac cgatctgtcg tggtgaagaa ggagctgagc cagaaggcaa      2880
     agctctcgat ttaccggtcg atctacgtcc cagtcctcac ctatggccat caacgttggg      2940
     tgatgaccga aagaacgaga tcgcggatac aagcggccga aatgagtttc ctccgcaggg      3000
     tggccgggct cagccttaga gatagggtga gaagctcgga catccgggag gggctcggag      3060
     tagaaccgct gcttctccac atcgagagga gtcagctggg gtggctcggg catctggcca      3120
     ggatgccttc cggacgcctc cctttagagg tgttccggac atgtcccacc gggaggaggc      3180
     ctcgtggccg gcccaggact aggtggaggg attacatctc tcgcctggct tgggagcggc      3240
     tgggggtccc cccggaggag ctgatggaag tggccgggga gagggctgtc tgggcatccc      3300
     tcctgaagct gctgcccccg cgacccggat ccggataagc gggagaaaac gaaacgaaac      3360
     gaaacgaaa                                                              3369
//
ID   FERVR1_LTR repbase; DNA; FUG; 581 BP.
CC   FERVR1_LTR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; endogenous retrovirus; ERV1 class; 
DE   FERVR1_LTR.
XX
KW   LTR retrotransposon; endogenous retrovirus; ERV1 class;
KW   FERVR1_LTR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-581
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 17 (2002)
XX
CC   Consensus for the long terminal repeat of FERVR1
XX
CC   [1] (Consensus)
XX
SQ   Sequence 581 BP; 177 A; 106 C; 138 G; 158 T; 2 other;
     tgtagtgaag ggtaaaagga aagtttccat gttaatgttt agttcccagt ttccagacta        60
     agtttccatg ttaatgtttt ccttccttac ggttgcaatg ttcgccttcg tgcttatagg       120
     cctgantgtg ntggtaacca agaggtcttt gtctgttcat ggcctgaaag tgggggtttc       180
     caagaagtgg gaatggctaa aggatattgt ctgtttaaaa aaaacatggg aaagtacacc       240
     taacctctga taagaatact aaaaagtaca taatggtgga aaacggggaa aaatggctaa       300
     atagaaggag gagcccgggg aggagtaaac ccaggctcca aattgtataa aagctggaga       360
     tttcttgcta gatttcagac ttagcccggg ctacttctca tgcatggtga attgtgaatc       420
     gacaataaac catcattgga ccgtaaacca gctgaccctg actcattatt cgacttcgtc       480
     gtggcaactc tgcttcaacc cattggcact ggcataggca ttctgactta ggaaaagtgt       540
     aagtttatta agtaatcaga cagagaggaa aagccacaac a                           581
//
ID   FERVR2_LTR repbase; DNA; FUG; 715 BP.
CC   FERVR2_LTR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; endogenous retrovirus; ERV1 class; 
DE   FERVR2_LTR.
XX
KW   LTR retrotransposon; endogenous retrovirus; ERV1 class;
KW   FERVR2_LTR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-715
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 19 (2002)
XX
CC   Consensus for the long terminal repeat of FERVR2
XX
CC   [1] (Consensus)
XX
SQ   Sequence 715 BP; 208 A; 112 C; 193 G; 192 T; 10 other;
     tgtagtgaaa aagggtaaca ggcataaggc ggcagaggca gaatgtgtgg ntgtngtgtt        60
     taacctttga nctaatggnt agaccntcgt agttaatgat tangcaggca aagcgtatga       120
     gaaatgtata cnagccattg tcactgtttg aacgcctgct atatgtatac gtgtcactat       180
     ttgaatgtct gctatgagat ggaaagttgt gtcactattt gaatgtctgc tatgagaagg       240
     aaagtccggg aaagttatcg gagggttaat ggaaagtccg gggaagttat cagagggtta       300
     atasaaaaga tgggaggttg tctgtttgaa caaggaggtg tctgttttaa aaaaaccatg       360
     taaggtacac ctgacttctg ataagtatgg aaaanggtac ttaacggtgg aaaatgagta       420
     aaaatagcta accagaagga ggagcccggg gcggggtagc cccaggctcc gaatagtata       480
     aaagaagggc aattcttgtc agngttcaga cttagcccgg gctacttctc atgcatggtg       540
     aattgtggat cgacaataaa tcatcgtttg gatcgtgaac cagctgaccc tgactcatca       600
     ttcgactttg ttgtggtatc cccgcacttc gattcgttcg gcactggcat aggtatattt       660
     gacttaatga gaagcataag tttgagtgtt ttagcgtagg ggaaaatcca ctaca            715
//
ID   FERVR_LTR repbase; DNA; FUG; 639 BP.
CC   FERVR_LTR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; endogenous retrovirus; ERV1 class; FERVR1_I;
DE   FERVR_LTR.
XX
KW   LTR retrotransposon; endogenous retrovirus; ERV1 class; FERVR1_I;
KW   FERVR_LTR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-639
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 20 (2002)
XX
CC   Consensus for the long terminal repeat of a FERVR retrovirus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 639 BP; 204 A; 111 C; 150 G; 168 T; 6 other;
     tgtagtaaaa ggtaaaggtt tctaaaagcc tgtttangca tgttcaggca gggtcaagga        60
     catctgatga ttggtgtccg tgatcaatga ttatccagac taaagtgcct aatcaatgtt       120
     tttctgttcc tgtgtgattg taatgtttgc cattatgctt actgggcaga aaaatgatgt       180
     taaaggccta aaaatgttga tganacaggg ggtttcagag gcgtggtaca aggacaagag       240
     gttgtccacg tangcaagag attgcctgtt ttaaaaaaat atggaaaggc gcatttagcc       300
     tctgataaga atgataaaan atacntaacg gtggaaaacg ggaaaaattg cataatgaga       360
     aggaggagcc cggggaggag taaacccagg ctccaaattg tataaaagct ggagatttct       420
     cgctagtttt cagacttagc ccgggctacc tctcatgcat ggtgaattgt gaatcntcaa       480
     taaaccatca ttggaaccgt gaaccagctg accctgactc atcattcgac tttgttgcgg       540
     caactctaca tcaacccatt ggcactggca taggcattct gacttaagaa aagtgtaagt       600
     ttattaaagc aattagacat agagtaaaaa gccacaaca                              639
//
ID   FUGUREP4A repbase; DNA; FUG; 366 BP.
CC   FUGUREP4A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Interspersed repeat; FUGUREP4A Unknown.
XX
KW   Interspersed repeat; FUGUREP4A.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-366
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 23 (2002)
XX
CC   FUGUREP4 has an unknown origin, though 4A has an internal 
CC   deletion with respect to 4B, reminiscent of DNA transposons.
CC   There are over 500 copies of FUGUREP4A and B in the Fugu genome 
CC   The average substitution level of copies is 18%. 
CC   FUGUREP4 is old and a copy is present at orthologous sites in 
CC   the Neoteleostei specific dystrophin intron of all Perciformes 
CC   species sequenced by Venkatesh,B. et al. PNAS 96, 10267-71 (1999)
XX
CC   [1] (Consensus)
XX
SQ   Sequence 366 BP; 119 A; 81 C; 64 G; 100 T; 2 other;
     aaactagaaa aaaagcactc ggagagcgca gacctccgcc aagcaggtca tttccccaca        60
     tattgtgact tacacccata gtatagtgta gtatatatag tatataggca gtagtaatac       120
     aaggttacat aacatagtag gttgctttat gatcaaagcc ccttggcttt gatctttgga       180
     agatcaaagg tcaaagtccc tccggaatcc ggaacatcac caaaatttaa tcanctnttc       240
     cttggcccat tatcaacatt tcctgaaaat ttcattaaaa tccgttcata actttttgag       300
     ttattttgct aacagacaga cagacaaacg ccggctgtca cataacctcc ttggcggagg       360
     taataa                                                                  366
//
ID   FUGUREP4B repbase; DNA; FUG; 609 BP.
CC   FUGUREP4B DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   FUGUREP4B Unknown.
XX
KW   FUGUREP4B.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-609
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 24 (2002)
XX
CC   There are over 500 copies of FUGUREP4A and B in the Fugu genome 
CC   The average substitution level of copies is 18%. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 609 BP; 184 A; 131 C; 117 G; 176 T; 1 other;
     aaactagaaa caaagcactc ggagagtgca gacctccgcc aagcagctca tttccccaca        60
     tattgtgact tacacccaaa actaatactc caattaattg gaataccttc aatgagtttg       120
     tctgccnccg tatattgctc gtcttgtatt cgagggttag cctcggtgaa aggattgctg       180
     attgaggcgg cagattatag actatgattc cgattagaga atcaaggcac ttggagagag       240
     atctgagttg tcttccttta atggaggttg ttcaacttaa aacaagcagc tcatttcccc       300
     acatattgtg acttacaccc atagtatagt gtagtatata ctgtatatag gcagtagtaa       360
     tacaaggtta cataacatag taggttgctt tatgatcaaa gccccttggc tttgatcttt       420
     ggaagatcaa aggtcaaagt ccctccggaa tccggaacat caccaaaatt taatgagctc       480
     ttccttggcc cattatcaac atttcctgaa aatttcatta aaatccgttc ataacttttt       540
     gagttatttt gctaacagac agacagacaa acgccggctg tcacataacc tccttggcgg       600
     aggtaataa                                                               609
//
ID   HP_FR1    repbase; DNA; FUG; 204 BP.
CC   HP_FR1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Putative non-autonomous DNA transposons; HP_FR1.
XX
KW   Putative non-autonomous DNA transposons; HP_FR1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-204
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 27 (2002)
XX
CC   HP_FR stands for 'HairPin in Fugu Rubripes' and could be changed 
CC   if it can be further classified.
CC   This sequence is 92% identical to its compliment. Unknown origin,
CC   but these structures generally are the remnants of DNA transposons.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 204 BP; 36 A; 59 C; 60 G; 46 T; 3 other;
     cggaggtcac cntctaganc aggggtgtcc agatccagtc ctcgagggcc gcagtccagc        60
     cgggttttct gtcccaccag gtgcactttc acctgggatt ccatttggtg aaagcgtttt       120
     ctgcctggta ggacagaaaa cccggctgga ctgcggccct cgaggactgg atttggacac       180
     ctctgctcta ganggtgacc tccg                                              204
//
ID   KOPI1_I   repbase; DNA; FUG; 2206 BP.
CC   KOPI1_I DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Copia superfamily; KOPI1_I.
XX
KW   LTR retrotransposon; long terminal repeat; Copia superfamily; KOPI1_I.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2206
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 29 (2002)
XX
CC   The product of ORF 121-1923 is 62% similar to the C-terminal part
CC   of the pol gene of TNT and RIR1 in Rice, and to other
CC   representatives of the Copia class of LTR elements. 
CC   The consensus is 5' truncated.. 
CC   Perhaps a dozen copies in Fugu, mostly as solo-LTRs (KOPI1_LTR). 
CC   On average, copies are 1.2 % diverged from the consensus
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2206 BP; 715 A; 346 C; 556 G; 582 T; 7 other;
     agccaagatg tatgttgatt gagagtaacc tgccaaaaga actctggaca tatgcagttc        60
     agactgctgc agctgtccgc agtagatgct acaacaagcg gacaggacag actccatact       120
     acatgctgac tgggaaagtg cctgatctga caagaatgaa atgttttggg tcggtatgtt       180
     atgtacacaa atataacaaa aggaagcttg actcacaaga atagtccggc atatctaatc       240
     ttctaccctg aaacagggag agtactcaaa aacaggttgg taaagtttat cagcaaatgt       300
     gtgaatgagt gtcagactcg gacagaccag gagactgaat acatcctgta tagggagagg       360
     ggtgaaacca cttttccaaa aaatgatgta gtgacaccaa tcacacagga aattaaagct       420
     gagatttgtg acacagacac cactacaggt gagggtgaga gtgttaaaaa tgcccgatat       480
     ccaaagaggg agaggagacc acctaagtac tataatgatt atgaatgcaa gatanaatgt       540
     gttgatgatg atgatggtca agggttaact gttgactact gttaccgggt tatgtcagat       600
     gcacctcgaa ctttgcagga ngccatgagc tcaccgaaat caaatttgtg ggttaaagct       660
     atgaaagatg aaatggactc tctgaaagaa aatgagacat ttacgctaac cacnttgcca       720
     gaaggtaaac atgcagtggg gggaagatgg gtttacactg taaaagaaaa tccggatgag       780
     acaaaaacat acaaagccag gtatgtagca aagggttata gtcgagttgc aggggttgat       840
     tataatgaan gcttttctcc aactgctagt atgacatctg tgcgcagtct gatgcagctc       900
     gcagtgcagc atggcttaga attgcaccag atggatgtta agactgcata cctgcatgct       960
     cctattgatt gngaagtgta catggagcag cctgatgggc ttgaagttaa gtcagagatg      1020
     ggtgagaaac tagtctgtaa acttaataga tcattgtatg gtctgaagca gtcgggacga      1080
     aattggaaca aaatgcttca tgattttcta tgtgaaaatg gttacagtcn aaacccggct      1140
     gaccattgtg tttatagtag acagactgca agtgagaggg ttatattgtt aatctgggtt      1200
     gatgaccttg tcattgctgc taatgacaat caaactgtga aaaatgtaaa agaaatgttg      1260
     ggagcaaaat ttagaatgaa agatcttggt gaactcaaac atttcttggg tattgatttt      1320
     gtgcaaagag gaggtgaaat aaagatgagt caaaaaaggt acattncaaa gattttggag      1380
     aggtttgaaa tgatcaactg tgaacctaga tttactccat gtgaaaacaa actgaaattt      1440
     gacaacgagg gtcaacctgt tgatcaaaag gaatatcgtg aggttgttgg cagtttgctt      1500
     tatgtcatga tatgtacaag accagatcta agttggattg taagcaaagt gtcacagtac      1560
     ctgtctggac caaaagaaca acattgggta acagcaaaac atgtgttgag atatttgaag      1620
     ggaactgtaa atcaggaatt gtgtttcaaa agaagtgatg taaatcttgt gtgtaaaaac      1680
     ttgtggcata tagtgatgca gattgggcag aagaccagaa tgacaggaaa agtacaactg      1740
     ggtactgttt tagtttgtct gagacagggc ctgttatttc ctggaagtca aggaaacagc      1800
     ccacagttgc tttatccaca tgtgaggcag agtacatggc cctggcagca acaactcagg      1860
     aaagcatgta tctcgtacag ctgtgaaatg gaatggactg tgacagtgaa tatgcaccag      1920
     tgacagtttt tgaggacaat cagggtgcta ttgctttgtc gaaaaatccg gtattgcgtc      1980
     agagatgtaa acatgtggac atcaaatatc attttgttcg gtctgctctc agtgatggga      2040
     aaatctgcat tgaatattgc ccaactgttg acatggtggc agatgtatta actaaacctg      2100
     taacaagggt caggatggat aagtttgtgt tttttatgtt tgggaggaag tgaaatgtat      2160
     gtcatgttac tgtagatctt gctgtcagta tcagatcaag tggggg                     2206
//
ID   KOPI1_LTR repbase; DNA; FUG; 204 BP.
CC   KOPI1_LTR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Copia superfamily; 
DE   KOPI1_LTR.
XX
KW   LTR retrotransposon; long terminal repeat; Copia superfamily;
KW   KOPI1_LTR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-204
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 30 (2002)
XX
CC   A (very short) consensus for the long terminal repeat of Kopi1.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 204 BP; 49 A; 51 C; 41 G; 63 T; 0 other;
     tgttaaactg ttgcagaatg tctgctactg ttcttgaatg tgccctcatg ctgacaccag        60
     tgcaccaggt gaagcaaatc ataataaatg actgatggct ttcctttgtg ccagttttct       120
     ccccagtcaa acaaagacca cgattgtgtc gtctcttact atgtgtaccc ggttatccag       180
     ctctttatga tggctgcgcc aaca                                              204
//
ID   KOPI2_I   repbase; DNA; FUG; 4042 BP.
CC   KOPI2_I DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Copia superfamily; KOPI2_I.
XX
KW   LTR retrotransposon; long terminal repeat; Copia superfamily; KOPI2_I.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4042
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 31 (2002)
XX
CC   A few young elements with surprisingly many deletions. Clear
CC   similarity to Copia-like proteins, but no full ORF. Very short
CC   LTRs. A third copia-like element is present currently with only
CC   one copy. Kopi1,2 and 3 are about 80% similar at the DNA level. 
CC   Copies of Kopi2 are <4 % diverged from the consensus
XX
CC   [1] (Consensus)
XX
SQ   Sequence 4042 BP; 1287 A; 708 C; 1009 G; 1012 T; 26 other;
     ggttatgggc ccagaaagga gcttggaagt cgatggaacc gtttatgttt tgacggagat        60
     gagaaaaact atgagctgtg ggaaacgaag tttctggcgc acctgcatct gcttaatttg       120
     aagagcacca tcctgagtga accgcctggt gaggccagcg aaggtgcagk agacgacgca       180
     gcgaaaaatg aggacgcgta tgcagaactg attcaactgt tggatgataa aagcctgtcc       240
     ctggtgatga gagacgcggc ggatgatggc agaaaggcgc taaagatttt gagggaacat       300
     tacgctggta aggggaaacc acgagtgatc agcctgtaca cggagcttac gtctcttcag       360
     aaaggcgtta atgagagcgt cacagattgt cattcgcgca gagactgcta ttacggcact       420
     gagaaatgcg gaagagactt taagtgatgg cttgttgatt gcaatgattc tgaagggcct       480
     gccggactca tttaagccat tttcaatcca cataacccaa agtgatgaaa agttaacttt       540
     ctcagagttt aaaacaaagc tgaggagcta tgagagcacg naaagtttaa tgctgcttcc       600
     tcagaggacg acagtgtgat gaaggtgaga ggaagagaca gcgggaacat gaaactgtcc       660
     tgttttaact gtggacagaa gggacacaag gccgtggagt gcacctctgc taagggcgag       720
     cacagagaac agagactggt gtcgtttttg caagagttcc acgcacaagg aggaggaagc       780
     aggcggtgga tgaggaggac cacacgtttg ctttcaaggt ggatgaagtg gatgaagtcc       840
     tggtcagcgg agtgaaggaa aaaggcctca tggttgatac aggagccacg tcacacatca       900
     gagacatcgc tcagttcaag gactttaaca gttttgagcc acacaagcat gtcctggagt       960
     tggctgatgg agagaggatc agcggtatcg ccctgaagaa aggtacagcc aaagttcgcc      1020
     tgagggacaa taaaggtcaa gtggtggaaa cgacgctgat tggggcgttg tacgtcccat      1080
     cttttccaca ggacatcttc tcagtcaagg cagcgacgtc ccagggagca acggtcatct      1140
     tcaaaggtca gaacagactt gttcacagga acggtgtaac atttgacatc caggtgtatg      1200
     atagactgtt ctatttaagc actgttacag atgacgttga tcaatgtcat gggtgttatg      1260
     atgatcaaac gtggcangaa attctaggcc actgtaatta tgaggatgtg ttaaagttgg      1320
     aaagtgtcac agaggggatg aaaattaaag gtaaaactga aatgtctaag ctgaaatgtg      1380
     aagtgtgcac acaaggnaaa tttgctcgga gcagaaatag ggaggcagat gaaaaagcaa      1440
     aagttgcact tgaacttgng cacacagatt tagccgggcc tatagagccg atagcaanag      1500
     atgggttcga ntacatctta gcattcacng atgactattc nggtgcaata tttacacatt      1560
     tcttgaaagc taagagtgat tacagtgaaa ggtacagaga agtccattgc tgatgttgca      1620
     ccttatggca aaattaaatg tattagatca gatgatggca ctgagtttac atccagagaa      1680
     ttccagtccc tgctcggcaa aaatgccatt agacatgaaa cctcagctcc ctattcaccc      1740
     cgtcagaatg ggacagctga gaggagctng agaactttgc ttgatatggc aaggtgcatg      1800
     ttaatcaaga gtagcctacc aaaaatgtta tggacatatg cagtccagac tgctgctgtt      1860
     attcgcaaca gatgttataa cagacgtgta ggacagactt cttattatat gctgactgga      1920
     angaagcctg atctttcaaa aatgaaaata tttgggtcgg tgtgctatgc atataaacag      1980
     aacaagaaaa agtttgactc tcgatgtgga aaaaggggtt tttgtttatg acaagaatag      2040
     ccctgcatat ctagttttct atccagactc ggggaaagtg atcaaanaca ngttgaagtt      2100
     tctcacaaag agtgtcattg aatgtcacac ncggacagat cagttaatga gtgaagatgt      2160
     tgtgcatagg gagagcgctg aaacccacct accaaaaact gagataacaa aatcaatccc      2220
     acaggaagtg aaaacggaag tgtctgtgtg acccaaatcc caacacaggt gaaagggtaa      2280
     gtgttgagag caggcgttnt ccacagaggn agaggagacc tccagtattt tagggattat      2340
     gagtatggaa taaaacgtga tgatgaccac gcactaacca gtattgatta ttgttataga      2400
     gttgcatgtg gtgtacccca aactctanag gaggctatga gctcaccaca gttagaacgg      2460
     tggggtaagg ctatgcagga ggagatgaat tctctgaggg agaataatac ctttactctt      2520
     acgacgttgc ctgaaggtaa anatacagtg gggggcagat gggtctacac agtcaaagaa      2580
     aacccagttg aaacgacata caaagctagg tacgtagcga aaaggttata gtcaagttgc      2640
     aggcattgat tataacgaga cttnttctcc aactgctgat atgacatctg tacgtagctt      2700
     aatgcatatt gcagctcaat atggtttaga actgcatcaa atggatgtaa aaactgcata      2760
     tttgcacgcc cctattgact gtgaaatata cagtacatgg aacagccaga aggatttgag      2820
     gtcaagtcag aaacgggtga gaagcttgtc tgtaaaccta acaaatcact ttatggtctg      2880
     aaacagtcag ggcggaactg gaataaaaaa tgctacatga tttcttaagt caaaatgatt      2940
     ttattcaaaa tcctgctgac cattgtgttt acagtaaaca aactggaaat gagaaaatca      3000
     tactggtaat ctgggtcgat cttattattg cagcgagtga caatcagaca ctcaaatgtg      3060
     gaaaaaaaat gctagaanaa aaatttaaaa tgaaagntct tggcaaactt gaacatttcc      3120
     tgggcattga ttttgcacaa ggaggnggtg aaataaaaat gaaccagaaa agatgcattc      3180
     agacaaaaat tttggagagg tttgatatga ctcactgcaa acnaangtca actccatgtg      3240
     aaaacaaact gaaattngaa aatgaaggtg aacctgttga tccaaagagn tatcgagaaa      3300
     tggttggtag cttgatctat gtaatgacct gtactagacc agacccaggt ttcattgtca      3360
     gtaagctgtc acaacactta tctgaaccaa aaaaacggca ctgggtagct gctaagcatg      3420
     tactgcgagt atttaaaagg aactgtgaac caagagttgt tacaggagaa atgatgtaaa      3480
     tcttaatctt tttgcattta gtgatgctga ttgggcagca gatcaaaatg acagaagaag      3540
     cacatctggt tactgtttta gtttgtctga aactggtcct gttatttctt ggaagtctaa      3600
     gaaacaatcc agttgctctt tccacatgtg aggctgagta catggctttg gcagctacta      3660
     cacagaaaag cctgtatctt gttcagttac taaacacaat ggatgatcaa tgtgattaca      3720
     caccggtgac aatttatgag gacaatcacg gggcgattgc tttgtctaag aaccctgtat      3780
     gccgtcaaag gtgtaaacat gttgatataa agtaccattt tgtttggtct gcacttgttg      3840
     atggaaagat aactattgaa tattgtccta cagcagacat ggtcgcagat attttgacca      3900
     aacctgtcac taaagctatg cttgatagat tcatgtgttt tatttttggt atgaagggtt      3960
     aaacgtgaag acaaatgtat taactgttct gtgtaaatgt gcatgacaat tgtatgttat      4020
     tcagcctaag agcaagtggg gg                                               4042
//
ID   KOPI2_LTR repbase; DNA; FUG; 243 BP.
CC   KOPI2_LTR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Copia superfamily; KOPI2_LTR.
XX
KW   LTR retrotransposon; long terminal repeat; Copia superfamily; KOPI2_LTR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-243
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 32 (2002)
XX
CC   Consensus for the long terminal repeat of Kopi2.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 243 BP; 48 A; 52 C; 61 G; 82 T; 0 other;
     tgttgaacat tgttgctctt gaatgcatcg tgctcttacg ctgaccattg tttaagggag        60
     tgtggttaat ttgtgtcagg tgttgcgaat caatcaggtg ttgcaaatca ataaatgact       120
     gcgtgcccct gctccgtcag tgtgtgtgtg catgccggtc aatgaaaccg atggctacat       180
     gcgtttgttc ctccgtcaag ttttagtcgg cgttccttcc cttttatgat ggcagcttca       240
     aca                                                                     243
//
ID   LTR2_FR   repbase; DNA; FUG; 209 BP.
CC   LTR2_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; LTR2_FR.
XX
KW   LTR retrotransposon; long terminal repeat; LTR2_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-209
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 33 (2002)
XX
CC   Only 7 copies found. No association with a full retrotransposon.
CC   The short length of the LTR may suggest a Copia connection (see 
CC   Kopi1 and 2).
CC   Copies are 1-3% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 209 BP; 61 A; 39 C; 47 G; 62 T; 0 other;
     tgtggtaaac ctgtttattg atgttaaatg ccttccaggc cactaggtgg gacaacgtgt        60
     tgtttactgt tcgggaaatt tcttgtgtag aagaaactag agcggaagtt agctatacct       120
     gtgtgctgac cgaaatcaat gctacctgtt cgagttcccg aaataaaata aattcttcag       180
     taagaagaag cctcctgcaa gttactaca                                         209
//
ID   LTR3_FR   repbase; DNA; FUG; 504 BP.
CC   LTR3_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; LTR3_FR.
XX
KW   LTR retrotransposon; long terminal repeat; LTR3_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-504
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 34 (2002)
XX
CC   Consensus comprises a variety of subfamilies.
CC   4 bp target site duplications.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 504 BP; 126 A; 121 C; 114 G; 142 T; 1 other;
     tgtagtatct gacccgttct atgcaggctt tacgtctgta aggccgtaat gtgtttaaca        60
     gccagcctaa gcaccatatt aggacatgct ccacatgtgt gtcctgtgtc ttcttccttt       120
     angtaagagg agctgctaaa agatgacgct ggagcctgtg ggcccctggt tgttctccat       180
     atgaggatgt gtagcatgaa gcatcttcac tattcccttt tttggtaata actgaacgct       240
     ataccattgg gttggccata ctgtatagcg tgaggtcatc agaaaagaat gtgtttactt       300
     gactgtataa gaaggaggta tcgatgtaga cacctcggag ttcttcacca tcgggaccgc       360
     gaaacctccc tcgggcaagc tgcagcgtcc gattgatacc tgactgttct ctccaataaa       420
     catctttgat aaccaagtcg gtgtctgcga agattccttc ctcatcaaca catctcggct       480
     accaccagga gaagattcac aaca                                              504
//
ID   PIGIBAKKU repbase; DNA; FUG; 2217 BP.
CC   PIGIBAKKU DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; piggyBac/IFP2-class; PIGIBAKKU.
XX
KW   DNA transposon; piggyBac/IFP2-class; PIGIBAKKU.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2217
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 35 (2002)
XX
CC   The sequence for PIGIBAKKU is not quite complete and not a 
CC   consensus as there are only three copies in the current draft 
CC   Fugu genome. Conceptual translation is up to 59% similar to 
CC   the Trichoplusia piggyBac transposase.
CC   The copies are 97% similar to each other. There are other 
CC   closely related Piggiback elements in the Fugu genome.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2217 BP; 672 A; 504 C; 564 G; 470 T; 7 other;
     catgttctgt gtaccacaca cacacacaca cacacacgca cgcacgcacc acacacacac        60
     agcaggccta gacaggagga ggacagagtg taggtacaca gaacatcaga gggtcaaatg       120
     tgcgagaaaa tgagagcaga cagtgttgac aaacaatgtt gcaacattgt ctgggaaccg       180
     caggtgcaga aacacaaaag ctttgccagt gtggtttctt atcacaaccg atcaagatgg       240
     ccaaaaggna ctctgcgcag agggccctgg aattgatttt ggaagataga gaagtttttg       300
     atgatgatgt agagggagag gattcagaag aagaggtttc agaatttgag gatcacattt       360
     ctgaaaattc agagtctgac agtgactctg aagaagatga tgagattgag catcagccag       420
     ttccaaaaca aagacgagcc acaggaccag gccgtcagca gccatcccca ggaccagaac       480
     aagccagtca gcatggtggg gaaatatgga tgtcaaaaaa ttctgaaatc gaatggtctt       540
     ctcgnccaag aaaagggccc ccccacaagg ctgccaatgt gatcaggatg cagccagggc       600
     cagacatggc agttactcac acacgggaca tcaagtcttt tgagcttttc atcccagatt       660
     ccatccagga aattattctt gactgcacta atttagaagg aagacgtgtt tttggagaga       720
     ggtggaagga attggaccaa acccaattac acgcttactt cggagttctc atccttgctg       780
     gagttttcag gtccaaaggg gaatccgcag aatccctgtg ggatgcagaa actggcagag       840
     aaattttccg tgcaacaatg tctctggaaa actttcacat catttccagg attatcgctt       900
     tgacaactga gatgacagac cagctcgatg gcagagagac aaactaggtg tcatcaggac       960
     cgtgtgggac aagtgggtgc gccgcctccc cctgctgtac aaccctgggc caaatgtcac      1020
     cattgatgaa cagctgatgc catttagggg ccgctgcccc tttctgcagt atttaccatc      1080
     taaacctgca aagaatggta taaagatctg ggctgcctgt gatgccactt cctcatatgc      1140
     ttggaactta caagtctaca cagggaaacc tgatggagga gcccccgaga aaaaccaagg      1200
     aatgagagtt gtcctcgaca tgtctcaggg actcagtgga cacaacatca catgcgacat      1260
     ttttttacct cgcacaaact gggacaggag ctcctgaaga ggaagctgac cattgtggga      1320
     acaataagga aaaacaggtc agagctccca cctcaactgc tgacttcaaa gaacaggcct      1380
     gtcaagtcat cccagtttgc atacacggct gacacatccc tggtatccta cgtgccaaag      1440
     aaaggcaaga atgtggtact catgagtaca ctgcacaggg atggaagaat gtgtgaccag      1500
     gaacatcaca aaccagagat catcatggat tataatgcca caaaaggagg ggtagacaac      1560
     atggacaagc tggtgacggc ctacagctgc aaacggagga ctctacgctg gccactggtg      1620
     atattctttg acatgttgga catctcagcg tacaatgcct ttgtcatttg gatggcactg      1680
     aacccagagt ggaaacgagt gaagctccag aaaagacggc tctttcttga ggatctggga      1740
     aaggcattgg tgagaccaca aatcgagaga agaaaacata tccccagaac cccagcctct      1800
     gcagccatgg tgaggaggat tcagaaggag aatgctggtg ccctgtccac ccaacctaca      1860
     gaaccacaat ctgcagagcc tgaagtaaat gtgtgatgct gttgcagtac atgtctggca      1920
     ctcatgtctt gtgtgagaga gagagagaga gagaggtaat aaaatccctg atcttttcat      1980
     tattctaggt tgtgaacagc agcaacaaga agaagcggtg cgaagtgtgc ggaccnaaga      2040
     tggacaggaa aacacaatat acatgcatca agtgcaaaaa gtatatctgc aacacacaca      2100
     cagtaaagct ctggccctcg tgtgtcgtat aggctngngg ccaaaggcca tgtgttcact      2160
     ggggtcaggc ccaggggctg atgtgttgtc ttgactgatn ngtttactct gtgttca         2217
//
ID   RONIN1_I  repbase; DNA; FUG; 4487 BP.
CC   RONIN1_I DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN1_I.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN1_I.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4487
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 36 (2002)
XX
CC   Closely related to Sushi and Samurai. Products of the gag-ORF 
CC   (pos 18-995) 54% and of the pol-ORF (1253-4405) 74% similar to 
CC   the respective SUSHI products.
CC   Average substitution level of copies is 6%, but half of these 
CC   are differences between subfamilies. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 4487 BP; 807 A; 1461 C; 1380 G; 815 T; 24 other;
     gtacgatctg gccagtaatg aacccagcgc acaacccgtc cccgctggac cgactggaac        60
     ggattgaggg aatcattcag cngcacgagg aggcggtggc ggctgccgcc gcggagacga       120
     gacgcgccgc ggaggcgaac gagcgggcgc tcgcggagct ttccggtctg ctcagccgac       180
     tgtcagcgcg cctggaaccg gcggcgcctc ccgcttcttc cgtacctgcg tcagctcctg       240
     taattctgca gcagggcccc gaacctcggg ttggcgaacc cgagcgctac gagggtaatc       300
     cggagtcctg cgacgccttc gtggtgaatt gctccctgct gttttccctg cagccccgca       360
     cgttcgctac tgaggcagcc aaggtagcgt acaccattac acatctcacc ggacgggcat       420
     ggctctgggg aacggccgag tgggagcgtc aatcggaggc ctgctccacc ttctccgcnt       480
     ttgctgccga gctccgcaag gtgttcgggc aggggaactc ccggtcctct gcaggacgtc       540
     gactgctggc gctccgccag ggagagaggt ccgtgtcgga ttactcnatt gacttccgca       600
     ccctggccag ccggagccag tggagccctg ccgcgttagt ggacactttc ctgcacggat       660
     tagcagccca cattaaggac gcaatggtgg cctacgacgt ccccagctcg ctggatgggg       720
     ccattgactt agcaacccgg gtggacctga gggttcaggc tcgtcggcgg gagagagctc       780
     cgcggcgaca cttcgcggag gcaggcgagc tctcgacggg agttcctcct cagcctgcag       840
     cgtcttccag agaggaggaa cccatgcagc ttggccgcac gtcgctcaca ggggaggagc       900
     gcaggcggcg gcgtcagttc aacctgtgcc tctactgcgg tggacaaggt catttcgtgg       960
     cgacctgtcc agtaaaagcc cagactcacc agtaactggg ggaatactgg tgagtcctat      1020
     ttctgcttcc cctcgacgac cccgcctttc actccaggtt cgcttcctac ttcccggggg      1080
     accacaggac ctagctgccc tcgttgattc tggtgctgac gcctgcctga tcggcggaga      1140
     ggtggctcgg cagctgggcc tcggacacga accactggcg tccgccatcc cagcccaagc      1200
     gttggacggg catcacctgg ggaacatccg tcaccggacg ggcccggtga caatgctgct      1260
     gcagggcaac caccgggagg agatacgctt ccacatcctg gagggggcgc actttccctt      1320
     ggtcctgggc tacccgtggc tccgccgtca caacccgcaa ctcgactggg agacagggga      1380
     gatcctgggg tggggagcag actgtcaccg gtcctgcctg gtgccagcgc cagccctgag      1440
     ggggacctcg gctcctgacg tcacgccccc agatctggcc ggggttccag agcagtacca      1500
     cgacctcgcc gaggtgttca gcaaggcccg ggcgacctcc cttccaccgc accgaccgta      1560
     cgactgcgcg attgacctcc tcccaggcac cgcaccaccc aagggaagac tctactccct      1620
     ctctgaaccg gagcgaaagg ccatggagga gtacatctcc agttctctgt ctgccgggct      1680
     gatccggccg tcctcctctc ccgcaggtgc ggggttcttc tttgtggaga agaaagataa      1740
     gtctctgcgn ccctgcatcg actaccgggg gctcaacgaa attaccgtga agaaccggta      1800
     cccgctgcct cttgtcgcct ccgcctttga actgctccag ggggcnactg tcttcacgaa      1860
     attggattta cggaacgcct accacttggt tcgcatacgg gagggcgacg agtggaagac      1920
     ggcgttcaac accccggccg gccactacga gtacctngta atgccctttg gattgaccaa      1980
     cgcaccggcc gtctttcagg ccttagttaa cgacgtnctc cgggacatgt tagaccggtt      2040
     tgtctttgtc tacctggacg acatcttgat cttttcnaaa ggactcaagg ancacgtgca      2100
     gcatgtgcgg gcagtactgc agcggctact ggacaaccgg ctgttcgtaa aagccgagaa      2160
     gtgccagttt cacgccccat cggtgtcctt cctcggnttc atcattgcgc cggggagcat      2220
     ccagatggac ccggggaagg tctcggcggt cgtggactgg ccgcgccccg agtcccgcaa      2280
     gcagctgcag cgattcctgg ggttcgctaa tttctaccgg cgcttcattc gaaattatag      2340
     ctccgcngca ggnccactca cgncgcttac cagcaccaag acggggtttg cttggacccc      2400
     agaggcggac gcagcattcc gggagctcaa gaggcggttc gcgactgccc ccatcctgca      2460
     actgccagac cctagccgcc agttcgtggt cgaggtggac gcctccgaca cgggggtggg      2520
     agcggtgctg tcacagaggg ctcaggagga ccagaagctg cacccgtgcg cgttcttctc      2580
     ccgccgcttg acgccagcgg aaaggaatta cgacgtggga aatcgggagc tgctcgccgt      2640
     caagctggca ctggaggaat ggcggcactg gctggagggt gctacgctgc ctttcatcgt      2700
     gtggacagac caccgcaacc tggaatacat tcgaacagcc aagaggctga actcccggca      2760
     ggctcggtgg tcactgtttt tcactcggtt tgactttacc ctttcctacc gcccagggtc      2820
     ccgcaacggc aaggcagacg ccctctctcg acagttcgcg gggaaggagg acgaaggccc      2880
     tgggaggacc ccggagaaca ttcttccctc cccgtgtatc gtggcagcag taacctgggg      2940
     gatcgaggag agagtccgga gggcggctgc caatcaacct gggcctagca cctgccccaa      3000
     caaccggctc ttcgtgcctg actctctcag ggcngaggtc ctggagtggg cccacgcgtc      3060
     tcggctggcc tgccaccctg gagcacgtcg gacggcgggt ctgctgaagc agaggttttg      3120
     gtggccctcc ctgggggagg atgtccagga gttcgtcaac gcctgccccg tctgcaacca      3180
     gcagaaacaa ccacgccgag cncctgccgg gctactgcaa cctctgccgg ttccgcgtcg      3240
     accctggaca cacatcgccc tggacttcgt caccgggctg ccccagtctg cggggaacac      3300
     tgtcattctg accatcatcg acagattcag caagatggct cacttcgtgc ccctgcctaa      3360
     gctgccgtcg gcaaaggaga ctgcccaact tgtgatccag cacgtcttcc ggcttcacgg      3420
     cctaccggag agtgtggtgt cagacagggg ccctcagttt gcctctgtct tttggaaaga      3480
     gttctgcggg catctgggag ccaccgccag tctgtcctca ggattccacc cgcagaccaa      3540
     cggccagaca gaaagganna atcaggacct ggagacggcc ctccggtgca tggcgacacg      3600
     ggacccggcc acatggtcga cctttctggg ctgggtcgag tacgcccaca actccctgat      3660
     cagctcggcg acgggaatgt cgccgttcca gtgtgtttnc ggataccaac cccctctgtt      3720
     cccggcacaa gcaggcgaag cgtcttgtcc ctctgcagca gcttatgccc gccgctgcag      3780
     gcggacgtgg gcccaggctc gggccaatct tctgagggcg ggcgcccggt acgaggcggc      3840
     ggccaaccgg caccggaccc cggcccccag atacagagtg ggacaacgcg tgtggctatc      3900
     cacgcgggac ctgccncttc ggggtgattc caggaagatg gccccgcggt tcgtgggacc      3960
     attccccatc gtcagagtca tcagcccggc ggcagtcaga ctccggcttc cccggtcaat      4020
     gcgcgtgcac cccaccttcc acgtttctag gattaagcct gcccacgaga gccccctggt      4080
     cccggatcgc ccggccccac ctcccccgcn gctagtggat gggggcccgg catacacngt      4140
     cagtcggctc ctgcgctcca gaccccgcgg caggggtctc caatacctgg tcgactggga      4200
     gggttatgga cctgaggaga ggtcctgggt accggcacgn cacatcctgg acaaggagct      4260
     aattcgtgac ttccacncca gacacccgga tcagccttca cgacccagga gagtaggtcg      4320
     tgccagacct cggaggcccg aaccagangt ggaggcggag aacgaggacc gtgggttgga      4380
     gtcgtcaggg tcacaggagt tctgaccccc ccacccaccc ttccccagga gggcgaccct      4440
     ggactttgct tggggacgtc gggggccgtc ccttgagggg ggggctc                    4487
//
ID   RONIN1_LTR repbase; DNA; FUG; 309 BP.
CC   RONIN1_LTR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN1_LTR.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN1_LTR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-309
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 37 (2002)
XX
CC   Consensus for the long terminal repeat of RONIN1.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 309 BP; 46 A; 107 C; 71 G; 85 T; 0 other;
     tgtcacagct gcgggcaatc atgcccgtga gtcgcttcgc cccgcacacc tgttgtgcat        60
     caggacacta atgagccccc ttcttaatcc ccggaggcac acctgctccc tgccagatcg       120
     ttattcgtgt cccgatgact ttccagcgta ttcctgtctg cctgcctgcc cggtcccgac       180
     cttgcctgtc cccgaccatt ctgttctgct cgctccccgg tgaatcctgt ctgttgtctg       240
     tgtccgacaa taaagcggtg ttcagccaaa ctcgtgtgtc gcatttgggt tctcatctgg       300
     tccctgaca                                                               309
//
ID   RONIN2_I  repbase; DNA; FUG; 4344 BP.
CC   RONIN2_I DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN2_I.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN2_I.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4344
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 38 (2002)
XX
CC   Closely related to Sushi and Samurai. Products of the gag-ORF 
CC   (pos 17-994) 59% and of the pol-ORF (~1260-4329) 73% similar to 
CC   the respective SUSHI products. 
CC   Average substitution level of copies is 10%, but this reflects 
CC   the existence of multiple subfamilies 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 4344 BP; 718 A; 1450 C; 1280 G; 848 T; 48 other;
     ttacattcca accaggatgg acccggcgga tcaggacgca gtgcgccgta cgttggaggc        60
     tcagggaagg ttgctgggcc agcacgacca gcttcttacg gacatctgga cctcgcttca       120
     gaccctaaat gccagtgtga cgaacctgct ttcctctgga cggncggagc agggtccgcc       180
     tccgccaccc gcggaggcgc cgagagtcgc tccgcagctg gtggccgccg cgccgcggga       240
     gccccacgtc cccatcccgg agcggtattc tggtgaggcg ggtgcgtgtg ccagcttttt       300
     gctccagtgc tcnctagttt ttgatctcca gcccctcacc taccccagcg acagggcaaa       360
     gatcgccttc gtcgtaaatc ttctctccgg gagagcggcg cnatgggcca cagccgttct       420
     ggagaaccag acncccgttt cctccagttt tccggccttc acggcagaat taaaacgggt       480
     gttcgaccac cccgtccaga gcagtgaggc ggcctcccag atcctgtccc tgcgccaggg       540
     ttccagttca gtcgcggact actccatccg tttccgcatc ctcgctgccn ggagcggctg       600
     gaatgacgcg gcgcttcggg gagtcttcac gcaggggctc tccgacgacc tgaaggatga       660
     gttagccgcg agggaggagc ccgggaactt ggaggcgctc atcggcctgg ctactcgctt       720
     ggacaatcga ctccgggaga ggcgtcggca gaggacgagc gagcgggcgg tgagaaactc       780
     agggagcgtc tccaggcnga gggaagcccc cgtggactcg tcagcctctg tccccgttcc       840
     agcccctgag gttcctccca gcgaaccgat gcagttgggc cgaactcgtc taacccngtc       900
     agaacgtcag cgccggcgcn cggcaggtct gtgcctttac tgtggccacg cgggccattt       960
     cctcgccgac tgcccggtgc ggccaaaaga ttaagctcgt caacaccggc aggagtgttg      1020
     gcgagcggat cctcatcctg ctcacctccg gcccgcctaa ccctgtcggg cacgctcctt      1080
     tggggtcagg agnctgtttc tgcggccttc ctggtggact cgggcgcgga tgacaacttt      1140
     atcagccngg acctggcccg gcaggcccgc cttcccgtcg agacgctgcc cgaaccgaag      1200
     accattctgg gtctcgacgg ggaggtcctg gccaggataa cgcaccggac ccagacgatn      1260
     accctcgtcg tttctgggaa tcatcgggaa cagatccgnt tctncctcat ccggtcctcc      1320
     tcttccccag gagtcctcgg ggctccgtgg ctagctcgac acaaccctca gatcgactgg      1380
     tcggccggga ggctggtgag ctggagtgtt gcctgccaca ccagctgtct tcgttcngcg      1440
     gtcaccccct cttcagcggt cccgnttccc gcccaggaga ccccngacct gtcccgggtc      1500
     ccgaaggagt accattgcct gggcgaggtc ttcagcaagc agcgtgcact ctcccttccg      1560
     ccccatcgcc cgtacgactg cgccatcgat ctcctccccg gagccgcctt accgtcaagc      1620
     cgnctgtaca acctctccag ggcggagcgn gaggcgatgg agagctatat tggggagtcc      1680
     ctngcatccg gnctgattcg gccctcctcc tctccagttg gggccgggtt cttcttcgtn      1740
     caaaagaagg atggtacgct gcgcccctgc atcgattatc gggcgttgaa cgagatcacn      1800
     gttaggaaca agtatccact gcccctcctc gacgcagcgt tcgcccctct ccaccgggcc      1860
     caggtctttt ccaagctgga tcttcgcagc gcgtaccatc tggtgcggat tcgngagggg      1920
     gacgagtgga agacggcttt caacaccccg ttgggacatt tcgaatacct cgtgatgcct      1980
     ttcggactta ccaacgcccc cgccgtgttt cagtccctna tcaatgacgt gctccgggac      2040
     atgctgaata agttcntttt tgtctacctg gatgacatnt tgatcttttc cgagtcngag      2100
     gaggagcacg tccagcatgt ccggctcgtt ctccaacggc tcctggagaa ccggcttttc      2160
     gttaaggccg agaaatgcga gttccacacc tcctccgttt ccttcctggg gttcgtggtg      2220
     gcgcggggac agctttcacc ggacccggcc aaggtgaggg cggtgatgga gtggccaact      2280
     ccctcctccc gtagacagtt gcaacagttc ctgggctttg ccaacttcta ccgtcgnttc      2340
     atccgtgact acagcaaggt ggctgccccg ctcaccagac tcacctccac nttacaaagc      2400
     ttccgntggn ctcccgaggc cgaagccgcc ttcaacaggc tgaaaggcct gttctcgtcg      2460
     tcgcccgtcc tcgctcaccc cgaccccagt cggcagttcg tggtagaggt ggacgcctcn      2520
     gacgtgggag tcggggccgt cctgtcacaa aggagcgggg aggaccagaa gctccatccg      2580
     tgcgccttct tcagccaccg gctctcnccc gcggagcgga attacgacgt gggaaacaag      2640
     gagctcctgg ccgtggtcct ggcgctccag gagtggaggc actggctgga gggcgccgct      2700
     caaccntttg tcgtntggac ggaccataag aacctcacat acctccggaa cgccaagagg      2760
     ctcaactccc ggcaggctcg gtgggctctg ttcctaggga gatttcggtt cacgctnact      2820
     taccgccctg gctcgcgtaa ccngaagcct gacgccctgt cccgccagtt cgcctccgan      2880
     ccagtggaga cagacccgga ccccatatta cccctctcct gcatcctggg ggccgcatcc      2940
     tggcaggtgg aggagagagt ccgcgaggcc cngcaatcag ccccggaccc gggtggaggc      3000
     ccnccaaacc ggctgttcgt cccggaggca gtgcgttcgg aggtcctgca ctgggcccac      3060
     gcctcgagat tgacctgcca cccgggagtc agccgctcgt tacagttcct ccggcagcgt      3120
     ttctggtggc cctccatggc ccgggacacc aaggaataca tngctgcctg ccccgtgtgt      3180
     gctaggggga aggcatccca tcagccgccg gcaggactcc tccagcccct gggaattcct      3240
     cggcggccgt ggtcgcacat cgcagtggac ttcgtcaccg gccttccccc ttccgagggt      3300
     catcaggtcg ttctcaccgt ggtcgatcgt ttctccaagt cggcccactt cattccccta      3360
     cccaaactcc cgtcggcagc ngagaccgga gagctcctgg tccagcacgt tttccgcctc      3420
     cacgggttnc ctaaggacat agtgtccgat cgtggtccac agttttgctc gcaggtgtgg      3480
     agggccttct gttcggcgct gggagcttcg gtcagcctta cgtcggggta ccacccacag      3540
     gccaacgggc aggcagagag aacgaaccag agcctggagg acgccctaag gtgtgtggcg      3600
     gctcaagacc cgtcctcctg gagcacctac ctgccgtggg tggagtacgc ccacaactcc      3660
     ttggtctctg cntccactgg tctgtccccc ttcatggctt ccctgggcta ccagcctccg      3720
     ttatttgagg tccaggagga cgaagttgca gtaccntcgg tgcaggccaa catgcgccgt      3780
     tgcaggaggg tgtggaggca ggtccgcgcg gcactcctgc ggacctctcg tcgctctcaa      3840
     cnacaggcca atcgacaccg gacgccagct ccctcctatc agccaggtca gaaggtctgg      3900
     ttgtccacca aggacctccc actccaggtc gagtcccgga agctggctcc tcgcttcgtg      3960
     gggccctttg aggtggagcg gatggtgaac cccgcagccg tccgcctgaa gcttcccccg      4020
     gcgtttaaga tacaccccac cttccatgtc tccaaggtga agccagtcgc ggagtcggat      4080
     ctggttcccc cgtccgancc tccgccccct ccccgcattg tggatggggg gcctgcctat      4140
     acggtccgga gtatcctgga cgtccgccga cgaggtcgng gtttccagtt cctggtcgac      4200
     tgggaggggt acggtccgga ggagcgatca tgggttcccc gccggttcat cctggacaac      4260
     agcctcctcc gcgacttcta ccgcgcccac ccagacaagc ctggaagggc gcccggaggc      4320
     gcccgttgag ggggggggta atgt                                             4344
//
ID   RONIN2_LTR1 repbase; DNA; FUG; 408 BP.
CC   RONIN2_LTR1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; 
DE   RONIN2_LTR1.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily;
KW   RONIN2_LTR1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-408
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 39 (2002)
XX
CC   Consensus for a long terminal repeat of RONIN2.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 408 BP; 65 A; 111 C; 124 G; 106 T; 2 other;
     tgttggggtc cagggttccg ggttgtgttt ggtttttcct gcagggggcg tggaggagcc        60
     gatattggca acagctggcg ctgcaggcag gcgcacctgt cggcaatctc catcaggcca       120
     cctatttaag gagggagcgc ctgcctacca gcgtcggagt gttttggtgt cttccctgct       180
     cgtttgaggt ctccacgccg ccctgctgga ctggngaacg cgcaggaccc gactcccgtg       240
     ttggctccgc gcctggagct ctctgtgcgc cccggaagac tggacgagtg cttccctgcg       300
     gtccaggagg actgccagtt tgagtttgtt aaataaagac tagtttttgg actttttatc       360
     actgcgttct tgcctgcttt cgggtcctgt aaaaacccaa ncctaaca                    408
//
ID   RONIN2_LTR2 repbase; DNA; FUG; 486 BP.
CC   RONIN2_LTR2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; 
DE   RONIN2_LTR2.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily;
KW   RONIN2_LTR2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-486
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 40 (2002)
XX
CC   Consensus for a long terminal repeat of RONIN2.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 486 BP; 79 A; 132 C; 139 G; 135 T; 1 other;
     tgttggggtc cagggttccg ggtcgtgtgt tgttgtggtc ctgcttgttt cttcctgcag        60
     ggggcgtgga ggagccgata atttgctaca gctggcgctg caggcaggcg cacctgtcgg       120
     caatctacat caggccacct atttaaggac ggagcgcctg tctaccagcg tcggagagtt       180
     ttggtgtttc cccatggtag agctgactcc tgtttcctca tcattggttg tttgcaactc       240
     gttgatacgc ttctccctgc tcgttcgagg tctccacgcc gccctgctgg actggagaac       300
     gcgcaggacc tgactcccgt gttggctccg cgctggagct ctctgtgcgc cccggaagac       360
     tggacgagtg cttccctgcg gtccaggagg actgccaaat tgatctttta ataaagactt       420
     ggtttttgga cttttcccac tgcgttttgc ctgctttcgg gtcctggaaa aaaccnaaac       480
     ctaaca                                                                  486
//
ID   RONIN2_LTR3 repbase; DNA; FUG; 664 BP.
CC   RONIN2_LTR3 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; 
DE   RONIN2_LTR3.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily;
KW   RONIN2_LTR3.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-664
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 41 (2002)
XX
CC   Consensus for a long terminal repeat of RONIN2.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 664 BP; 76 A; 175 C; 206 G; 202 T; 5 other;
     tgttggggtt cngggttgtg tctggttttg tcctgcaggg ggcggtgtgg agcacaattg        60
     gcggcagctg gcactgcagg caggcgcacc tgtaggcaat ttacatctng ccgcctactt       120
     aagcaggttg cgcctgcctg tcagtgccag ggtgttgtgt ggctttccct tgtgtggttg       180
     gtggtgggag tgttgcggct tccttgtcgc gtgttggtgt ggctttgctt ggtcctggag       240
     ggctgcttct gcttcttccc tgcacgttcg aggtcttcat gccgtctgct ggaccggaga       300
     gcgtgcngag cctgtctccc gagttctctg cagtccnggg ggactgcttc tgttcccgag       360
     gactccctgc ggtcctggag gactgcttct gttcccgagc tccctgcagt cctggaggac       420
     tgcttctgtt cccgagttct ctgcagtcct ggagggctgc ttctgttccc gagttctctg       480
     cggtcctgga ggactgcttc tgttcccgag ttctctgcgg tcctggagga ctgcttctgt       540
     tcccgagttc tctgcagtcc tggaggactg ccagtttgag tttgttaaat aaagactagt       600
     ttttggactt tttaccactg cgtcctggcc tgctttcggg tcctgttaaa acccaancct       660
     aaca                                                                    664
//
ID   RONIN2_LTR4 repbase; DNA; FUG; 395 BP.
CC   RONIN2_LTR4 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; 
DE   RONIN2_LTR4.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily;
KW   RONIN2_LTR4.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-395
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 42 (2002)
XX
CC   Consensus for a long terminal repeat of RONIN2.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 395 BP; 55 A; 103 C; 104 G; 130 T; 3 other;
     tgttgggttc tgggaggttg gttacggttt tcttcctgca gggggcgtgg tggagcttct        60
     cccctgccgc agctggagcc gcaggcagac gcacctgcgg gctatcagta atctagtccc       120
     ctatttaaag cctgtactcc tgtttgccag tgttggaatg ttttgtccct tncgcgaaac       180
     cccgactctt tgtgattttg ccttttgtga ttttgnctat tgtgattgga ctatcgtggt       240
     gagtttcccc cgtggactgt ttgctggatt cttccgaggt ctcgacgcct cttgtggatc       300
     gttcgttngc ctgttgcctc caataaaagt ttttcggaca ccaccctcca ctgtgtgctg       360
     cctgctttcg ggtcctggta caactgctcc taaca                                  395
//
ID   RONIN3_LTR repbase; DNA; FUG; 449 BP.
CC   RONIN3_LTR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN3_LTR.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN3_LTR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-449
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 44 (2002)
XX
CC   Consensus for the long terminal repeat of RONIN3.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 449 BP; 65 A; 114 C; 113 G; 155 T; 2 other;
     tgtcagggtc ctgggtgttt gtcttggtgt tctttggttg ttttccctgt tcctgctctg        60
     ttctttctcc agggggcgtg gtggagccac tttcctgcag ctgtcgctgg tgacagtcac       120
     acctgctgcc tattgctaat caactggcta tttaggccct gggctcctgt tcaccagtgt       180
     cggatcgttt cgtcagtgtt gtggtaaacg tggactcggt tatttgccct cttgttcgag       240
     attcaggagt tgtaatcgtt tttgttctct gctcaaggtc accacgcctc cctcctttgg       300
     aaaaggaacg agcaggatct tttccccgtg ccgagcgtgt ttttccccgc tgcgttcgag       360
     gcttcttttg gtttcaataa acccttttgt gagacctagt tggctgnttc ctgtctgcat       420
     tcgggtcctg atcaaactaa accntaaca                                         449
//
ID   SENKUSHA1A repbase; DNA; FUG; 940 BP.
CC   SENKUSHA1A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA1A.
XX
KW   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA1A.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-940
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 46 (2002)
XX
CC   SENKUSHA1a is a common internal deletion product of SENKUSHA1.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 940 BP; 297 A; 178 C; 175 G; 288 T; 2 other;
     ggctgtttcc gaaaccacac actcgttccc tattcactac tcactacatg ggggacatgg        60
     attgagtgaa ctacgtagcg cactcaattt aaagttagcn ttcggacact acggcgtcat       120
     ttacggcgca cgtaaaatga cgtcatggtg tcgcataata attacgaacc ggtcgccggg       180
     aaaagtggcc aggtccattt aattatttta acccatccga aacaacattc agcggtcgtt       240
     ttatgaaaat gcaatatttt accctataat taactttata taataaaata aaatattaat       300
     gtcaataata atanaataat aattacttat tacctaaaat aattagtgtc ccttgacatt       360
     ttcaagccaa gacgtgatgg cacattctca agtcatattc cgctgtagtg aaaacattta       420
     ataaagcaat ttttcatcaa gaaatggatc cagagctact tttcatcttt gtaaatattc       480
     ttttactgag atcctgtcgc ctggtgagga acagacgatt ccgaagaaca attttaagtg       540
     aggggcgggg gatcagtgaa gattgattga tttttttttt tttacacatt tatgttgtaa       600
     tattttaaga tgatcatatt ggacccctac tgaaaaaaat tgtaaactac acattgattt       660
     cttatttccc aaaaatttca tatatcaaac cgcacagtag aaattacgtt aaaaaatgta       720
     tcccatcagc atcacgtgat accgtaaagg ctgatgggat acattttccg agttagggtg       780
     catcgcttgt acactacttt tcgcagtgca ttgtgggata cattgagtgc actacatagg       840
     gtacagcgat gctcactaac aattcggaca ctatttcaaa atggcgtcca cactattgag       900
     tgcactatgt agggtatagg gggtggtttc ggaaacagcc                             940
//
ID   SENKUSHA1B repbase; DNA; FUG; 439 BP.
CC   SENKUSHA1B DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA1b.
XX
KW   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA1b.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-439
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 47 (2002)
XX
CC   SENKUSHA1b is a common internal deletion product of SENKUSHA1
XX
CC   [1] (Consensus)
XX
SQ   Sequence 439 BP; 122 A; 90 C; 102 G; 125 T; 0 other;
     ggctgtttcc gaaaccacac actcgttccc tattcactac tcactacatg ggggacatgg        60
     attgagtgaa ctacgtagcg cactcaattt aaagttagta ttcggacaac ggcgtcattt       120
     acggctaaag tgaaagaatt tgacgcttta gtatgaaatg tgaaacaaac agcggacaat       180
     acatacattt gtaagtcatc tctccttgtt tacccgccat tgatagattg tcacgtgata       240
     ccgtaaaggc tgatgggata tattttccga gttagggtgc atcggttgta cactactttt       300
     cgcagtgcat tgtgggatac attgagtgca ctacataggg tacagcgatg ctcactaaca       360
     tttcggacac tatttcaaaa tggcgtccac actattgagt gcactatgta gggtataggg       420
     ggtggtttcg gaaacagcc                                                    439
//
ID   SENKUSHA2A repbase; DNA; FUG; 1184 BP.
CC   SENKUSHA2A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA2A.
XX
KW   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA2A.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1184
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 48 (2002)
XX
CC   SENKUSHA2A is very young and may still be active; on average 
CC   copies are 1.7% diverged. There is no long ORF, but BLASTX and 
CC   wise comparisons show strong homology to the Harbinger 
CC   transposase. Because the termini are not always complete in each 
CC   copy, the duplication pattern is unclear. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1184 BP; 306 A; 241 C; 245 G; 388 T; 4 other;
     taagaacawt gggccagatt cacgaagcgt tcttacgaac aaatttgttc ttaagtccca        60
     cttacgaaca ktttacgaag attgtggcat tcaccaattt cttcttatcc tggatttatk       120
     cgtaggtaag aacaaatcct acgaacactc aggagtactc ttgcgcacat ttcagtgccg       180
     acatgttggc atggttgtgt tttcttctct tgtgcagttc aataaaattc aatattacaa       240
     tgataattct gtcatattta tttatttatt tgtttatttc ctatttttgg tgatttacgg       300
     agaattttaa aattacgtaa atgtgccaat gacttaacat taatcaacca aattggaaac       360
     catgccaaaa ctgtcttttt atttgatttt atcttgattt attttattag gggatcgagg       420
     atatgccctg gctccctggt tgttgacacc actgaccaac cctcagactc cacaggaagt       480
     tttattcaat cagatgcatg cgcgcagtcg ctccaccatt gaacgcacca tcggcatgtt       540
     aaaggggcgc tggatgtgtt tggacacaga gccacaaccc cgtgaggatg tgcgtcctga       600
     cgcaatgatg gggccagact gcaggcacgc ggttcacgtt cgagcgcgat taattgcccg       660
     tttgtgaata aaatgcatta ttgtcacaat ccgagcacag cttttacacg tttatttttt       720
     ttacattctt atttttttta cattctcgtt gatttcttta agcgtgttgg ctatagtcat       780
     cagggttgag gcaattttat caagcgtgtt agccatcctt tcttgattgt tcaacacggc       840
     gtcagaaatc aggcgtggag aggcaagctt tgggcatttc gctttgggca tttggctgct       900
     ttttgctctg tctacagggt cctgctgcag ttccttttat gggcattagt gggcggtgac       960
     ttatgctaat cgtatgttaa ttagactcac ctggcacgcg ctttcaactt acgaacagat      1020
     ggcattcatc aatctaagaa cacagctgcg aacaattctg gggcttacga acgcgttgat      1080
     gaatccgacg tagggttttc ttaagaaact tcttaagaac aacttaagaa agaatctaag      1140
     aagattctta agaacatatt ggtgaatctg gcccawtgtt ctta                       1184
//
ID   SINE_FR1A repbase; DNA; FUG; 289 BP.
CC   SINE_FR1A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINE; tRNA; MER6; Mermaid; SINE_FR1A.
XX
KW   SINE; tRNA; MER6; Mermaid; SINE_FR1A.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-289
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 49 (2002)
XX
CC   SINE-FR1A is one of at least 2 SINE families in Fugu rubripes 
CC   that consist of a tRNA derived polymerase III promoter region 
CC   followed by a sequence homologous to the mammalian DNA 
CC   transposon family MER6. This combination is currently particular 
CC   to fish and named 'Mermaid' after one of the first described 
CC   elements. Usually, the 3' end of a SINE corresponds to the 3' 
CC   end of a local LINE-like element, on which element the SINE is 
CC   dependent for transposition. However, no LINE with a MER6-type 
CC   3' end has been described so far, and we did not find any in 
CC   Fugu either. The function of the MER6 unit is currently unclear 
CC   Bases 1-75 are tRNA derived, resembling SINE_AF of cychlids. 
CC   Bases 181-306 (end) are similar to MER6. A SINE_FR1-like SINE is 
CC   found in Perch as well. 
CC   The average substitution level of copies is 12% (2 subfamilies). 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 289 BP; 70 A; 73 C; 93 G; 51 T; 2 other;
     gggcggtggt agctcagtct gttgggaact gggctgagaa gcggagggtt ctcggttcga        60
     gccccagkgc agacaaaaca tggaaggtgt tctggtagta ggggraggtg ccagaacacc       120
     ttcagagcac tgccgaggta cccttgagca aggtaccgaa cccacaaatg ctcatatagg       180
     gccctgcgat gaactggcga ctcatccagg ggtggaccct gccttcgccc attgtgtacc       240
     ctccccgtga ccccgaaagg gataaagcgg ttaagaagac gagacgaga                   289
//
ID   SINE_FR1B repbase; DNA; FUG; 290 BP.
CC   SINE_FR1B DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINE; tRNA; MER6; Mermaid; SINE_FR1B.
XX
KW   SINE; tRNA; MER6; Mermaid; SINE_FR1B.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-290
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 50 (2002)
XX
CC   98% similar to SINE_FR1A.
CC   Average substitution level of copies is 13%. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 290 BP; 71 A; 76 C; 94 G; 49 T; 0 other;
     gggcggtggt agctcagtct gttggggact gggctgagaa gcggagggtt ctcggttcga        60
     gccccagtgc agacaaaaca tggaaggtgt tctggtagta ggggaaggtg ccagaacacc       120
     ttcagagcac tgccgaggta cccttgagca aggtaccgaa cccacaaatg ctcacatagg       180
     gccctgcgat gaactggcga ctcatccagg ggtggaccct gccttcgccc atatgtgcac       240
     cctccccgtg accccgaaag ggataaagcg gtcaagaaga cgagacgaga                  290
//
ID   SINE_FR1C repbase; DNA; FUG; 307 BP.
CC   SINE_FR1C DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINE; tRNA; MER6; Mermaid; SINE_FR1C.
XX
KW   SINE; tRNA; MER6; Mermaid; SINE_FR1C.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-307
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 51 (2002)
XX
CC   95% similar to both SINE_FR1B and SINE_FR1D.
CC   Average substitution level of copies is 14%. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 307 BP; 78 A; 76 C; 98 G; 55 T; 0 other;
     gggcggtggt agctcagtct gttgaggact gggctgagaa gtggagggtt ctcggttcaa        60
     gacccggtgc ggacaaaaca tggaaggtgt tctggtagta ggggaaggtg ccagaacacc       120
     ttcagagcaa tgccgaggta cccttgagca aggtaccgaa cccacaattg ctcacatagg       180
     gccctgcgat gagctggcga ctcatccagg ggtggaccct gccttcgccc atatgcagct       240
     gggataggct ccagcaccct ccccgtgacc ccgaaaggga taaagcggtc aagaaaatga       300
     aatgaaa                                                                 307
//
ID   SINE_FR1D repbase; DNA; FUG; 302 BP.
CC   SINE_FR1D DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINE; tRNA; MER6; Mermaid; SINE_FR1D.
XX
KW   SINE; tRNA; MER6; Mermaid; SINE_FR1D.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-302
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 52 (2002)
XX
CC   95% similar to SINE_FR2.
CC   Average substitution level of copies is 17% (>2 subfamilies). 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 302 BP; 70 A; 80 C; 99 G; 51 T; 2 other;
     gggcggtggt agctcagtct gtaggggact gggctgagaa gcggagggtt ctcggttcaa        60
     gccccggtgc ggacaaaacw tggaaggtgt tctggtagca gggggaggtg ccaggacacc       120
     ttcagagcac tgccgaggta cccttgagca aggtaccgaa cccccaaatg ctcacatagg       180
     gccctgcgat gagctggcga ctcattcagg ggtgtaccct gccttcgccc atatgcagct       240
     gggataggct ccagcaccct ccccgtgacc ccgaaaggga tawagcggtc aagaaaaaga       300
     aa                                                                      302
//
ID   SINE_FR2  repbase; DNA; FUG; 389 BP.
CC   SINE_FR2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINE; tRNA; MER6; Mermaid; SINE_FR2.
XX
KW   SINE; tRNA; MER6; Mermaid; SINE_FR2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-389
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 53 (2002)
XX
CC   SINE_FR2 has a separate origin from SINE-FR1a-d, as the tRNA 
CC   derived region is dissimilar. It matches tRNA-Gly-GGA (83% bp 
CC   10-70). The MER6-like region (bases 80-350) is ~84 % similar to 
CC   that of SINE_FR1.
CC   Average substitution level of copies only 3% (including CpGs). 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 389 BP; 70 A; 93 C; 127 G; 99 T; 0 other;
     gggcggcacg gtggtgtggt ggttagcact gttgcctcac agcaagaagg ccccgggttc        60
     gatccccggt tgggactgag gctggggact ttctgtgtgg agtttgcatg ttctccctgt       120
     gcctgcgtgg gttctctccg ggtactccgg cttcctccca cagtccaaag acatgcatga       180
     ttggggatta ggctaattgg aaactctaaa attgcccgta ggtgtgagtg tgagagagaa       240
     tggttgtttg tctatatgtg ttagccctgc gattgactgg cgtccagtcc agggtgtacc       300
     ctgcctccgc ccattgtgct gggataggct ccagtccccc cgcgaccctc agtggaggaa       360
     caagcggtag aaagtgagtg agtgagtga                                         389
//
ID   TC1_FR1   repbase; DNA; FUG; 1220 BP.
CC   TC1_FR1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR1.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1220
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 54 (2002)
XX
CC   TC1_FR1 to 5 are TC1-like DNA transposon that are spread through 
CC   the phylogenetic tree of the Tc1-family. 
CC   Complete open reading frame from bp 148-1188. Its product is very
CC   (83%) similar to the transposase of an unreported Tc1 family in 
CC   Danio rerio (not Tzf or Tdr1). 
CC   On average, copies are 13% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1220 BP; 355 A; 269 C; 303 G; 290 T; 3 other;
     cactcaccgg ccactttatt aggtncacct gttcaattgc ttgttaacac aaatagctaa        60
     tcagccaatc acatggccgc aactcaatgc atttaggcat gtagacgtgg tcaagacaac       120
     ttgctgaagt tcaaaccgag catcagaatg gggaagaaag gggatttaag tgactttgaa       180
     cgtggcatgg ttgttggtgc cagacgggct ggtctgagta tttcagaaac tgctgatcta       240
     ctgggatttt cacgcacaac catctctagg gtttacagag aatggtccga aaaagagaaa       300
     atatccagtg agcggcagtt gtgtggacga aaatgccttg ttgatgtgag aggtcagagg       360
     agaatgggca gactggttcn agatgataga aaggcaacag taactcaaat aaccactcgt       420
     tacaaccaag gaatgcagaa tancatctct gaacgcacaa cacgtggaac cttgaagaag       480
     atgggctaca gcagcagaag accacaccgg gtgccactcc tgtcagctaa gaacaggaaa       540
     gtgaggctac aattcgcaca ggctcaccaa aattggacaa tagaagattg gaaaaacgtt       600
     gcctggtctg acgagtctcg atttcagctg cgacattcag atggtcgggt cagaatttgg       660
     cgtaaacaac atgaaagcat ggatccatcc tgccttgtat caacggttca ggctgctgct       720
     ggtggtgtaa tggtgtgggg gatattttct tggcacactt tgggcccctt agtaccaact       780
     gagcatcgtt taaacgccgc agcctacctg agtattgttg ctgaccatgt ccatcccttt       840
     atgaccacag tggacccatc ttctgatggc tacttccagc aggataatgc accatgtcac       900
     aaagctcaga tcatctcaaa ctggtttctg gaacatgaca atgagttcac tgtactccag       960
     tggcctccac agtcaccaga tctcaatcca atagagcacc tttgggatgt ggtggaacgg      1020
     gagattcgca tcatagatgt gcagccgaca aatctgcagc aactgcgtga tgctatcatg      1080
     tcaatatgga ccaaaatctc tgaggaatgt ttccaacacc ttgttgaaag tatgccacga      1140
     agaattaagg cagttctgaa ggcaaaaggg ggtccaacct tttactagca aggtgtacct      1200
     aataaagtgg ccggtgagtg                                                  1220
//
ID   TC1_FR2   repbase; DNA; FUG; 1602 BP.
CC   TC1_FR2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR2.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1602
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 55 (2002)
XX
CC   TC1_FR2 is very similar to a Tc1 element found in Salmon, and 
CC   also close to TC1_FR1 and TC1_FR3
CC   This consensus has a complete open reading frame from bp 319-1344.
CC   There appears to be a bias for insertion in TA simple repeats
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1602 BP; 389 A; 389 C; 400 G; 424 T; 0 other;
     cactgctcaa aaaaattaga ggaacacttt ttaatcagag tatagcaacc tatcagtcaa        60
     acttctggga tattgatctg gtcagttaag tagcagaggg ggttgttaat cagtttctgc       120
     tgctttgttg ttaatgaaat caacaacagg agcatcagag gggcaacaat gagacggccc       180
     ccaaaacagg aatggctttc caggttgagg ccactgatac ttttttccct cctcatctct       240
     tttggctgat tttttactga ctgactttct actgctgtag ttattcattt ggcttggatc       300
     aacatctctg ttgatagcat ggtgcggtac ctggacgcta cagaggttgc acaagtagtc       360
     caactcctcc aggatggcac atcaatacgt gccgttgcaa gaaggtttgc tgtgtctccc       420
     agcacagtct caagagcatg gaggagattc caggagacag gtagttactc caggagagct       480
     ggacagggcc gtagaaggtc cttaaaccct cagcaggatc ggtatctgct cctttgtgca       540
     aggaggaaca ggatgagcac tgccagagcc ctacaaaatg acctccagca ggccactggt       600
     gtgaatgttt ctgaccaaac aatcagaaac aggctccatg agggtggcct gagggcccga       660
     cgtcctgtag tgggccctgt gctcactgcc cggcaccgta gagctcgatt ggcatttgcc       720
     atagaccacc agaattggca actacgccac tggcgccctg tgctcttcac cgatgagagc       780
     aggttcaacc tgagcacatg cgacagacgt gaaagggtct ggagatgccg tggagaacgt       840
     tatgctgcct gcaacatcat tcagcatgac cggtttggtg gtgggtcagt gatggtctgg       900
     ggaggcatat ccctggaagg acgcacagac ctctacaggt tagataatgg caccctgact       960
     gctattaggt atcgggatga aatccttgga cccattgtca gaacctacgc tggtgcagtg      1020
     ggacctgggt tcctcctggt ccacgacaat gcccgacctc atgtggctag agtatgcagg      1080
     cagttcctgg aggatgaagg aattgatacc attgactggc ccccacgttc acctgaccta      1140
     aacccaatag aacacctctg ggacattatg tttaggtcca tccggcgccg ccaggttgat      1200
     cctcagactg tccaggagct cagtgatgcc ctggtccaga tctgggagga gatcccccag      1260
     gacaccattc gtcgtctcat taggagcatg ccccgacgtt gtcaggcatg cgtacaagca      1320
     cgtgggggcc acacaaacta ctgagaatca ttttgagttg ctacaatgac attttggcaa      1380
     aatggaccag tctgctgcat cattttttca ctttcatttt tggggtgtct ttgatttccc      1440
     ccctctatag ggtgatcatt ttcatttcta tcaaattatg tggcatcatt ttgttactaa      1500
     tacatcacct actttttatc aggaaagata ttcaagatca ttttcccccc cgtttagatc      1560
     tgatgtgttt tcgaagtgtt cctctaattt ttttgagcag tg                         1602
//
ID   TC1_FR3   repbase; DNA; FUG; 1248 BP.
CC   TC1_FR3 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR3.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR3.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1248
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 56 (2002)
XX
CC   C1_FR3 belongs to a group of Tc1 elements so fra lmited to fish, 
CC   which also includes TC1_FR1 and TC1_FR3.
CC   Complete open reading frame from bp 345-1166. 
CC   On average, copies are 6% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1248 BP; 341 A; 283 C; 324 G; 297 T; 3 other;
     cactatattg ccaaaagtat ttggccaccc atccaaatga tcagaatcag gtgtcctaat        60
     cacttggccc ggccacaggt gtataaaatc aagcacttag gcctggagac tgtttctaca       120
     aacatttgtg aaagaatggg ccgctctcag gagctcagtg atttccagcg tggaactgtc       180
     ataggatgcc acctgtgcaa caaatccagc cgtgaaattt ccttgctcct aaatattcca       240
     aagtcaactg tcggctttat tataagaaaa tggaagagtt tgggaacaac agcaactcag       300
     ccacgaagng gtnggccacg taaactgaca gagggggtca gcggatgctg aagcgcatag       360
     tgcaaagagg tcgccgactt tctgcacagt cagttgctac agagctccaa acttcatgtg       420
     accttcaaat tagcccacgt acagtacgca gagagcttca tggaatgggt ttccatggcc       480
     gagcagctgc atctaagcca tacatcacca agtccaatgc aaagcgtcgg atgcagtggt       540
     gtaaagcacg tcgccactgg actctagagc agtggagacg cnttctctgg agcgatgaat       600
     cacgcttttc catctggcga tctgatggac gagtctgggt ttggaggttg ccaggagaac       660
     ggtacatttc ggactgcatt gtgccgagtg tgaaatttgg tggaggagga attatggtgt       720
     ggggttgttt ttcaggagtt gggcttggcc ccttagttcc agtgaaagga actttgaatg       780
     ctccaggata ccaaaacatt ttggacaatt ccatgctccc aaccttgtgg gaacagtttg       840
     gagcgggccc cttcctcttc caacatgact gtgcaccagt gcacaaagca aggtccataa       900
     agacatggat gacagagtct ggtgtggatg aacttgactg gcctgcacag agtcctgacc       960
     tgaacccgat agaacacctt tgggatgaat tagagcggag actgagagcc aggccttctc      1020
     caccaacatc agtgtgtgac ctcaccaatg cgcttttgga agaatggtcg aaaattccta      1080
     taaacacact ccgcaacctt gtggacagcc ttcccagaag agttgaagct gtaatagctg      1140
     caaaaggtgg gccgacatca tattgaaccc tatgggttag gaatgggatg gcacttaagt      1200
     tcatatgtga gtcaaggcag gtggccaaat acttttggaa atatagtg                   1248
//
ID   TC1_FR4   repbase; DNA; FUG; 1631 BP.
CC   TC1_FR4 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR4.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR4.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1631
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 57 (2002)
XX
CC   Complete open reading frame from bp 357-1403. The encoded protein 
CC   is 72% similar to TC1 in Xenopus (TC1_XL), both fitting in a
CC   vertebrate specific group also containing TDR1 in Danio rerio and
CC   TC1L_SS in Salmon.
CC   On average, copies are 2.5% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1631 BP; 513 A; 316 C; 362 G; 439 T; 1 other;
     cagtggtatg agaaagtttg ggcaccccct ctgaggttgt gtaataatgg actctgactt        60
     cacacaaaat tatcttggtg gcatgtcctt catttgccca taagagccaa gtgttagctt       120
     gatttccaaa cacagatttt aagtattcat agtatgcaat tgtatgaaat taaatcaaat       180
     gtaaaaaata ggctgtgcaa aaatgtggga acccttgtca ttttgttgct ttgatggcct       240
     gtaactaatc atcacaagat aactggacac acaaagttgg tttggtgagc tcgttaagcc       300
     ttgaacttaa ttgacaggtg cataaaataa tgacaaaagg tatttaaggt ggccaaatgc       360
     cagttctcat tctgtttgac tctcctctga agagctgcaa catgggagcc tcaaaacaac       420
     tttctgatna cctcaaaacc aagattatcc agcattatgg tttaggggaa ggttacaaaa       480
     agctgtccaa aagatttcag ctgtcagttt ccactgtcag gaacattgtg aggaaatgga       540
     aggccacggg cacagttctt gttaagccca gaagtggtag gccaagaaaa attgcagaga       600
     ggcaaagacg aaggatggtc agaatggtta aaaacaaccc acagaccacc tccaaagact       660
     tgcaaggata tcttgctgca gacggtgtcg ctgtgcatcg gtcaacgata cagcacaatt       720
     tgcacaagga aaggctgtac ggaagagtga tgcggaagaa gccttttctt cacagtcgcc       780
     acaaactgag tcgcctgagg tatgcgaaag aacatttgga caagccaata tcattttgga       840
     ataagatact gtggactgat gaaacaaaaa ttgaattgtt tggtcacaac aagaggcgat       900
     atgcatggcg gcaaaagaac acagaattcg aagaaaaaca cctgcttccc acagtaaaat       960
     ttggtggagg ttccatcatg ctgtggggct gtgtggccag tgctggtact gggaatcttg      1020
     ttaaaattga gggtcgcatg gattccactc agtatcagca gattcttgag aataatgttc      1080
     aagagtctgt cacaaagttg aagttgcgcc ggggatgggt gtttcaacaa gacaatgacc      1140
     ccaaacattg ctcaaaatct acccgagcat tcatgcagag gaacaagtac aatgttttgg      1200
     aatggccatc ccagtcccca gatttgaata tcatcgagaa tctgtgggat gacttgaagc      1260
     aggctgtcca tgctcggaat ccttcaaaca tcactgaatt gcagaggttt tgccaggtgg      1320
     aatgggccaa aataccatca tccaggatcc agacactcat acaggctgtt atttttgcaa      1380
     aaggaggctc tactaaatac taatatgatt tttctattaa ggtgcccaaa tttatgcaca      1440
     ggcctttttt tgttttgggg catattgcac attttctgtt aacccaataa acctcatttc      1500
     actgctgaaa tatgattgtg ttcatcagtt atttgatata tcaaaattaa gttgtgaatt      1560
     aaaacaccca atgattggtg aataaaaata atgccaattg tcaagggtgc ccaaactttc      1620
     tcataccact g                                                           1631
//
ID   TC2_FR2A  repbase; DNA; FUG; 363 BP.
CC   TC2_FR2A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR2a.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR2a.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-363
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 63 (2002)
XX
CC   A non-autonomous element formed by internal deletion of TC2_FR2.
CC   On average, copies are 4% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 363 BP; 93 A; 83 C; 80 G; 107 T; 0 other;
     ccgtattttc acgaccataa ggcgcactta aaagtcttaa attttctcca aaatggacgg        60
     ggcgccttat aatgcggtgc gccttatgtg tgcaccgagt tccaaaatct gtaaatgctt       120
     ttcggctttc gcaaaagcca tttcggattc atttcgttcg tttcggatac agaagatgat       180
     gtacgtgagt acattgctaa atacacgcta gcatgcatgt tttaagctag cgtaccggta       240
     tgttttacca tgcccgcgcc ctataatccg gtgcgcctta tgtatgtgtt aaatacagaa       300
     atagcacccg taactgagac tgcgcctttt aatacggtgc gccttatggt cgcgaaaata       360
     cgg                                                                     363
//
ID   TC2_FR4A  repbase; DNA; FUG; 1392 BP.
CC   TC2_FR4A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR4a.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR4a.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1392
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 66 (2002)
XX
CC   Appears to be a non-autonomous element formed by internal 
CC   deletion of a TC2_FR4. With a 2% average divergence of the 
CC   copies, this element seems to be younger though (93 CpG forming 
CC   6.7% of dimers). 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1392 BP; 401 A; 292 C; 339 G; 359 T; 1 other;
     ccgtattttc acgactataa ggcgcaccta aaagcctaga attttctaaa aaatctacgg        60
     tgcgcctttt aacccggagc gccttttgta tggattacgg taatattggt taatcgcggc       120
     taccgtagtc agtaggcgtg gccgaggtaa cagcagtaaa ttcagtccca aaccatttct       180
     gtctgtaaag accccaaaat ggctccttgc aagagacgcg cttncgacgc agagttcaaa       240
     ctgaaggcta tcagtcacgc agttgaacac ggaaatagag cagcggcaag agaatttaac       300
     gtgaacgaat caatggtgcg gaagtggagg aagcaacaag acgacctgcg ccaggtaaag       360
     aagactcaac ggagcttccg aggaaacaaa gcaagaagtg gattaacaaa ggaactccag       420
     ccgctagata ttggtgtcaa cggggcattc aaagctagac tgcgaactgc gtgggagcgg       480
     tggatgacga acggcgaaca cacgttcacc aagacgggga gacggcgccg agcgtcatac       540
     gtcactatct gccagtggat cgtaaatgcc tgggcatcga ccgtggtccg agctttcggg       600
     aaggcaggga ttgtcactga aatgccagac aacaccagcg acaccgaccc tgatgacgac       660
     tttgacgaga cggagccggc catgttggac gccgtattcg cacaactgtt caattcggac       720
     accgaagaag aagaattcga gggattcctg gatgaggaat gaactgataa agtgatcttt       780
     acgtgtttct tttgtgtgtt tacaacttaa caaggctggt catactgtga atatggacat       840
     taccgtttga acaacgttgt tatattgcta ttgttatatt gctattgcta tcgctttgca       900
     ctacttcgag agttcgagtt accgtatatt gtgtttgcac taacgtttga tttaccgcaa       960
     cggtactacg tgataaaaat gttgcactaa atcgaagatt tattaaactc cactatccac      1020
     ttgtgataaa aatgttgcac tgcctgttat aactcgctgt tattaaacga actgtgttac      1080
     gcgaaaacac tacgtcactc gggaaaaata ataaaacagc tgtttattcg ttttgggagt      1140
     gaatagagtt gtgagaacga cggtttgtat tctattaata aagtttgact gacttatctg      1200
     gctgttttat tgacattcct tttagcgcag ctcgatctag tgaacgcgtc atgaaaccac      1260
     aggcactacg cagtttctat gctatgcgcc ttataacacg gtgcgccctg tgtatgaaaa      1320
     tatttctaaa ataggctgtt aattgaaggt gcgccctata atacggcgcg ccttatggtt      1380
     gtgaaaatac gg                                                          1392
//
ID   TC2_FR5   repbase; DNA; FUG; 2209 BP.
CC   TC2_FR5 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR5.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR5.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2209
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 67 (2002)
XX
CC   Complete open reading frame from bp 227-1557, with a product 70% 
CC   similar to that of TC2_FR4. Few copies to work with; last 200 bp 
CC   not a consensus. Has terminal ~100 bp sequences that are almost 
CC   identical to TC2_FR3.
CC   Copies are 2.5-4.5% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2209 BP; 632 A; 428 C; 565 G; 579 T; 5 other;
     ccgtaatttc cggactataa gccgctactt ttttcctaca ctttaaacac tgcggcttat        60
     tctacggtgc ggcttattta tgtatttttt ctatcggccg ctaggggcgc tcgagcagaa       120
     aaggtaagag tgagacaggt ggaatatatg tgtcgaggaa gacgcaagtt tagtgtaact       180
     tcgcgctttg tgtatgaata aaattagcat aaacagaccc tcatcatgga aaatgcaaga       240
     agaaatgcat atgacgcagc tttcaagtta aaagcaatcg agctggccga taaagaagga       300
     aacagagctg ctgcacgtaa acttaacata aatgaatcga tggtgagacg ctggaaacgg       360
     cagcgggaag aactggagca atgtaaaaag acgaaaaaag ctttcagagg taataaaagc       420
     aggtggcccg aactggaaaa cattcttgag gactgggtga gcacacaaag agcagatggc       480
     cgaggtgttt ctactgtgca gataagactg aaagcaaaaa caatcgccac cgaaaagaaa       540
     attcaggatt tcaaaggagg accgtcgtgg tgtctaagat ttatgaaacg aaaaggtctg       600
     tccatcagga cacggacaac tctgtgtcag caactccatc ccgaatacga ggaacaagtc       660
     gcaaattttc agaaattcat tcaaacaaag agagcagaga attccatcgg accagacaac       720
     atcataaata tggatgaggt acctctgacg tttgacctgc ccctcaccag gaccgtcaac       780
     aagaaaggtg aagcatctgt cacactgaaa acaagcggcc atgagaggac gcatttcacc       840
     tgtgttttgg gctgcactgc atccggaatg aagcttccac caatggtnat ttttaagcgg       900
     attactatgc caaaagaaaa actcccgaaa gacantgtcg tgaaagttaa nacgaaaggg       960
     tggatggtag agagcgtaat gaaagaatgg ttgaccgagt gttatggnaa gcgaccggga      1020
     ggattttttc atagaaaaaa agcgttagtc gttttggaca gcatgagggc ccatattaca      1080
     gattctgtga aagcagccat caaggggaca aactccatcc cagctgtgat tcctgggggc      1140
     acaacaaagt atttgcagcc acttgacatt agtgtaaatc gtgcattcaa agtggccctc      1200
     caagttgaat gggaggcttg gatgaccagc ggcgagaaat cgtttaccaa aactggccgc      1260
     atgcgaagag caacttttgc acaagtctgc cagtggatcc tgacagcgtg gagcggtgtg      1320
     aaaaaatcca ccatcaccaa cgggtttcga aaagccggtc tgctgcgtga cggagaggac      1380
     agcacaagct caggagtgaa tttgcctcag gatgagagtg acactgatag cgacaacgaa      1440
     agagagactg agagagtgtg tggcgaagaa tttctgacgc tattccaatc cgacactgag      1500
     gaggaagact tccatggttt cagtacacag gaggaagatg aagacagctc tcggtgactt      1560
     ttaccggtat gtttttttta accagccctg ttggtgctgt gctaccgtgt tgctgttatg      1620
     ttatgttact gccgcgtctg agtgactttt accggtatgt ttttttaacc agccctgtta      1680
     gtgctgtgtt actgccgtat tgctgctgtg ttactgccgc gtcacaggca ctgtttgaaa      1740
     agaaaagcaa aggtagtgta gcgtgttggg gagggtcagt gtgggaattt cccagcatgc      1800
     tttgtggcag tgtgtctgtg ggttcaggtt ggtgttaacc ctgtttttgt tcgttgtaaa      1860
     tgttatcttt tgcaactttc aatgttagtg ttctatttat tgagttctgg ttgttgatgt      1920
     atttaattac tgttttaatt actgtttgca cctgcacacc ataagccagg ttatgtgtgt      1980
     gattgaagac ctcccttcgt tgatgtgtct tctgttcagt gtttaataaa gtggctcttt      2040
     ctgcagttna actgcagaat aagctggcag aagtctgcgt ctgagttctt ccgcgaccta      2100
     tgtttcaatg cgagacaggt gcggcttgta taggtacaaa attaatttct ttctaaatta      2160
     gattatgcag gcttttaatc aggtgcgctc tgtagtccgg aaattacgg                  2209
//
ID   TC2_FR6   repbase; DNA; FUG; 1918 BP.
CC   TC2_FR6 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR6.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR6.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1918
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 68 (2002)
XX
CC   Partly non-consensus as only 3 copies are not the TC2_FR6a 
CC   internal deletion product
CC   On average, copies are 2.2% diverged from the consensus,
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1918 BP; 558 A; 375 C; 517 G; 454 T; 14 other;
     ccgtattggc ccgaatataa gacggtgttt tttgcgttga aataagactg aaaaagtggg        60
     ggtcgtctta cattcgcggt ctagacatta tacccattca caacgctaga tggcgccaga       120
     tatatttaaa gcgaatgctg aacttaacgt cccaggccaa agcgaacccc tgtcacgaag       180
     aagaaaaata aaaatagcgg tagcacgaag aagaaaaata aaaaatagcg gtaagaaaga       240
     aaagagaaga aaataagaga agagataaca gaaaatagag aaatgtagcg acaatctgga       300
     gaaaagtggg tcgaagatcg gccaggttaa ccggcanctg aggagaagtt atgacgcgaa       360
     cttcaagatg atggtgataa atgaggcgga gtcttcaaac aattgcaaag cggctgtgaa       420
     atatggtgtc acngagtgta acgtacggag atggagagcc caaaaagatc gcctaaaaaa       480
     cgctcacagt cagggaaaag ccttccgcgg tcctcagagc ggccgcttcc aggagctcga       540
     caggagggtg tgcgcgtacg tggacgggaa gcgaaaggac gggacgcgca tcagcagagc       600
     tgtcatccgg ctcaaggccg tggaaatagc cgaagagctg cagattccca cggctgagtt       660
     cagggcgagc ctcggctggt gcaagaggat ggtgcggcgg cacggactaa ggctgctcgc       720
     ccagcgcctg ccccctgact cttacctgga ccagattggc aatgctgatc agaaacctgt       780
     gttttttgac atgccaacac ctgtcactgt gcacgagaaa ggtgagaaat ctgttataaa       840
     atccaccgga aatgacgaga gccgcgttac cgtcatgtta gggagaaccg aactccctcc       900
     gtatgagggt ttaaaacgta agacggtacc taaggaggcg atgccagctg gcgttatggt       960
     acgggcccag gaaaagggct ggatggagac cgagcttgta gtggactggc tcaagtttgt      1020
     gtgggggggc tcagaaaaaa gaggaacatg ctgattctgg atgcattttg tggacacttg      1080
     tctgatccag tcanaaaaca agtgaaggcg atgaacggcg acttggtgat cattccgggg      1140
     ggggatgaca ggtcagctgc aggtgttgga tgttgtggtc aacaaaccat tcagagacaa      1200
     tctgccaaag aaatccncag agtggctcct gtctggtgat cacgcactca caccgacagg      1260
     agggatccag aagcctccgg tacgtttgct ctgtgagtgg atcctccacg cgtgggacgc      1320
     agtttcccca aagagcatca tccacgggtt taagaagtgc tgcntatcaa atgccctggg      1380
     gcagtgagga tgacgngctg aggatgggag ccagaggagc cagaggatgc cngnggagcc      1440
     aggagtnatg ttctgacatg gcagagctca gcnactctca agtttaaacc agtttgcatt      1500
     attttancgc aatgtttttc cttantcaga ttcgtttcag gactacagct acagntagac      1560
     tcnactttga tggttaatgc agttattgca attttgttgt tttatcacag tagattggtt      1620
     tatttacatt tcaaaaacca gaagccgttc atttacaaat gtgattgcac tttagtttac      1680
     atatttaaat gttcagatat taagatgtga tagacagttt ttgcatgatt tgaatgaggc      1740
     aaaataacat gctttttctc tcgaatatat tgttataatc atttgtttca gatgtactgt      1800
     aattattttc tgtataaaaa ttaaatttgg tgttcaaaaa gtcttttttc aaacttgagt      1860
     cttgaaaaag agggggtcgt cttataatca gggtcgtctt atattcgggc caatacgg        1918
//
ID   TC2_FR6A  repbase; DNA; FUG; 462 BP.
CC   TC2_FR6A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR6a.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR6a.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-462
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 69 (2002)
XX
CC   A non-autonomous element formed by internal deletion of TC2_FR6.
CC   On average, copies are 2.2% diverged from the consensus,
XX
CC   [1] (Consensus)
XX
SQ   Sequence 462 BP; 174 A; 68 C; 105 G; 115 T; 0 other;
     ccgtattggc ccgaatataa gacggtgttt tttgcgttga aataagactg aaaaagtggg        60
     ggtcgtctta cattcgcggt ctagacatta tacccattca caacgctaga tggcgccaga       120
     tatatttaaa gcgaatgctg aacttaacgt cccaggccaa agcgaacccc tgtcacgaag       180
     aagaaaaata aaaatagcgg tagcacgaag aagaaaaata aaaaatagcg gtaagaaaga       240
     aaagagaaga aaataagaga agagataaca gaaaatagag aaatgtagcg acaatctgga       300
     gaaaagtggg tcgaagatat aatcatttgt ttcagatgta ctgtaattat tttctgtata       360
     aaaattaaat ttggtgttca aaaagtcttt tttcaaactt gagtcttgaa aaagaggggg       420
     tcgtcttata atcagggtcg tcttatattc gggccaatac gg                          462
//
ID   TIGGU1A_FR repbase; DNA; FUG; 485 BP.
CC   TIGGU1A_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU1A_FR.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU1A_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-485
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 70 (2002)
XX
CC   A non-autonomous element formed by internal deletion of TIGGU1.
CC   However, no full-length TIGGU1 was available in 2001.
CC   On average, copies are 2.5% diverged from the consensus,
XX
CC   [1] (Consensus)
XX
SQ   Sequence 485 BP; 141 A; 99 C; 97 G; 147 T; 1 other;
     cagtgatccc tcgctatatc gcgtttcatc tttcacggct tcgctgcttc acggattttt        60
     tttgcgagtc gttcattgca gttctcaaat ataatcgaag gtggcatatc cgtttataaa       120
     aatcttcttg ctcagaaaaa gaaagagcgc caacaactac ccataacaat gttcttctct       180
     cggagaaaga ctcctgcgcc ttcagtagaa acagacgctc cagcggagcg gagtcaggac       240
     gaagaggcac agctgggact gggaaatacg cgagtgacaa tgtttccaac cttgtattac       300
     tagattaaaa ttattgtttt aaacaaattt tgggctttaa aacaggtttt gatttttggt       360
     ttcattctat agttcagtat tgcattgtaa aataatnaaa aaaaataaag ctgactactt       420
     cacggatttc acttttcgcg tgttattttt ggaacgcaac tcccgcgata aacgagggat       480
     cactg                                                                   485
//
ID   TIGGU1B_FR repbase; DNA; FUG; 751 BP.
CC   TIGGU1B_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU1B_FR.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU1B_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-751
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 71 (2002)
XX
CC   TIGGU1B has a short region of similarity to the ancient primate 
CC   DNA transposon Tigger2 (44% similarity, 27$ identity at coding level). 
CC   No full-length TIGGU1 was available in 2001.
CC   On average, copies are 2.5% diverged from the consensus,
XX
CC   [1] (Consensus)
XX
SQ   Sequence 751 BP; 206 A; 152 C; 159 G; 233 T; 1 other;
     cagtgatccc tcgctatatc gcggttcatc tttcgcggct tcgctgcttc gcggattttt        60
     tttttttttt acagtgcctc tgaatcctga ttggctcagg ggctttactg ttgtctagaa       120
     ataaaatatt gacgctgtac tgtattgatt tttcacttgt caacagtttt cgtttctgta       180
     cattctgcca actttacgtt tgcacttttt caattgaaga cacacgtgtt gataaagagg       240
     aggaggacgg actaacactt ggtcgcttag caaccatggt gagaatggcc actgaacttc       300
     agcgcacggc acaagaatgg gaccctttga tgagtcgttc attgcagttc tcaaatataa       360
     ttgaaggtgg catatccgtt tataaaaatc ttcttgccca gaaaaagaaa gagcgccaac       420
     aactacccat aacaatgttc ttctctcgga gaaagactcc tgcgccttca gtagaaacag       480
     acgctccagc ggagcggagt caggacgaag aggcacagct gggactggga aatacgcgag       540
     tgacaatgtt tccaaccttg tattactaga ttaaaattat tgttttaaac aaattttggg       600
     ctttaaaaca ggttttgatt tttggtttca ttctatagtt cagtattgca ttgtaaaata       660
     atnaaaaaaa ataaagctga ctacttcgcg gatttcactt ttcgcgtgtt atttttggaa       720
     cgcaactccc gcgataaacg agggatcact g                                      751
//
ID   TIGGU2_FR repbase; DNA; FUG; 2413 BP.
CC   TIGGU2_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU2_FR.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU2_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2413
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 73 (2002)
XX
CC   TIGGU2 has high protein similarity (~70%) to Tigger3 and
CC   other Tiggers in primate genomes. 
CC   On average, copies are 5% diverged from the consensus,
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2413 BP; 707 A; 468 C; 595 G; 642 T; 1 other;
     cagtgggacc tctacttacg aacgtctcta catgcgaaat tttcaggtta cgaaacgtct        60
     caacgggaaa atatttcctc ttgttacgaa agaaatttca ggatacgaaa ggcaaaaata       120
     cgctaccgct gctactcgca gctcgcggag tttagcgaac gcaaacatgc ttgtagctgc       180
     tctgccattg gctatcgcct agcatcttcc tgtcatccca ttggctagga gggacgtcaa       240
     tatgtacaag tttgtgtgta tcccagcgtc gccttcgttt aacttttatt tattgtggac       300
     cccaggaaag tgatggagaa aagtgaaaaa gaagaaaaga aggagagctt ttttgtccat       360
     acaaacgaag caagaaataa tagaaaagca tgaaaaaggg atgcgtttgg ttgatctcgc       420
     caaagaatat ggccgtaata cgtcgatgat cgccacagta tttaaacaaa aggaagccct       480
     aaaagctgcg actccttcca aaggactctc tgtcntttcg aagaggaggt cggcagtgaa       540
     tgatgagatg gaaaggttgt tactcgtgtg gataaaggag aaagagatcg ctggtgacac       600
     agtgaccggg gctataattt gcgaaaaggc aaccgccatc tataatgacc tggtgacgga       660
     ggatgcaggt gagggaactt cggcgcaaga acgacaccag gagtttaaag catcgcgtgg       720
     gtggttcgag aagttcagga ggaggactgg aattcactct gttcttcgcc atggtgaggc       780
     atgtagcgct gaccacaaag tggctgaaga atttgtgcaa aaattcaaac aattggtgat       840
     tgatgaaggc tacgttgcac agcaagtttt taattgtgat gagatgggcc ttttttggaa       900
     aaagatgcct cgccgtacct tcatcacaga agaggagaag aaaatgccag gcatgaagga       960
     tcgctttacg cttgctcttt ggtgcaatgc agtggggatt gcaaatcaag cccctgctgg      1020
     tgtacactcc aaaaatccca gagcaatcaa ggctcacaaa ataataaaga aaaccttcag      1080
     gtgctatgga gggccaatgc caaggcctgg gtcacccgac aattttttgt tgagtgggtg      1140
     aatttggttt ttggccctgg tgttaagagg tacctagagg agaacaatct ccccttcaag      1200
     tgcctcctca ttcttgataa tgctcctgcc cacccacctg gccttgaaga tgatatcctg      1260
     gaggagatct cgtttattaa ggtgctgtac cccccaccta acaccacctc tatcttccag      1320
     cccatggacc aacaagtcaa ttcgaacttc aagaaactct acacaaaacc catgttcaaa      1380
     aggtgtttcg acatcactga aaacacgcag cttacccttc gtgagttttg gaagcagcac      1440
     tttgatattg ttgtttgcct caagatgagt gacatggctt ggcaggaggt gaccagacgt      1500
     aaccttaatg cagcttggcg aaagctgtgg cccgatgttg ttgccccacg agatgttgag      1560
     gggttcgagg tggagggtga agttgagcct gaagttgatt aaattatttc gcttggcaag      1620
     ggcatgggtc ttgaggtgaa tgacgaagac atcaacaagt tgattcagga acacaaagag      1680
     gagctttcga caggggagct gaaggcgttg gaagcgatgc aacacacggc agtgcaggag      1740
     gaattcggag aggacgagga ggaggcaacc agaataaaag acattttagg aaaattccat      1800
     gaagtttcag aatttgtccc agaaaaagtc gggctattgc tcattatgat gatgtttgcc      1860
     tttcacattt tcgaaggatt ctcaaaagcc gacaaaagca aacgtccttg gatcagttct      1920
     ttaagaaaca tcaggcaaaa tccagagaga acttgaacca aagaaggcaa aaggtgacga      1980
     tgatagcagc taaaaagtaa acataatttt tattctttac attattcttt gttttttgca      2040
     ttatgtacag ttctgttcgt ttattgtggg tgttcgtatg tttgtccatt agatggcggt      2100
     gttaccacaa gtgttaacgt tcgttgctag taatgacggc taatgtaaga ttagcctgta      2160
     ataaagttca ttttgttcct ggagaagcct tgcactgaat tcctacattt attgtgcggt      2220
     aatctaattg taacatgtat ttgttacatg ttttgatgca tttttatgat ttataaaaaa      2280
     aattatgtcc gaatttttgg gggcttggaa cggattaggg catttacatg gaaaacgcgt      2340
     ctctacttac gtaattttca ggttacgaaa caacttccgg aaccaattaa tttcgtaagt      2400
     agaggtccca ctg                                                         2413
//
ID   TIGGU2A_FR repbase; DNA; FUG; 642 BP.
CC   TIGGU2A_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU2A_FR.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Pogo-family; TIGGU2A_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-642
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 72 (2002)
XX
CC   A non-autonomous element formed by internal deletion of TIGGU2A.
CC   On average, copies are 5% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 642 BP; 169 A; 125 C; 138 G; 210 T; 0 other;
     cagtgggacc tctacttacg aacgtctcta catgcgaaat tttcaggtta cgaaacgtct        60
     caacgggaaa atatttcctc ttgttacgaa agaaatttca ggatacgaaa ggcaaaaata       120
     cgctaccgct gctactcgca gctcgcggag tttagcgaac gcaaacatgc ttgtagctgc       180
     tctgccattg gctatcgcct agcatcttcc tgtcatccca ttggctagga gggacgtcaa       240
     tatgtacaag tttgtgtgta tcccagcgtc gccttcgttt aacttttatt tattgtgggt       300
     gttcgtatgt ttgtccatta gatggcggtg ttaccacaag tgttaacgtt cgttgctagt       360
     aatgacggct aatgtaagat tagcctgtaa taaagttcat tttgttcctg gagaagcctt       420
     gcactgaatt cctacattta ttgtgcggta atctaattgt aacatgtatt tgttacatgt       480
     tttgatgcat ttttatgatt tataaaaaaa attatgtccg aatttttggg ggcttggaac       540
     ggattagggc atttacatgg aaaacgcgtc tctacttacg taattttcag gttacgaaac       600
     aacttccgga accaattaat ttcgtaagta gaggtcccac tg                          642
//
ID   TRILLIAN1 repbase; DNA; FUG; 1414 BP.
CC   TRILLIAN1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; Tip100/Zaphod family; TRILLIAN1.
XX
KW   DNA transposon; hAT class; Tip100/Zaphod family; TRILLIAN1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1414
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 74 (2002)
XX
CC   The partial coding region of this consensus (ORF bp 499-1212) is 
CC   60% similar to other transposases of members of the Tip100/Zaphod 
CC   group of hAT elements; 
CC   On average, copies are 5% diverged from the consensus.
CC   8 bp target site duplications.
CC   Trillian named for its relation to Zaphod, the first recognized 
CC   Tip100 branch DNA transposon in animals.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1414 BP; 395 A; 314 C; 316 G; 387 T; 2 other;
     cagtggtggg ccgtcagggc ctgcaaggcc ttctctgctg gcctaaaaat atctgaatca        60
     cagactgatg ttaattatat tttgtccatg aatacgtatt aaataattcc aaatggtctg       120
     tccgcttcct ttcattgcta gccccctggt tgcgctgctt ccagacgtgt attttcatat       180
     ttaagcattt aaccaatcac atttcagcca ctatttgttg ccagggtcaa agaaatctgc       240
     ctggaggcct tcacaatcag ttctgcgggc cctgtagcat aaaataaatg tcgatcaaac       300
     tgttgcttca accaatcaga ttttgagttg gcgacnccaa ggcccttcta gcaggcgtac       360
     ggaaacgtca gcgtattcac acgctttgat tggatagtca gagagtgtac nagccagagc       420
     tagcaaactg catctgtagc gagctgcaca agcaaagata ttgttgtgtt gatttaatag       480
     ctgttttgtc aacccacaat ggctgaagta ggagaagaaa tggatttggt tgcagattta       540
     ctgtcaaagc cattttcaag acggactttc gaggaaatct acgaggctac tgaacgcacc       600
     gcgggcgctc cgagcgcaca aagaggtcca gcgcaagatc ctcgcgcgca ctaccgccaa       660
     ctccacggca ggattctgga caatattatt tgccagacac agaccagatt tcaagaccac       720
     gaaaaactga tctttgtcac cctcctcgac ccccagaagt ttcgggaata ccagaaaaat       780
     ttcccgcatg cagccttttc cagcttagca cagagccacg gaacactttt tgatctgcct       840
     cggctaagaa cagaactgac tgtaatgtat gccatggatg attttgcagg aaaatctccc       900
     actgatctcc ttgacttcct tcagattctt cagaaaaatc tgaatgagag catgaggcag       960
     ctatacacat ttgtgtgttt ggcggtgacc atccccgtgt ctactgcttc tgttgaacgg      1020
     acattctcag ccctaaagcg aattaaaact tatgccagaa atacgacagg gcaggctcga      1080
     ctttcagcat tagcttcgat ggcgatagaa aaggacttct tgatggaact gaaacgcacg      1140
     gataatctgc acaacagagt aattgaaatc ttcttgagga aagaaaggag gatggatttt      1200
     gtgtacaaat aatcaggatt tttggtgagt aaaatgttgc tatattccta aataatattg      1260
     caattttatc aggttatttt tgatgctttt ttatgtgtgt cgcagctgta cctgcagtag      1320
     aagttttata gccataaaat agttattgag ggttggattg attcagacgg agcactactg      1380
     aaggcctagg tgtgaaatgc acggcccgcc actg                                  1414
//
ID   TRILLIAN2 repbase; DNA; FUG; 1251 BP.
CC   TRILLIAN2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; Tip100/Zaphod family; TRILLIAN2.
XX
KW   DNA transposon; hAT class; Tip100/Zaphod family; TRILLIAN2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1251
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 75 (2002)
XX
CC   The current consensus for TRILLIAN2 is an internal deletion 
CC   product, missing much of its coding region. The first 51 bp and 
CC   last 40 bp are almost identical to those of TRILLIAN1. 
CC   On average, copies have accumulated 17-18% substitutions (Kimura).
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1251 BP; 319 A; 235 C; 276 G; 417 T; 4 other;
     cagtggtggg ccgtcagggc cagcaaggcc ttctctgctg gcctaaacat actcagaaaa        60
     gtaaatttna tttttgtttt tgtaaatatg taaataaaat tattctccat agtctgttct       120
     cttcatgtca tattatatcc acttggttgc actgcttcca gtgttgtata ttatggtaga       180
     gtttttatcc aatcatattt cagctagctt gtgttgtcag gttctatgaa atctgcctga       240
     ggccttctga atcaacagaa cgggctcctg tgcgctgtaa gtgaacggac acggtcagtt       300
     gcgatagcca atcagatctc gagtctgcga ccacatggcc agctagaagg tcttacgctg       360
     aacgtgacat gtacgcgtcc tgtgattgga taagcactcg tgagaacctg aaaggcgcaa       420
     ctttgcaaaa tatctgaact aaacccggag atccgttagc taccaacagc tatcgctgta       480
     ttttttaacc cacgatggct gaaggagaag agatagattt ggttgcagat atccctgtgt       540
     ccactgcttc tgttgagcgg tcattctcgg cattaaagcg tattaaaact tatgccagaa       600
     acacgaccgg acaganacgg ctttcagcat tagcctccat gtccanagaa aaggacggat       660
     tttattttca aataagcagg tgctgtggag gagatccgtg ttggtgagtc caagcatttt       720
     atttttaata tgtttttgtc attttatttc gttagtattt gacttcagtc acagctgcgc       780
     caacatgttc aattgttttg ctgttgcata ttctcaaaaa caaatgctct gtttactttt       840
     attttcaatg aatagtttgt ttcgttattg tctcgtcggt gtcttaaacg gcgacaatgc       900
     gcagtttatt ggacaaactt gtttaagctc acatagcgta cttttggtgg acttattaaa       960
     actttgttga ctaatctctt aaaatcgcct tttatttttg agttttgaca gtataggtga      1020
     tcttagtttc ctactcttaa ttgtgaatgc gagcttattg attttaaatg ctccggaaat      1080
     taagtgttgc tcgactagcc tatattaagg tgatgtaatg tgtaagtgtg attctgtatg      1140
     gattctcgag ccgtggtgtc atattgatgg tattatgagg tgtattnatt taggtaggac      1200
     taagtaggac gtcactgaag gcctggacgt gaaatgcacg gcccgccact g               1251
//
ID   TX1_FR1   repbase; DNA; FUG; 5763 BP.
CC   TX1_FR1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Non-LTR retrotransposon; L1 superfamily; Tx1 family; TX1_FR1.
XX
KW   Non-LTR retrotransposon; L1 superfamily; Tx1 family; TX1_FR1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-5763
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 76 (2002)
XX
CC   Both open reading frames of TX1_FR1 encode products closely
CC   related to those of Tx1 in Xenopus laevis. The first (bp
CC   230_1141) shows 55% similarity over the N-terminal 190 AA; the
CC   same region is 34% similar to the gag region of the
CC   lymphoproliferative disease virus. There are more distant matches
CC   to GAG-[proteins of all other LTR retrotransposons.  The pol ORF
CC   (pos 1723-5625) is 53% similar to the pol product of Xenopus Tx1.
CC   The 'composite' nature of Tx1 is thus quite ancient and does not
CC   represent a collaboration between two transposable elements, as
CC   was one hypothesis by Garrett et al (Mol Cell Biol 1989
CC   Jul;9(7):3018-27). Like the closely related LINE1, multiple
CC   subfamilies are defined by the 3' UTR and TX1_FR1 appears to be an
CC   old constitutent in the Fugu genome.
CC   Copies are 8% and more diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 5763 BP; 1294 A; 1211 C; 1711 G; 1500 T; 47 other;
     ctctccctct gtctctctct ctctgtgagg agcgtggtgt gagctgagag cgttctcgtt        60
     tgagaatttt tcaacctttt cgagctgttt aagctgtttt nttgttaggt tttgtcggta       120
     tagtttattt aggtgttggt ggtgtcttgt gtcggtttat tagtttagtt tttcggtgtt       180
     ttggcgtgta accagccagc gtttgtctgg ctggttggcg tctgacgcca tggtggttgg       240
     tggtggtagc ggggatctct cccggttaac gcggagacat ggcgttaagg tgggggccag       300
     gtctctgtac accgtggagg aggtggccct ggctgtgggg gaggtnatcg gacatgggtc       360
     cgtgaagtcg gccgcccgga tgaacggggc cgtggtggtg ttgtttgtgg agaaggtgga       420
     gcaggtgaac cggctggtgg aggccggtat cagtgtcggc ggaaggttcg aggcggtgct       480
     gcctctgagc cagccggcca ccaaggttac cctgtccaac gtgcccccgt tcattacgga       540
     cgagtttctg tgtcgggagt tgtccagaca tggcaagatt gtttctccta tgaggaaagt       600
     catgtctgga tgtaaatctc cnctactgaa acacgtagtg tctcatcgcc ggcaggtcta       660
     tatgatcctt aataaccgcg atgaggatct gaatgtgtgt tttaaagtcc gggtggacga       720
     ctttgattat gttctgttcg cctcgtcggc gcacatgaag tgttttggct gtggcgaagc       780
     gggacatttg attaaaatgt gtccgcacgc agccaaatcg gctgcgtcgg gctcggggga       840
     gcggcccggg gccgctgctg cggagccccg cacggcggag cccggagctg ctgctgagcg       900
     accngtcgcc ggagccgagg gtccgggggt cgacggggcg acggccccgg tgggtagtga       960
     cgggagcaca ggtgagggtg aacaggtggg tgagaaaggt gaagtgagtg tacaggacgg      1020
     tgagactggt gtgtgtgtac aggaggggga gacaggagga gtgtgtgtgg aggtaggtga      1080
     cacaggtgga gcgtgtgtac aggggggcga ggcaggtgaa gtgagtgtac aggtggtgtg      1140
     agtgagcagg gggaagctgg gcttcaggta ggtgaggtgg gtgaggaaga ggagctgggc      1200
     tgtagtggag cagctgaagc tgtggagctg atggagcagg aagccggttg gtctccagct      1260
     ccatcgaggc tccgcagcag caacaggcct ggtcctgtca aagctaaaaa aagcagacag      1320
     acaggtagac agacaggagg aaaaaagaag agccagacag cagcgacagc gagggctgcg      1380
     tgtctgatga tggtgacctc cancagaaga acctgggtag tcaggaggan aagtcctatc      1440
     ctcccaaaat gtttaaancn tttttacagg aaacaaaaaa catgaagggg gtaaatattg      1500
     aacattactt tcctgacaaa cagcagtttt atctttctgc cagacgccac acnaaaaata      1560
     aggctgaggc aggttttact gatcaggagg tttttagact gaaaaaactg attctcaaag      1620
     ttaggaggga antactgtaa ngatgttggg aaatgcacct ttttagtttt ttctagcttc      1680
     atcactgttt tatcactctc tgtttttatc tcccactttt taatgagtag ttttaagatt      1740
     gggagtttaa atataaacgg aggcagagag gagaagaaaa gagttttagt gtntgaaaca      1800
     atgattttaa agaagattaa tgtcatgttt ttacaagaaa ctcacagtga tgttttnaat      1860
     gaggctgatt ggtgcaggag atgggagggg agggtgtttt taagccacgg cacagccctc      1920
     agtgccgggg tggggatcct cttctccaag agttttaacc caacatcttt tactgttgat      1980
     catgttgttc aggggaggtg tcttttaatc acggcccagt ttgaccagtt cagtgctgct      2040
     tttattaatg tgtatgctcc caacagcggt gcagagagga agctcttttt agagacactc      2100
     ggcaacaaac tccagggntg tggttccgtt gattatttat tcttgggtgg tgattttaac      2160
     tgtactgagg acgaggtttt agatcggaac catgcggagc cgcatccgtc ctcgcagcag      2220
     gtcctgaggc agctggtcta ctcccatggt ctggtggacg tgtggagaag gactcacaca      2280
     ggctgcagac agtatacatg gtcccacatt agagangata gggtgtcttt agctcgttta      2340
     gatcgctttt actgttttaa acacaatttt aatgtgttta aatcatgtaa tattgtgcct      2400
     gtgggtttta ctgatcatgc tttggtttta tgtgctgttt ttattagcaa cattttacca      2460
     agaagcgcct actggcattt taattcagtt ttagcctctg atgtgagttt taaagacgct      2520
     cttagttact tttgggctgg ttttaggcag aggaagggtg agtttagctg cctaaaacag      2580
     tggtgggact acgggaagac acagatcaga atgttgtgtc agcagcacac gctcaatgtt      2640
     actcgtcacg tcaccggatc tatcagggat ctggagactg agatngtgga gctcgagcgt      2700
     ttgaacgagt ccacaggaaa tggaggatct gttggaatcc tcaagaccaa aaagatggct      2760
     ttagccaacc tgctgggtgc cagagcacag ggcgccctgg tccggtccag aatccaggac      2820
     atctcggaga tggatgcacc ctccagtttc ttcttcggcc ttgagaggaa gtctgggcag      2880
     aggaagctna tccactcctt gctgtcggac acggggcagg agctgactga cccggggcag      2940
     atcaggagga gagcggtgga gttttacact tcactntaca agactgattt taaagacggc      3000
     gaggattgtt ttagtggttt tagtgttttt agtcaaggac tgcccagggt ctccaaggag      3060
     accaaccacc ggatggagcg cccgttgacg gcacaggagc tgcacgcggc cctacagaca      3120
     atgcagggcc gaaaggcccc gggcatcgac ggactctctg tggagttcta caaggccttc      3180
     tgggacatcc tcgctcaaga cgtcctggag gtcttcaacg agagtctcgc caccggttcc      3240
     ctgcctctgt cctgcaggag ggccgtcatc accctcctgc cgaagaaagg gaacctgcag      3300
     gacataaaaa actggcgccc tgtgtccctn ctctgcacgg actacaagat cctctccaag      3360
     gccttggcca tccggctgag ggaggccatg gagcaggtca tccatcagga ccagacgtac      3420
     tgtgtacctg gcaggtccat ggtagacaat gtctgcctca ttagggatgt tttggaggtc      3480
     tccagttcat cgggggtgag tgttggtcta ctttctttag atcaagaaaa ggcttttgac      3540
     cgtgttgaac acaacttcct gtggagaacc atggagaggt ttgggttcag cgctggtctg      3600
     atagccaaga tccaggtgct gtacagtaac attgagagtg tgctgaaggt caatggcagc      3660
     ttgtgcgctc cttttagagt gtgtagaggt gtccgacagg gctgtgctct gtctgggatg      3720
     ctctacgcgc tctccctgga acccctcctc cacaagctac gctcntgtgt tcaaggcctg      3780
     tttttaccgg gttttaacag taatgtggtt ttatctgcct acgctgatga tgtggttgtt      3840
     tttattaaag accaagcaga tattgatgca gttttaaacg tcacnaataa gttctgtgat      3900
     gtgtcgtctg cgagggtgaa ctgggggaag agcgaagccc tggtcgtcag tgagtggcgt      3960
     cagggcctcc ccgttctccc tcnaggtctg acctggagga gggacggcct gagatatctc      4020
     ggagtgtacc tgggaaatga gcgcatggta agaaagaact gggagaatgt tgttgaaaag      4080
     gttgaagaaa aattaaagaa atggaggtgg ntgcactcng agatgtcntt tagaggaaga      4140
     gttttagtta tnaacaacct ngtagcctcg ctgctgtggc accgtttggc ctgtttagag      4200
     ccaccaccag gcctgctgtc ccagatccag gctaaactgg ttaacttctt ctggggcggc      4260
     taccactggg tgccacagtc agtcctgttt ttatccagag accaaggggg ccagggcctc      4320
     atccacctgg ccagtagaac agccaccttc aggctacggt ttgttcagag gtacctgaca      4380
     ggacctcctg acttagtgtg gagggatgtg gccagctgct tactcagacg tgtgagcaac      4440
     ttgggactgg atgctgctct gtttttaact gatttcaaaa gtttaaattt aagggggttg      4500
     ccaacntttt atcggagtgt ttttaaatcc tgtgctcttt ttaaatggaa gaagatccag      4560
     gagtccagct ctctgcactg gctgttgaaa gagcccctgg ttcacggtgg cagactggat      4620
     gtctgcagca gcgccatgcc cgggctgatg ggggcgctgt gtggctccag gactgtcacn      4680
     ctaaagcagc tggtggaggc agccgggccg gcgctggctg acgcccggac cctgagcnct      4740
     gtgctgggac tacgttcgct gaggctggtg gagaggagcc tggagctgtg gaggaggagg      4800
     ctctctgtga gagagaggag tcttctcctg cggtacggcg gaggaagagc cgagccngac      4860
     cccacggacg ccttccctga cctccagctg agccctgggt gcgaggagtt cagcgggcct      4920
     ctcctgaacg cctnctgcaa gagcaaactg ggcctccatg gaacagacaa anaaactttt      4980
     tatttgaaca ttgtaaagac aattaatgga ctggggctac tcgacagagc tgcctctgtg      5040
     tggacggaca ggctgggggg acagagtcca cagtggagga ccctgtacaa accccccatc      5100
     aaaaagagga ctggagacct ncagtggagg atcctgcatg gtgccatcgc caccaatgct      5160
     tttatctctg ttttaaaccc tgctgtgtcc gannagtgtc cgttctgttg gtctgtccga      5220
     gacggttttt catgttttta cagagtgcag cagactcgca ggggttttta gtgttttaac      5280
     ngaggttttt aaccgtttta acgncacntt ttctgtcagg gcttttattt gtggngcngn      5340
     ntacaaaaaa gctgctcagn aacaagtggc agctcctnaa ttttattcgc ggagaagcca      5400
     aaatggcaat ctacatctcc aggaaaaaca aaattnagaa aaacggagat tgtgaggccg      5460
     cctcagtgtg gcgcngtaac gtccggtgta ggctgaggtt ggagtttggt ttttataaaa      5520
     tgatgaatga cctcagccga tttcgcgaaa tatggtgtta caatgatgta ctctgcactg      5580
     ttaaagagga caatttgcaa tttgcacaac cccttgtggg atagttgtat cgctgtttta      5640
     tagtatttat ttatttattt attgttgatt ttgtgtttct gaacagggcg cttgtgtccc      5700
     tgtgtaaact tgtaaataaa gtatttttgt aaaaatccaa aaatctctct ctctctctct      5760
     ctc                                                                    5763
//
ID   TX1_FR2   repbase; DNA; FUG; 1139 BP.
CC   TX1_FR2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Non-LTR retrotransposon; L1 superfamily; Tx1 family; TX1_FR2.
XX
KW   Non-LTR retrotransposon; L1 superfamily; Tx1 family; TX1_FR2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1139
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 77 (2002)
XX
CC   This consensus is the 3' end of a LINE-like element. It is 66% 
CC   identical at the DNA level to TX1_FR1. Copies are only 10-14% 
CC   diverged from the consensus, so that TX1_FR2 is a sister lineage 
CC   rather than ancestrally related to TX1_FR1. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1139 BP; 248 A; 271 C; 320 G; 282 T; 18 other;
     agccgcgccg aggctgaagg cagcactgcg ccggacccgg accntgntnc tgcagcacgt        60
     agtggccgcg gcagggccgg acctaacggg cgcggaggca gtgggttccc tgttgggcat       120
     ccgctctgcc caggcagccg agggggtgct tcggctgtgg aggaacaggc tcagcgcgag       180
     agagaggcgt ctccttgngg actacggcca ggggaccgaa ccngacggcg acgacccctt       240
     cccggagatc aggctggccg cccatctcgg ggatctagac ggtcctctcc tcagaccanc       300
     aaagaccttc tccctgcacg cagtcganaa gaagaccctg tacnacaact gcgtgagggt       360
     actaaacagg agaggactgt cgaacaggag caccagcgtg tgggctgatc ggctgggagg       420
     ggatggagcc cgcccctgct ggagggtgct ctacaagccg cccctgaaga agaggaccgg       480
     ggacctccag tggaggatct tacatggggc cgttgccctg aacgctctcc tctccagaat       540
     gaacactgct gtgtcggacc agtgcccgtt ttgctccggg cgagagactg tgttccacgc       600
     gtacagtgag tgtgagaggc tcactgtgct ttttaatgtc atgaaaggtg tttttaatgg       660
     ttttaatgaa accttttcna ttagaacttt tattttcggt gcagggtaca acaaagctgc       720
     tcgnaacaag tggcagctcc tgaattttat ttgtggtgag gccaagatgg cgatttacat       780
     ctcnaggaaa aacaaaatng caaaaactgg agatngtgag gccgcctctg tgtggcgctg       840
     caatgtccgg tgtaggctga ggttggagtt tggnttttat aaaatgataa acgacctcgg       900
     ccaattccgc gatatatggt gtcacaagaa tgtnttatgc actgtcacng aggaccattt       960
     gcactttgca caccccctng tgggataaat tgtattgctt gttttcttaa tatttatcta      1020
     tttatttatt tattgttgtt ctgtgtgttt ctaaacaggg cgttttgtgt ccctgtgtaa      1080
     attgtnaata aagtgttttt gtaaaaatca aaaaatctct tcttctcctt cctcttctt       1139
//
ID   CHAPLIN7A_FR repbase; DNA; FUG; 965 BP.
CC   CHAPLIN7A_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT class; MER1 group; CHAPLIN7A_FR.
XX
KW   DNA transposon; hAT class; MER1 group; CHAPLIN7A_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-965
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes.";
RL   Repbase Reports 2:(1) p. 12 (2002)
XX
CC   CHAPLIN7A is an internal deletion product of an autonomous element. 
CC   The remaining short coding region shows similarity to CHAPLIN8 and 
CC   CHARLI8. It has MER1-typical NTCTAGAN target site duplications.
CC   On average, copies are 2.2% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 965 BP; 312 A; 162 C; 207 G; 283 T; 1 other;
     caggggtcac caacacagtg cccgtgggca ccaagtcgcc cgcaatgacc acatgagtcg        60
     cccgcaagcc tgttctaaaa atagcaaaac tcgcaagtga ggtgcgtcta agaaaanttt       120
     ttctaccgct atttttttta aatcacacct gcatttacat agattttaaa atgacaatgt       180
     cttaaaaata aataaaaata taaataaagt gaaggtgaac tctgacctag ttcaaaggtc       240
     agtattgtgc gcatgaaaga acctttgcgc ttgtggagaa taaactagcg ggcagtgaag       300
     atggtgagtg gagtgcaatt ttctacccca aaaacatggc aaaaagaaga cagtaaattt       360
     atcattttca aagtgaatgg gaggaagagt aattttttac tactgtgaaa ggaaggtgtg       420
     tatgttgcat ttgtggggcg actgtgatga cggcgaagca gcacaatgtg gagcgacgct       480
     tcactacgcg tcatgaaagc tacaatgcta actacccacc gggaagcatt ctacagtcag       540
     agaaggccca tgagctaaaa agtgtgttta taaaatgtaa cagattttga gcagaattgc       600
     agtagatttg ttcagttaag atttattcaa tatgaaagtt aattttttta aatgttgcat       660
     aactttttaa aacatggttc aacatagttt atgaattgtt aaaatggttt agtttcttat       720
     ggttgaaagg gtctggtgaa aactcgacat ttttttctga tcaaatgtag aagtgatcat       780
     ctgaacaatt gctgagatta ataataataa agtgttgaat attgatcttt tctgttaccc       840
     actctaagtt attgatacac acacacacaa tttgttattt tagaggagtg tgtcaagcgg       900
     tagcccttca cacgactcgg tacccatgac gtagctcttg gtttcaaaaa ggttggtgac       960
     ccctg                                                                   965
//
ID   FERVR1_I  repbase; DNA; FUG; 11919 BP.
CC   FERVR1_I DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; endogenous retrovirus; ERV1 class; FERVR1_I.
XX
KW   LTR retrotransposon; endogenous retrovirus; ERV1 class; FERVR1_I.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-11919
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 16 (2002)
XX
CC   Internal sequence of an endogenous retrovirus most closely
CC   related (thus far) to the walleye epidermal hyperplasia virus
CC   type 2 (53% AA similarity of pol gene product). Reverse
CC   transcription appears primed from a tRNA-Arg-CGY (hence FERVR).
CC   Some copies are < 3% diverged from this consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 11919 BP; 3620 A; 2666 C; 3039 G; 2481 T; 113 other;
     tttttggcga gccagccagg aggcagtgac ggggccggac gactgcaggt gccgggtgga        60
     ggccaggaac cccacgggcc catatatcca ccaacgccag gtgagatacc aaattctttt       120
     tccctttttg aaaattaatg gggatccagc ctccntcgga cgccngtggt cagaaggtac       180
     cgataaactg tctccaaaga acctagaacc tagaactaaa gaaggnacac gaattgtgta       240
     tatgagcagt aatagctggt gagcgggccc aaccttnatt gtgtgattgg aaaataataa       300
     gatatgggat ggatgtnatt gaaaaatgca tatttaatct gttgatttgt atttggattg       360
     ctgtatcnct tacgggtncg ggaacaatag tgtacatgtt ggtgatgtat gggaagagcg       420
     aacagggaaa gttcaatcag acggcctgga atganagtta tccagggaga gantagaagg       480
     anggtgtaag gaacaagcag gttgagcaga aggtcgcttg taaaagttng tnttgtaagg       540
     acagtcatac gagggtntgt antgancaga atattaaagt ttgctttaag ggacaatcat       600
     acagaggtat gtattgacca gtataagagt taaaagtacc gcctgaggag acgtcaacca       660
     ctgtgccttc tcgaggagtg gtcctaggca gggaaaggga anactgcagg aagcagcgta       720
     aggttanaag tgagaacttg caaggagcaa ggtcatgnag ttttgtgttg tgatacgtat       780
     gatattaatg tgtaagcgat aagcatanna agggcgtaga cagagtagca agggtggcgg       840
     tggaaggata naatncatag anattggaag ggcaaattgc tgagganatt ggtgtaaaac       900
     acaaaaccaa cacagtggga tagttataac tgtcactaaa agcgaaataa cgnacataan       960
     ttncatnaat tagttagagn agtacacatt agannganta actaagatcg cccctattat      1020
     aaaaatacga ccanattaaa acctgtattg gccagagctg gggcagtaaa aggaggaaaa      1080
     ggggaacggg attgagggaa gtgggaatct gccggggtca ccaggaggtc gctgtgaacc      1140
     gccataaaac atgggctcca acaaaagtaa gcagacgaac gagatgacac cngtgaaggt      1200
     aatcnttgcc acacatccag caaacaaacg aagaattcaa caatgcatga gaaactggca      1260
     canaatgaca tcaggaagga atcggtggcc tcctgagggc agctttgatc ctgggagatg      1320
     ngatgaagtg gaggaggagc taagaaataa agataaaaag catgaagnaa ctcacatgng      1380
     gaaaagactg ggaaatgcgg agcagaggga catcctgcag tacttcagga tggaagccac      1440
     cagaaacccg acgnnatgca tagagacacc gactataggc ccccacccta ttatccaggg      1500
     agagcaggac aatttataat gatagatgaa gacaaggtag gaggaaagat cacaggaaag      1560
     ataaaagtca taatagatga ggatgaggaa gaggcaaggg aacaaccaag tagcagccgg      1620
     aaggatgcat gcacctcaac atctcaatca cacctaagtg agggaacacc taggaaagct      1680
     acccacaaga gtgagaatgg aggcatcagg gaaagcgaga aaataaaaga aagagcaagg      1740
     aaagaagaag aacagctcaa agaattgata agacacagtg cagagttaga atccgtgaca      1800
     tcacaacaga anaccacaga agatcaggaa gggaaagaca agccagaaag ttcatctgat      1860
     gaggggaacg acgatctaga ggaggacgac ggtgacgcag atctgtcaag tgaagactcc      1920
     gtggtgcttt ggcaaagccc agtccggaaa ggagcaagtt ctcagcagcg accctcacca      1980
     aagctaagtc aggacagacc tttgatttac aactacagat ggaaaaaagg gaaacaggtg      2040
     gtgggatgac tctacggcaa cgaatggaaa agaaggacca gtctcgaggg accgcatcag      2100
     cgaggtgtgc ccaagatgtg cccctggtgg ccaaaggagc ccaaaatgac tatcggtatg      2160
     tgccgtggtc tttcatggac atgataacac ttgcaggtaa actaaccccc ctggcggagg      2220
     gagctgacaa gtggatcgag aagctcgagg agatcactgg agggatcaac ctggcaggcg      2280
     gcgacatcaa agcgctgctg ataaaaacag caggacaaac agccactgca gagatcttca      2340
     gggcagccgg atacagagga atgacagtga cacatcaaca cgatgaggtg tccttcgacc      2400
     agatgcgaac cggagtatgg aaggccctga gagagaagta cccctcacgc atggacccca      2460
     ccaagttaga aaaagaatcc ttgaaggaag aagacagtcc ttcacaattc ctgcatagtt      2520
     atcagaaaat gtggaagact gagactggga gtgagtggga cagtacagaa acaacaaagg      2580
     ccttatttat gatgtacata aagaacgcta tgccaaaaga agtacaggac aagctaaatg      2640
     gagtggtagg gctgatgaaa atgacctggc ccgtcttctc tgagcatata attcactatg      2700
     tgaatgcata tagggccgag aagcaggccc ttgaagatca gaacaagata ctggccaata      2760
     aactgacnca actgcaaata ggggaactgg caaaacaaaa aaaggaccga gagaaaccca      2820
     gaccccaagc agcagtgagg gcagctgacc cagagcccga gaaaggaccg acagtggaga      2880
     gggtgacgca agcacccata gttacacccg taatgtctcc accgcctgct tcacaggcga      2940
     cacctgctgt gccccaagct gcccctgcng tggcacctgc tggtcaactc caaactcaac      3000
     ngatgccacc aatccacgtg cacctcaatc aggggggggg catccagcgg cctgcggctg      3060
     gcggaggaag gggnggccca cccgtgaggg gaagatggag aaggccccaa ggaccgcggc      3120
     ggtaccagca gtcccaggga cccccaccgg gacaagggcg ggcaccacng cagtatcggg      3180
     cggagctccg gtgctgggga tgtggacagg taggacactn gcagagagag tgcccggcca      3240
     gcccatggac aggaccccaa aatcctgggc aaggaccccc ccatcccgga actgtgcccg      3300
     ctgtaccggc caatggactg tggatgggtc cggcggcata ctggcaatgg ggatgcccag      3360
     agaagcctga agggaaggga atcatgccta tactaacaca acgtccacag gcagagccca      3420
     cagtaaatgt gactgtgtac agtcgtcgac atcagtttat gatagacacg ggagctactt      3480
     attcntgtat aggcaaagat ggagccaacc ttcccctctc agcttccaag attcggacag      3540
     taggcttctc tgggaaaana caagtgatgc caatgactgg gccggttcca ttgcaaatag      3600
     ggaaaanaac aatctacgcn tctcttctat attcagcaga tgcgccaanc aacctcttgg      3660
     gaggagacgt gctatgccaa ctgcaagcag agatcaaatg tacaccagan ggaatctact      3720
     ttgacgtggc ggangaacaa cctgacagag tgtccgtncc tatgacgtca ctaacgaccc      3780
     ctgcagattc tccgcggaca atgcaccncg gnacagaggc tcgagtattc tggatgaagc      3840
     taacaacatc aaactctttc ctctatcatg aatgggagac ctggagacca ttggtaatga      3900
     atcactacga cacatccaaa gaaccaacac ttccactaca ctgcacaatg atgtacgacg      3960
     aaaaccaaac tcatgaggat tatgagcaga gctgggatgg agccattaat aacaaagcta      4020
     cggttatcca gtatgaggac atcatcatng gaccgcaggg agcggcggca gcagtnaaat      4080
     tacaggatga tgtaaaagat tggtttcaag tccccaactc aacgccgcat gtcactctgc      4140
     taatagcgga caaatatgag tcacatgacc taggacccat ggtcaaagct gcaagacaag      4200
     tcaaagactg gacgacgaca gactgtcaac aaatcaggac gtcccctgat ggactattct      4260
     tcaaaatcgc gttcacactc gcagatgaag caatggcaga aaaggtcaaa gtgccaaggg      4320
     aaagagttag gcaaatgcta atagcagaag agcacacaac actgttagaa caagtcccat      4380
     cacaagtatg gtcccaacac aagacagatg taggtttcgt gaaatcggcc gagccgcaaa      4440
     aattccttac aaagccaggt gttagattgc ctcatcagag gcagtacccc ctcagaccag      4500
     ataccattga gggtataaga tccactataa ctgggttaga ggatgcggga gttttaataa      4560
     aaacacgaag tgcatgcaat accccaattt tccccataaa aaagcctaac agtgacgaat      4620
     atagattagt acatgacctt agggcaatca atgccatagt aactgaggag atacccattg      4680
     tacctgaccc acacacattg ttatttaata tacccccagg caccaaatgg ttcacagtaa      4740
     tagacctgtg ctcggcattt ttcagtgtac ctgttcatcc tgattctcaa tatctatttg      4800
     cttttacgta taagaaccaa caatacacgt acacccgcct accacaaggg tttgtacact      4860
     ccacctccat cttcaaccgc attcttgcca atgatcttag ccatttgaat attcaatcaa      4920
     ccactttaat gtatgtggat aatattttga tttgttctga atcaaaagaa cagtgtgaga      4980
     aagattccat cactgtgctg actgccctgg cggaaggagg gcataaagta agtaagaaaa      5040
     agttacaatt ctgccaacaa acagtagaat atttgggcag gcagctgagt ggggataaaa      5100
     gacacattgc cccatctcag ttggaagcca taagcaaaat accaaaacca caaactgttg      5160
     gtcacatgtt gtccttttta ggtatggcgg gctacagcag atcttgggtt tatgactacg      5220
     ctcttaaaac agccccatta cgagctatga tccgagcagc gggacaaggg ttgcagtcag      5280
     cccagctgca gtggactgac gaagcagaag gggcatttca gttgttaaag aacgacctcc      5340
     agactgcccc ggcattggcc aatccagatt acagcaaacc attccattta tatgtggcgg      5400
     aaaggcaggg atatgcgtgc gcagtgttga tgcaagacgc cccaacaggt aaacaaccaa      5460
     tctcatatta tagcacaaaa ttggacaatg tggaggaagg gctgccaccc tgctaccagg      5520
     gactagcagc agccgccttt gcatacaaaa aggcctcagt aattacgatg ggccatccag      5580
     tattcttgta cacttctcat caactgcatg caatgctcac aagcccacgc tttgtgataa      5640
     ctcaaggtcg gcgtacaggt tatgagatcc tgctctcngg accagacctg accatacaga      5700
     gatgtacaac cataaatcca gccacaagaa tggtgttgcc aacagaangg gtgccncacg      5760
     attgtcttaa agaaacagag aatttcatga aagtaaggga tgatttgtac aatcacccca      5820
     ttccgtctga cctgacnntg ttcgttgatg gctcatgtgt caggggtgag acggggaaca      5880
     gggcagggta cggtatagtg caactcaatc cagacggtac ctatgccaaa gtgcaatcag      5940
     taagcttgga ccagccctgc tccgcccaat tggcngaaat taaagcgcta acagcagcnt      6000
     gcaaattagc agctaacaaa agagcgacta tctacacgga tagtggttac gggtatggag      6060
     tatgtcatat aaatgcangc atttggaaac agagagggtt tgtgcgcgct gacggtaccc      6120
     ctntagcaca tggacaggca gtgactgaat tgatncaagc tatgcagctn cccaccncac      6180
     tagccatagt naaatgcgca gcgcatcaaa ntagcaaatc accaattgca gtgggaaaca      6240
     acttagcgga cgaagctgca aaagaagcaa caggacaggc agtacaaggg cctatgttgt      6300
     ttgaagaaga ttgtggtccn attacaagcc tggcttcatt gactgaggca caaaacaggg      6360
     tttcagaggc agagaaacgc ctctgggttc aaaggggagc tgtccggacc tcgcatcccc      6420
     atccggggct atggcggggt ttccgaggac attttgttct gccactgtct ttactgccca      6480
     ttgccattaa gaaaatgcat gaacctgatc attgttctag ggctcaggtg atcaggaaac      6540
     tacaggcagt ttggtggtcc ccatacatga ctcccatggt cgacagggag cttgctttat      6600
     gtccccattg tccaaagtac aacgtaagga agatgttcac tcagccgttg gctcacattc      6660
     ccatgccaga tggtcctttc cgncacctgg tcatggatta tgtggacatg attgatcgcg      6720
     tacaagggaa aagatacatg cttgttgttg tttgcagatt tagtaggtgg attgaggcat      6780
     gtcccacttc taaggcggac cacaaggccg cagcaaaatt tctctgcaaa gaagtgtttc      6840
     ccaggtttgg natgccagat actatatcat ctgataatgg tccacatttt gtttcacaag      6900
     taatacagga aatgttcaag attttgggga tcaaacagaa gtatgggtgt gtttatcacc      6960
     cacagtctca gggttctgtt gaacgggcta acggcgtctt gaagactaaa atagctaaga      7020
     tcatggctga ctgtaatggt aagctgacat gggtagatgc actacccatt gctttgatgg      7080
     caatgcgttc tcaaactaac cgactaaccc atctaacgcc tcatgagatg cttacaggtc      7140
     gacccatgcc tctcccgcaa accagaggtc ctgtggaggg accggccatt gcacaactgg      7200
     agcgagaact gggtgactat ctacgtgcat tgactcaaat ccacagactt gtgtttcaac      7260
     aggtgaaaga agcccacggc aaggacgaga cgcacatccc cgttgacgtt cgtgacgtcc      7320
     aagtggggga ctccgtattc atacgagtgt ttaggcgnca gtggaacgaa ccccgtaggg      7380
     agggaccctt taaggttgtg ctcactaccc ccactgccct aaaagttgaa ggtaagccct      7440
     tctggttcca taagaaccac tgtacccgcc acagacctcc cgaccctcct ggacactatc      7500
     caggcccgtc ggagtctgag catgctgaca gggagacgta tggtcaccct ctggccacta      7560
     gtccgagatc ctctacctcc tcctcctcca caagctcaca gtcgcnctcc ccacatgggg      7620
     aaaggagatc tgctcggttg gcggcccgcc ggccncgacg ntcaacagtc cacngactcg      7680
     gagtatcccg atnctcccgc tccgtctnct gggtctgatg agcctcctgc tgntgcgggt      7740
     gccgggtgat tcagcaggcg cgacacagcc tgcggacggc ccaccnacnn ctgacgctga      7800
     ccatcngcan cacggntctg atggtgatgg gccgcnagac gacacactgg gcacatcagg      7860
     ctcgcctagc ccacaagcgt tcacttaccc gccgncgccg aactggtctc aatccggggg      7920
     gggcnggcct ncctctgatc ccgattagtt gcatgatgat gttaaccctt kktcggatta      7980
     acaacggggg aagtcttgat gtcaactaac ttaaacccga acacacagca cacgccaaca      8040
     ctagacacgt gtgccctggc aatgattacg ttagcaactc acagggggat agtagataga      8100
     aataatggag aaatcaaacg tataatgcat gtcaaagcag acacttatga ttttgtacta      8160
     acagaagaaa tagtgggaac cgagtcaatg ggtaagcatt ggctgggata tccccaaagc      8220
     gcggactgtc gtggggaagg gacggtgatc attcaagtaa gatgcgctaa gacagggtgt      8280
     cagaatgagc aaacaggaca aagcatgaca gtgaaggaag ctgaaattaa agtaaaattg      8340
     ctaaatacaa ggcggaagag agatctaaat aaattaagaa cgtcacattg ggacacaaac      8400
     atgttccaac agtggatana gtactcggcg naatcaatgt ttgaagctaa aaaacaggaa      8460
     aaacaagatt gcattgcctg ctacaatgct aaaaaactac cacaaatcca gtcaatacca      8520
     gggggcgaac tagggggatg cccggatatt actaaatgtt ttgccctctg tgcaatgcat      8580
     atggcaggag gcttaccggg gtggagtgat aataggaaag tctgccccac gttactgtca      8640
     gacgacaatt atgatgtagt aggagcacta cccccagtgg tgcacaaacc ggataacgct      8700
     atttttcctt tctgcatagt acggggaagg gaattggaag aggttgtcca aagagcatca      8760
     acgatattga cagatgcggg ggagctggtg aggngcagca gaatcacctg gtacccggaa      8820
     ctagccgacg ggaacaccac agcaaccatc aaactgtgta agaccggccc aaaagcccga      8880
     attcaatgtg aacaggtagt accaaacggg ggatcggtaa tctatgaacg aaattcatcc      8940
     cacatagctc aatacaggtt gttggacttg aaaaatggga cgaggccatt gggagatgtc      9000
     ttctggactt gtgaaagtaa tgacaccatg atgccaaaat tgctgatgcc aaatttgcct      9060
     gcaaattggg aagggatatg cgccccatta atgctaacag gacaattgtc attaatcacg      9120
     cagaggangc atcaaagtca cgcacctcct agagacaaaa gaagtaccca ggactctatc      9180
     gagaattggg aatgggactg gaaagcaaca aatgaaattt atatcacatg ggatcaagtc      9240
     ccatttggtg taccggaaga tcatgtagcc ataggttcca catggataaa atccggaagg      9300
     ggagcagggt ctgttccgat ttacggctca attgcaaatg ctcagtacat agctcggaac      9360
     agtcgttgga tacatttttt gtggtacaat caacagaggt tcatgaatta tacnataaaa      9420
     gggatgacac tagtgcggga gcaattgcac gccacatcaa tgatggctct gcagnataga      9480
     tttgtgatag aatcacgtat ggcaggagat cagggaatgt gcgacgaaat tggggaagaa      9540
     tgttgcactc tgattccaat gcacacgggt gtcaatggca gtctgacaga agttctgaac      9600
     gaaatgagaa gggtacgtga tgagcatgta agaaattcta attggaacac ccaaattaag      9660
     agtttttggg attggctggg aaagttggga tggttaaaat atctaaaaat ggccgggatg      9720
     gtactgggag gaatagtgct ggtggtgttg ctggtggtct gctgcatcat cccattgctc      9780
     cgcaccctag tatcacgcgt tttagttagt ataacaggac agtatcctgt agtacaagtg      9840
     caaattgatc cagaacctgt tgagctcaca ggaatacggg aatagtagga aaagaaatag      9900
     gaatacaatg atcgccgccc actccccaca aggtacgtaa cactaatatt gtaaaattat      9960
     gatgattata acaataataa taataataac taggaataca gtaatcaata tgatcaatat     10020
     aaaatcatgt atagtattat agaaaccgat gttgtaagaa acttgatgcc atgtctccat     10080
     cacagactgt tgaaaatggc ggaggctttc tanactggac cccaaatgac catggacgnt     10140
     tggcagattc acaactctga tagcagagaa gatcacacat acatgcctgt aggaacacaa     10200
     cacntagaag caagcacaca tgttccaaac aggtacccga gatggagtga ggggaaccct     10260
     gacccgctga naggggggtc agaaggaagt cggttcnaaa cgggagaacc agcggcgcac     10320
     ctggcaggtc tacccatgga ccaagggcca acagcactct ccggagtccg gttcagccct     10380
     gagagcccag agaacccgga ggatggagga cagccgcccg agatccatga ggnccagccg     10440
     acagcagtgg tccctccaac gaccagacca ccaactccca gactgcccta cctcaccgcc     10500
     agcgcagcgg atattactca gctttcaaga cacctggtca accccctcga gtattacacg     10560
     cgccttgagg atctccgctc tgagattggc gaaatgccta ccagggtcta tatttcctta     10620
     agggcaggac tgaccataac agcccgtcaa cagatccaaa gaatcaggcg tcaagcgtat     10680
     aaccacaanc gcgagaggag cctgaaacaa ttgcaggacg aacgggacac actggctcga     10740
     caattggacc acgcccggca cacagccctc acccttcagg gcaaattgag tcgattgcag     10800
     ggcgcttacg accgagtccg agaagctatg acacaactac gtcaagccaa cactgtcctc     10860
     acaagcttct gccactctag attgcaacaa caaagcaccg cagtgtttgg actggaagct     10920
     catctacgaa ggggggtggg gggaaatccc ctacgancac cccatagctc ccaaccaagg     10980
     gagcagcaag gcatgaggtt tgattgaatt gatgtgttaa aagatgccgt gtttgaattg     11040
     atggatatgc tgaaaaatac ggtgtctgaa tgatgacgac tcttgatgat gtttatggct     11100
     aatgtttatg gttctggaaa aacagataag gtagtaattg agtgataggg cttggcccgc     11160
     cgcgataaca ggtagataag tatagtgcca atagaatggg agcataagcc cctggtttga     11220
     aatgtttcgc ttgtaatgac atgggcatga tgagaaatca gtgagggtat ctacctgtac     11280
     cagcaagccn gtctcaagga caggtagctg gagaaaacaa agctgaaaat tctaaaaaaa     11340
     aaaaaaaaaa aaaaggtctt aagaggagta ctcctcataa gtgtaccagg agagtgctcc     11400
     ttgaaccaaa aacaaactaa gtgtaactgg ctgtgtaaac agaacagact gggtttgtgg     11460
     gtgtatgctg atgtaatcat gagtatatcc gacctgcata ttcctgtgtg aactacatat     11520
     aaccttatac tcatgtgtga gctgtatgta accttgtaat gtgacgctac ccttgccacc     11580
     tggctggggt tttacctctc actgctcatg ggaggatgtt tccctggcca tgtctgcggg     11640
     gtgtagctag gagcccagca gtaacgatca ccggaccatc aggatgggca agtcccggga     11700
     tgggtttcag gtggaattat ccaactgccc ttccagttgg tgtttnacct tgtggtgatc     11760
     cttactgagg gatggttagg tcaagtatta cactggtgtg attacacata tatacctcac     11820
     ttattggtgt gttttcttta cctcacatag aagtatgctg tgcacaagtt tgttaaacat     11880
     gttttgcttt tgtttgagtg gtcctttcca ggaccacag                            11919
//
ID   FERVR2_I  repbase; DNA; FUG; 11675 BP.
CC   FERVR2_I DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; endogenous retrovirus; ERV1 class; FERVR2_I.
XX
KW   LTR retrotransposon; endogenous retrovirus; ERV1 class; FERVR2_I.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-11675
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 18 (2002)
XX
CC   Internal sequence of an endogenous retrovirus closely related to
CC   FERVR1 (83% similarity over full-length internal sequence).
CC   Several other closely related branches of this family are present
CC   in the Fugu genome. Some copies are < 4% diverged from this
CC   consensus as well, so FERVR1 and 2 are sister groups, rather
CC   than one being ancestral to the other.  
XX
CC   [1] (Consensus)
XX
SQ   Sequence 11675 BP; 3630 A; 2570 C; 2907 G; 2507 T; 61 other;
     gttttggcga gccagccagg aggcagcggc tggacctgac ggctgcgggt gctgagcgga        60
     ggctgggaac cccacgggcc cacatatcca cccaataaca ggtgagatac caaaattcct       120
     tttnattttt gaaattaatg gggatccggc ctccgtcgga cacctgtggt ttgaaggtac       180
     cagtaaaact gtctcctaag aacctagaac ataaaataaa aagaacacaa attgtgtgta       240
     tgagcagtaa tagctggtaa gcgagcccaa cattgantgt gtgattggaa aatagatgga       300
     tgcgattgaa aaatgtatat ttaatctgtt gatttgtgtt tggattgccc tatcacttac       360
     aggtacagga acaatagtgt acatgttggt ggtgtatggg aagagcgaac agggaaagtt       420
     caatcagacg ggctggaacg aaagttatcc agggagagag tagaaagacg gtgtaaggaa       480
     caagtaggct gagtaaaagg ttgtttgtaa anatttgtgt tattaaggac aatcatacag       540
     aggtatgtat tgatcaagag ttaaaagtac cgcctgagga gacgtcaacc actgggcctc       600
     ttcgaggagt ggtcctaggc agggaaagag aaaactgcag gtagcagtga aaggtaaaac       660
     gttttttaat gtgttgagat gttgtgttgt tgttgtgtga ataggtaatg tgagtgaaag       720
     gatatagatg tagacataga gaattgaacg taaaggcata agataaatat agtaaagtgt       780
     aatagtgaac ataaattaat aaagaaaagt agtaacgttg aagcgaccaa ctaaaatcac       840
     cctagtataa ataaaagcaa actgagtctg tattggtcaa gagctggggc ggaaggagga       900
     aaaggaaaaa aggattaaaa gaagtaagaa tctctaaggt caccgaaagg tcactgtgaa       960
     ctgccataaa acatgggttc caactcaagc aaaaatacaa atgaaataac gccagtaaaa      1020
     gtaattcttg ccacgcatcc agcgaacaaa cgaaaaatcc anaaatgtat gaaaaattgg      1080
     cataaaatta catcgggnag aaataaatgg cctcttgaag gcagttttga tcctaggaga      1140
     tgtgatgagg tggaggagga gctaagaaat aaagataaaa agtatgaaga aactcacatg      1200
     tggaaaaggc tgggaaatgc tgagcagagg gacatcctgc aatacttcag gatggaggcc      1260
     acgcgggacc cgagaatgca caaaggtact gacgataggc ccccacccta ctccccagac      1320
     agggcaggac agtttgtaat aagggatgag gagagagcag aaggaatgat tacaggtaag      1380
     ataagagttg taataaatga ggatgaggaa gaaatgaggg aacagccgag tagcagccag      1440
     aaggatgcgt gcaccacaac atcacaatca cacctgagtg agggaacatt cggaaagnac      1500
     acacacaaga gtgaaagcga ggatggtagg gaaagggaga agatgcagga aaaagaaaat      1560
     gagagaataa aaaaagaaaa tgaggaatga aagagaggat gaggaaagaa gaagaacggc      1620
     tgcaagagtt aataaaaagt agtgaagagn tggggactaa agtttcacag aaaaaactgt      1680
     cagacgaccg ggaggaggaa gacaagccgg agagccagtc tgaagaggag gatgacgatc      1740
     aaggagaaag cgacagcaat gcggaccagc agagtgaaga catctccgag gggagctggt      1800
     tactgccgtn ccgaganagg agcggagacg cagcggtgtc cagcactaag aggtcaggac      1860
     gaacctataa cctacagcta cagatggaga aaaggggaac agagagtcgg atgaagctac      1920
     gacagcgaaa gaaggatcaa ccccgagaca ctgaaccaga tgagatatgc cataagatgt      1980
     gcccactgat aaccaaggga gcgcagaacg actatcggta cgtaccatgg tcatttatgg      2040
     acatgataac gcttgcagga aaactgactc ccatggcaga aggagctgac agatggatcg      2100
     aaaaactgga ggagatcact ggaggaatca agctggcagc aggcgacatc aaagcgttgt      2160
     tgataaagac ggcaggacaa acagcggcag cggagatctt cagagacgct ggatacggcg      2220
     cgatgacaga gtcacaccag catgatgagg tatcttttga ccaaatgcgc acacgggtgt      2280
     gggaagctct gagggaaaaa tacccctcac gaatggatcc cgccaaacta gagaaggaga      2340
     ccctgaagga agaagaaagt ccctctcagt tcctgcacaa ctatcagaag atgtggaagt      2400
     ccgagactgg gagtgagtgg gacagtacag aaacaacaaa agctttgttc atgatgtatg      2460
     taaagaatgc catgcccaaa gaggtgcaga ccaaactgaa tggggtggta ggattgatga      2520
     aactgacatg gcccgttttc tctgaacata taatacacta tgtaaatgct tacagagctg      2580
     agaaacaggc ccttgaagac cagaacaaga tgatggcgaa taaactgact caactgcaga      2640
     tcggggagct ggcaaagcaa aagaaggagc gtgagagacc caagtcccaa gcagctgtaa      2700
     gagcagccaa cccagagccc gagaaggaac cagaaatgga gagggtaacg caagcaccta      2760
     tagtcacacc tgtaatgtct ctacctcccg ctccccaggc ggcacctgtt atgccccaga      2820
     ttctccctgc agtgccacct actggtcaac tccaagccca accgatgcca ccaatccatt      2880
     tctacctcaa tcagggagga agcacccagc aaccaacagc tggtagagga aggggtggcc      2940
     cgcccatgag aggaagatgg aggagacctc agggaccaca gcaaanccaa gggcccccac      3000
     taggaccagc gccatcgcag tacccgaatg tactccagtg ttggggatgt ggacaagcgg      3060
     gacacatgca acgacagtgc ccagttaacc catgggcagg accccagaat cctggcccag      3120
     ggcccatcca acctggaacc gtacctgccg tacaaaccaa tggaccatgg atgggtccag      3180
     cggcgtactg gcaatagggg tgcccagagg agccagaagg gaaggggatt atgcctatac      3240
     taacacaacg gccaaacgca gaaccaaaaa taaatgtgac tgtgtataat cgtggatatc      3300
     aattcatgat agacacaggg gccacatatt cctgtatagg taaagacgga gccaaccttc      3360
     ccctctcaaa ttctaaaatt cgaacaatag gcttctctgg gaaaactcaa gtgataccaa      3420
     tgactaaacc ggttccattg caaataggaa agagaacaat tcacgcatct cttttatatt      3480
     cagcagaggc accaaccaac cttttgggaa gagacgtact gtgtcaacta caggcagaga      3540
     ttaaatgcac accagacggc atctactttg aagtagcagg cgaacagcca ggtagaatac      3600
     ctgtccccat gatgtcacta acaagttcta cagagtctcc acagatgatg caccacaccg      3660
     cagaggctca agtcttctgg ttgagattga caacatcgga ttctttcctc tactacgaat      3720
     gggaaacctg gagacctttg gtaatgaatc actacgacac atctaaagaa ccgacactgc      3780
     aattacactg cacaatgttg tatgatgaga atcacaccca cgaggaatac gaacagagtt      3840
     gggatgagaa tataaataac aaaatcacag ttctccagta tgaagacatc gtagtgggcc      3900
     cacaaggagc agctgccata gtgaagttgc agaatgatgt gaccaattgg ttccaaatct      3960
     ccgactcaac gccacacgtc actctgctga tagcggacgg atacgagtca caagatctgg      4020
     gacctatggt aaagaaagca aggcaaatca aggactggat aaaaacagac tgccaacaaa      4080
     tcagcgtgtc tcctgatgga caattcttca agatcgcatt cacccttgca gacgaggctg      4140
     tagcagaaaa ggttagactt ccaagggaaa gagttaggca catgctaata acagaggaac      4200
     acgccacact gttagaacag gttccatcac aagtatggtc tcagcataaa actgatgtag      4260
     gttttgttaa atcagctgaa ccgcagaagt ttagtgtaaa accaggtgtt agattacccc      4320
     atcagaggca gtaccccctt agtccagaca aaattgaagg tataaaatcn accataacag      4380
     ggttagaaaa tgcaggagtt ctgataaaga cgcgtagtgc atgtaatacc ccaatttttc      4440
     ctatcaaaaa gcccaacagt gatgagtaca ggttagtgca tgatctcagg gcaatcaatg      4500
     ccatagtgac tgaagaaatt ccaattgtgc ctgaccctca cacgttgtta tcaaatatac      4560
     ccccgggtac taagtggttc acggtaattg acctatgctc tgcatttttc agtgttcctg      4620
     ttcatcctga atctcaatat ctgtttgcat ttacttatat gaatcaacaa tacacgtaca      4680
     ctcgcctgcc acaagggttt gtacactccc cctccatctt taaccgcatt cttgctaacg      4740
     atcttaacca tctagacatt caatcaacta ccttgatgta tgtggatgac attttgattt      4800
     gttctgattc caaggaacag tgtgagaaag attccattat tgtgctgact gctctagctg      4860
     agggtggcca taaagtaagt aagaaaaagt tacaattctg tcaacaaacg gtggagtatt      4920
     tgggcagaca gctaagtggg gacaagaggc atatagcccc gtcccagttg gaagccataa      4980
     gcaaaatacc gaaaccacaa actgttggtc acatgttgtc ctttttaggt atggccggtt      5040
     acagtagacc atggatttgt gactatgctc tcaaaacagc cccattacga gccatgatcc      5100
     gtgcagcagg acaagggtcg caatcagccc ggctgcagtg gaccgacgaa gcagacggag      5160
     cattccatct gctaaagaaa gacctccaga ctgccccggc gttggccaat ccagattaca      5220
     gtaaaccatt ccatttgtac gtggcagaaa gacaaggata tgcatgtgca gtgttgatgc      5280
     aagacagccc cacaggtaaa caaccaattt cgtattatag caccaaattg gatagtgtgg      5340
     aggaggggct gccaccctgc tatcagggat tggcagcagc cgcctttgct tacaaaaagg      5400
     cctcagtaat nacaatgggc catccggtgt ttctatatac gtctcatcaa ctgcatgcaa      5460
     tgctcacaag tccacgattt gtgattactc aagcacgtcg gacgggttat gagatcctgc      5520
     tatcaggacc tgacctgacc atacaaagat gtacaaatat caatccagcc acaagaatgg      5580
     tgctgcccac agaaggggca ccacacgatt gtcttacaga aacagaaaat tttatgaaag      5640
     taagagatga cttatataat caccccatcc catccgacct gacactgttc gtagacggtt      5700
     catgtgtcag gggngaagcg ggcaccaggg cagggtatgg catagtacag ctcaagccng      5760
     acggcacgta tagtagagta caaacggtta gcctagacca accctgctcn gcccaattgg      5820
     ctgaaatcaa agcgttgaca gcggcntgcg aattngcagc cgacaaaaga gctactattt      5880
     atacagacag tgcatatggt tacggtgtat gtcacattaa tgcaagtatt tggaagcaaa      5940
     gaggttttgt gcgtgcagat ggcacacctg taatacatgg tcaagcagta aatganttaa      6000
     tacaagccat gcagcttccc accgcattgg ccatagtcaa gtgtgcagca catcaaaaca      6060
     gtaaatcacc aattgccata gggaataact tagcagatga agcggccaaa gaagcaacgg      6120
     gccaggtmat acaaggaccc atgttgtttg aagaagattg tgcccccatt accagtttgg      6180
     cttcactgat tgaagcacag gacaaagttt ccgctgcaga aaaacgtctt tgggtacaaa      6240
     ggggagctgt ccgcacctcg catccccatc cngggttatg gcggggtttt ngaggacatt      6300
     ttgttttgcc attgtcatcg ttacccattg cnatnaagaa gatgcatgaa ccngaccact      6360
     gttctagagc ncaggtcatt cgnaaattac aggcggtctg gtggtcnccn tacatgacnc      6420
     ccatggttga cagagaattg tcattgtgtc cccactgtcc taagtacaat gttcggaaga      6480
     tgttcacnca gccnttggct cacattccac taccggacgg cccttttcga cacctgatta      6540
     tggattatgt ggatatgatt gatcgtgtgg aaaggaaaag atatatgttt gttgttgttt      6600
     gtangttcag cagatggatt gaggcatgcc ccacctctaa agctgaccac aagtctgcag      6660
     caaggtttct gtgtagagag gtgtttccca gatttgggat gccagacaca atatcntctg      6720
     ataatggccc acattttgtc tctcgagtta tacaggagat gttcaggctc ttggggatca      6780
     agcaaaagta cgggtgtgtn taccatccac agtctcaagg ttcggtcgaa cgggcnaatg      6840
     gcgttctgaa aaccaaaata nctaagatca tggctgacgg caacgggaag ntaacatggg      6900
     tggacgccct ggcccatagc cttaatggct atgcgttctc aaactaaccg actaacccat      6960
     ctaactcctc acgagatgct cacaggtcgg cccatgcctc ttccccagat cagaggtcca      7020
     gtggagggcc cggcttttga acaactggag cgtgaactgg gtgactacct acgtgcatta      7080
     actcaaatcc acagacttnt gttccaacag gtgaaagaag cccacagcan ggacgagaca      7140
     cgcatccctg ttgacgtccg tgacgttcaa gtgggggacc tcgtgttcat acgggtgttt      7200
     agacgccagt ggaacgaacc gcgtagggaa ggacctttta aagttgtact taccaccccc      7260
     actgccctaa aagttgaagg taagcccttc tggttccata agaaccactg cacccgccac      7320
     agacctcccg accctcctgg acactttcca ggcccgtcgg agtctgagca tgctgacagg      7380
     gagacgtata gtcaccctct ggccgttagt ccaacacact cctccacaag ctcctccacc      7440
     acctcttcct cacgctcttc gagcactcac tcccgttccc cacatgggga acgcaggtcc      7500
     gccagggtgg cagcccgacg gcttcgccag tcacantctt ctgattcgga gcatgttgnt      7560
     actcccactg ccagtcctgg gcctgctgta tcaccgcttc cggaccgccc acccacgcct      7620
     ggnaaagaca ttcacctaca tccttctgat ggcagtgatt ctgaagatgc tgccatggat      7680
     tcatcagctt cgtccccctc gccgccgggg ccggattggc ttgctgatta gttgcatgat      7740
     gatgatgtta acccttaacg gnttaacaac gggggaactc ttgaggacaa ctaacccgaa      7800
     cacacaccac acacaagcac tagacacgtg tgccctggct atgatcacac tagcaactca      7860
     caagggaata gtaaatagga acaatggaga aatcaaacgg ataatgcatg tcaaagcaga      7920
     tacttatgat tttgtattaa cagaaatntt gggaaccgag tcaataggta agcattggct      7980
     gggatatccc caaagcatgg actgccgtgg ggaagggacg gtgatcattc aggtgagatg      8040
     cacacagtca ggatgtcaga atgagcaaac aggaaaaggc tgacagtaaa ggaagctgaa      8100
     agtaaagtaa aattgctaaa ttcaagacgg aaaagggact tagataaatt aaaaacgtca      8160
     cattgggaca caaacatgtt ccaacagtgg ataatgtact cggcgaaatc aatgtttgaa      8220
     gctagccaac ggaagaaaca agattgtatt gcttgctata atgctaaaaa actgccacaa      8280
     atccagggga taccaggagg tgagctaggt ggatgcccgg acatcactaa atgttttgcc      8340
     ctctgtgcaa tgcacatggc aggaggctta ccgccatggg ataatgatag aaaagtctgt      8400
     cctacatttc tgtcagacga cgattatgat gtagtaaaag cactaccccc agtagtgcac      8460
     aaaccggcta acaacatctt ccctttctgt atagctcgag gacaggagtt ggaagaggtt      8520
     gtccatagag ggtctccaaa attgtcggat gcgggaggac tggtgagatg cagcagaatc      8580
     gattggtacc cggagctaac ctacgggaac accacagcaa ccatcaaact atgtgagacc      8640
     ggcccaaagg cccaaatgca atgtaaacag atagtaccaa acgggggagc aataatctat      8700
     gaacaaactt catcccacat agctcaatac agtttgttag acttaacgga tggcacaagg      8760
     ccattgggag atgtcttctg gacttgtgaa ggtaatgaca ccctgatgct aactttacct      8820
     ccaaattggg aagggatatg cgccccatta atgttaacgg gacagttgtc attgattacg      8880
     caaagggcgc aaccaaatca ggcacctcct agaaaaaaga gagacaccca ggacactttt      8940
     gaaacttggg actgggactg gaaagcaaca aatgaaattt atatcacatg ggatcaggtc      9000
     ccatatggtg taccagaagg tcaagtagcc ataggctcca catggataaa agccggacgg      9060
     ggagcagggt cggttccaat ttatggctca attgcaaatg ctcagtatat agctcgaaat      9120
     agtcgttgga taaattattt gtggtacaat cagcagaggt tcatgaatta cactgtaaaa      9180
     ggactgtcat tagtgcgaga gcaattgcat gccacatcaa tgatggcttt gcaaaataga      9240
     tttgtgatag aatcacgcat ggcaggagat caaggcatat gtgatgaaat tggagaagac      9300
     tgttgcactc tgataccaat gcacacaggt gccaacggca gtttgacngg agttctgaac      9360
     gagatgagaa agatgcgcga cgagcatgta agaaattcca attggaacac ccaagttaag      9420
     agtttctggg attggatggg aaagttggga tggctaaagt atctaaaaat ggctgggatg      9480
     gtactgggag gaatagtgct ggtggtattg ctggtggtct gctgcatcat cccattactc      9540
     cgtatantaa tatcacgcat ttttattagc atagccggac aatatcctgt agtacaagtg      9600
     caaattgaac cggagtcaga gtatgttgaa attgacccac cagagtcaga gtatgttaac      9660
     attgaaccag agtcagagta tattgagcta tgttgactca caatgtaccg aaccaatagg      9720
     gaaagaaatg aaatgatcac cacccactcc ccacaaggta tgtaacacta atattgtaaa      9780
     tatgatagta aaagactaac actaatcagt agatagttat aatcagtaga aaantacgta      9840
     gagtgattga agtgaatgga tgttgagaga aacttaatgn catgtctcca tcacagactt      9900
     ttgaaaatgg cggaggcttt ctatactgga ccccaactga ccatggacga ttggcagccc      9960
     cacggcactg acantagaaa cgaaaacaca tacacacccc taggaacacg acatgtagag     10020
     gcaaacacac acactcccaa caggtaccca agatggagcg agggagtccc tgacccgctg     10080
     atggagggat cagacggaca ncagacggaa gagccagcga gtcttctact aggtctagct     10140
     gcgggccaag gggggttggt gccccccgga tttcggtaca gcccagagag cccggaggat     10200
     ccagcagacc ggggccagct cgtgatccat gaggaacaac caacggcagt ggttctccta     10260
     tggccagacc atcatcaccc agacgaccac ctcccctgct catcgtcagc aacgaggacc     10320
     aagtccgtct ctccaatttc ctgagtcgcc ctgttgagca atacagtcca gaagacctcc     10380
     gtgctgagat cggtgggatg cccaccagag tatataccgc catgaaaata ggcttgaccc     10440
     aagcagcccg acaacagctt caacgcgttc ggaaacaggc gtaccagcag acccgagaac     10500
     gaagcctgag gaacctgcag aatgaacgta cnacgttgag naagcaattg gctacagcac     10560
     gacgaacagc tatcgacctg cacaacagat tgaggcaaca gcaagaagca tatgaccgag     10620
     ccaaggatac catancacac ctacgtcaaa cccaaacact cctcgcgcgn ttctgtaatg     10680
     cnagattgcc acagggcagt aatgccttgc ctggactgaa tagtcatccg cgaagggggg     10740
     aggaaagaag ttccctgcga acactgccta gccaccgccc acactccccc gaataccggc     10800
     gcgaggagta antgtgcatg acaaatgtta ttaatgtctg atggaaaaac acggtgatga     10860
     cctatgctaa tgttatgact aacgattaat ggttctggaa aaattacata gtatgagtga     10920
     gagtgtgtta tatatgataa ggcgatttta acaggtagat acgaatgagt antaggaaaa     10980
     gggaacataa gctccaaggt tatgagggtt tcgcttgaga ggtgtctacc tgtatcggcc     11040
     tgcctgttta gcggatgggc agcgtgctga gtanaaacaa acgctagcaa aaagtttcct     11100
     ataaaaaaaa gtcttaagag gagtattcct cataagggta ccaggagaaa agctccttga     11160
     acagactaag agtaactggc tgtgtaaaca gaacagactg ggtttgttaa tgtgtgataa     11220
     tcacaatata atcatgaagt atatccaagc atgtgtgaaa tatatatata cttgtaccaa     11280
     tgtgtgatcc gtagtggtgt aacgctaccc tttgccacct ggttggggtt ttacctcccg     11340
     ccgccaatgg gaggatgttt ccctggccat gtctgcaggg tgtagctagg agcccagcag     11400
     taacgatcac tggaccatca gtcccgagat gggtttcggg tggagtttcc gactgctctt     11460
     ncagttggaa ttccgccttg tggtgatcct tactgaggga tggttgattc aaataatata     11520
     ctgaagtgat aagcgtagta ccctcactga ttactggact agtaatttca ctgagtgctg     11580
     tagtttttgc tgtaactcct cttacctcgt gaagatgtgt gcctttgtgt tncacccctg     11640
     tttgagtggc ccttgtcagg accanagggg ggaaa                                11675
//
ID   FUGUREP2  repbase; DNA; FUG; 312 BP.
CC   FUGUREP2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Interspersed repeat; FUGUREP2.
XX
KW   Interspersed repeat; FUGUREP2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-312
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 21 (2002)
XX
CC   An interspersed repeat of unknown origin, but with satellite-like 
CC   quantities. The terminal simple repeats may represent preferred 
CC   target sites instead. Alternatively, the consensus may end 
CC   prematurely in regions that tend to spawn simple repeats. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 312 BP; 71 A; 33 C; 102 G; 105 T; 1 other;
     tgtgtgtgtg tgtgtgtgtg tgtgtgtgtg tgtgttcttg tacttgctac atactgagta        60
     ccaaaatact cattctacta gcaaagtgag gacatttttg ggaagtgagg acattttggc       120
     tggtcctcac aacttcaaag gactgtttga gggttaagac gtggttttaa ggttgaggtt       180
     agaattgggt ttaggttagg gtcagggtta gggtcagggt tagggttagg gtnaggagct       240
     gggtaatgca ttatgtctat gaaagtcctc acaaagatag aagtacaagg atgtgtgtgt       300
     gtgtgtgtgt gt                                                           312
//
ID   FUGUREP3  repbase; DNA; FUG; 744 BP.
CC   FUGUREP3 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Interspersed repeat; FUGUREP3.
XX
KW   Interspersed repeat; FUGUREP3.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-744
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 22 (2002)
XX
CC   Repeat of unknown origin; faint homology at protein level to 
CC   Arnold4 in Arabidopsis (E val 0.009), probably not significant.
CC   On average, copies have accumulated 18% substitutions (Kimura).
XX
CC   [1] (Consensus)
XX
SQ   Sequence 744 BP; 226 A; 172 C; 159 G; 186 T; 1 other;
     ctaaagcggg gtacacacat aaggattttc taaatcttaa gagattttta tctgttagag        60
     accccacaca tgaagataaa aaatcaggca ttgaacagtt ttgatcgtac tgtgtgtggt       120
     gtgctccgat aatctcaacg cagcacacca cacacatcaa gattctgtcc caccgccgat       180
     ctagaatctc gtcctccaag ccagaaatct cgcgtgatca cacgtgatct aacaaaaacg       240
     aagaagaaac atggcaacaa ccggaaaaca caacacgcaa catggaagag gacatacaag       300
     aagagggaat gatggtggtc ttgggactgt ttttaaaata aaataaaaga ctgtggagaa       360
     aatcctggag gcagcgcgaa catgcttgtt tttatttacg cctgcttcct tgttcctcag       420
     tcagctcgct tcttgattgg ctacattccg ttccacgtca caattcacgg agtcctgact       480
     cgggagtcgt cggctttccc cacacacgaa gatttttggt cgtaaatatt gaacaagttt       540
     aatatttacg attgtcggcc ccgaccgttt tcggagccga ttatcgggac aaattcactc       600
     ttaacacacc tcagaccaca ggataatctt ataggacaat cttataagac ataagataat       660
     cgggcgtttg ccgtccttgg tcgggaaggg ggaaaatcgg gacaaaaaca gcccgattat       720
     cnttacgtgt gtaccccgct taag                                              744
//
ID   FUROUSHA1 repbase; DNA; FUG; 2927 BP.
CC   FUROUSHA1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT-class; Tol2-family; FUROUSHA1.
XX
KW   DNA transposon; hAT-class; Tol2-family; FUROUSHA1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2927
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 25 (2002)
XX
CC   FUROUSHA1 and 2 are representatives of the Tol2-branch of hAT DNA 
CC   transposons. The product of ORF 584-2056 is most similar to the 
CC   human transposase-derived gene Tramp (47% over 398 AA).
CC   Copies are flanked by 8 bp target site duplications.
CC   On average, copies are 4.5% diverged from the consensus.
CC   Furousha is Japanese for vagabond/tramp.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2927 BP; 841 A; 585 C; 653 G; 847 T; 1 other;
     tagtgatggg caaatgatac cgaggcttcg gagcttgtgt cactcttccc gaagcggagt        60
     gattcgaaac gctgtgtcgg agcttgtatc aaaacaccag tgtcacgtga ccgatgacgt       120
     tcgaagcttc gaacgtcatc gctgtttcgc ttcgcgcttc attgcttcaa aatgtttcga       180
     agcctttcat tggctcagtc tttcagtgtg tgtcattggc tcatggcgtt tcaatgcatt       240
     ctgagacaga tttgagtggt ttgatggcat accagctata taagatgcat tattatgctt       300
     caaaattgtt gggttgtgag gagatagaga tttggagagt gagagttaga gtattttggc       360
     aagtttcatg gcgagtacca ccaataagcg acgttctaga gtttgggatc attttgatct       420
     catagcacca aataaggtat aatgcagttc atagcataca ttttatgttt ccataattga       480
     attgtatttt taatttttaa atgggtctca aaattacaat tgcttgtagg tgcggtgttt       540
     gcaatgcaca caagagttgt cttacagcaa caacacatca tctatgctga gacacttgcg       600
     tgctcggcat gacgacaatc atgaccctgt caacactgga aatcctgaca gtaagctaaa       660
     tatatacgta tatatactgt atatatgtat gtgtgtgtct atttattgta gatgttgtgt       720
     atcgtattca tatagcaacc attctcccac agtgtccaga aaacagaagc tggatgaggc       780
     cttggtggac atgatcgtta aagatggtca gcctttttct atcgttgagg atgaagggtt       840
     ccaaaatttc attaaaatcc tggacccatc atactccatt ccaagccgca aaactgtaaa       900
     ggcaatggtg gaagcaaggt acactgtagc caaagagaag gccttggcag aaattaagca       960
     gacttcagct gttggtttga ctgctgacat gtggacatca gtcaacatgg atgcgtacct      1020
     tggtgtcact tgccattatg tgtcagacag cctagatctg gctactgtgc ttttaggtgt      1080
     gcagtatttt cctttggccc acactgcagc taatatttca gatgcaattg caaatttgat      1140
     gacagagtgg ggaatcactg aaaaagtctg tgggatggtt actgatgggg ctcacaatat      1200
     tgtggcaagt gtaactcagt taaatgttag acatatttat tgctttgccc acatgctaaa      1260
     tctcgttgtc aaaaaatcac tctgtcagac gtctgagctg gagaacatgc gcagtagggc      1320
     ccgcaaaatg gtggcacact tcaagtccag ttccaaagca aaggaaaagt tgtgttctat      1380
     tcaagctaat atgggcatgc cccaaaaaaa gcttgttcaa gaggtcgaaa ccagatggaa      1440
     cagcacttat gccatgctcc ataggcttta tgagcagaga gaacctttag gggcagccct      1500
     ggcatcactt agcactgact tggtgccttt cactgctgat gactatgcag caatcaacca      1560
     ttgcctgaca gttttaaggc cattctatca ggcaactgtt gagctttctg aggaaaggag      1620
     agtgtcaggg tcaaaggcaa ttcctttagc caaaatgctg agacatgtca tttctgccga      1680
     gtgtgcccaa atggctcctt gtattggtgc cacgcttgcc aaccatttga aaaataattt      1740
     aaatgaaaaa ttcagtggct tggaaaaggt gaactccctg tctgtggcaa ccatcttgga      1800
     tccacgattt aaacaggctg gctttacgaa tcaaagcaat gctcaggctg ctgtggaaag      1860
     gctgacacga gagtgtgcca gtcttattga tgggtcggca gaagatgtgc cactggagac      1920
     tgcaacaaca tctgccggtg ctagtgaaca aaatcacaac ttgtgggctt tactggacaa      1980
     ctatgtagag tctcagcact gcaccagcag cgcatctgcc agcactgctg tggagatcca      2040
     gaggtatgca tgttgattac tgttgaaaca tcagtttttt tattcagtca ttcattgtct      2100
     tactgtctgt gtcatagata tttgaaagaa caaattctga caagagccga ggatcccttg      2160
     aagtactggg tggcacgaaa gactttatat cctacgctgt ggaaacttgc atgcaagtat      2220
     ctgtgcatcc cagcatcatc tgttccctgt gaaaggatat tttccaaagc tggggagctg      2280
     gtcagccaga agaggagcag accgaagcct gcaacagcag aaaaaatgat atttctcaat      2340
     aaaaacctgt gaagaggaaa taacttgtct gcttctgtga ataatcattc caaatcaaac      2400
     atacaagtcc ccaaatgaca aaccattatc tttaaaggtt ttccttaaaa acacttcaca      2460
     cacacaaaaa caatgtttct gaattcaaac accatgatca tttgcaaagt aggaaggatc      2520
     tctaatcctg ttagggactt ttagtacagt ttttaaataa atctcaaagt gttcaataaa      2580
     cccttaacca acactgaacc cttaatataa tttgcattta ttctttgggt taatcttgaa      2640
     tgtgttttag agtaaggggg agagcatctg catattttat tgtaaagacg atataatcat      2700
     tatttggtat gaatgaacaa aacncctgga tgagcacaca atgaactttt attggtgtca      2760
     tgggattgaa acagtgccag tgcttcagtc gtgctcttta gaggttgcta tggcttcagt      2820
     tgtccaccag atgtcaccat cactgaagtc tcgaagcttt gaatcttgtt cgacacaatt      2880
     gttaggaaag cctcagtgct tcatgaggct tcacttgccc accacta                    2927
//
ID   FUROUSHA2 repbase; DNA; FUG; 2555 BP.
CC   FUROUSHA2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; hAT-class; Tol2-family; FUROUSHA2.
XX
KW   DNA transposon; hAT-class; Tol2-family; FUROUSHA2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2555
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 26 (2002)
XX
CC   FUROUSHA2 is closely related to FUROUSHA1, being 70% similar 
CC   (DNA level) over the coding region. Their transposases are at 
CC   least 58% similar. Most copies are represented by the FUROUSHA2A 
CC   internal deletion product and a fragment is still missing.
CC   On average, copies are only 2.5% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence  2555 BP;  790 A;  500 C;  551 G;  690 T;   24 other;
     tagtgatggg acgagcgaca ctggtgcgtc agcactgtgc cgagagctca agagtgaaac        60
     cccgtatcgg tgcgtgtatc gctttaagaa agaatcacgt gaccgataca ggaattgtat       120
     cgtttggatg tgccgcgcca aagtgtgttt ataaggaaac aaactgtatc gacatgtcgt       180
     gggtttgttg gatggagttt tgcagttgcg cgattatgga tcgttctaag aagttttccc       240
     cagtgtggaa taattttgat cttgtgactc caaacaaggg aaatcttttt ctcctttgag       300
     cattgtttac tgttgtatac aatttttaac ggtggcgcnt tgcactcact ttatcaagtg       360
     aatgacctgt gatacatatg atagtcagtt aaagagcctt acagttgctt tattcatttt       420
     atctcataat aacgagatcc tgatctcgaa atcatgagat agggtgtcta tttttttaac       480
     aagtgaatgc aatgcgccac cttagttttt actctgttct agtaagaggt ttgaattgtt       540
     tgtaactttt tatgttattg taggtgaagt gtcggctctg ctccacagag ctctcttaca       600
     tcaataagag cacttcatca atgctgaggc attatagagc tcggcatggc aatgaagaat       660
     tggcagatac tcgtgagaxx xxxxxxxxxx xxxgctctac cnagcaggaa ggtatgttta       720
     aganatgtta ttatattttt gtactaacta tataactata tnttattggt gtnacagtat       780
     ttgtntggtt attttcagac catcaaggac ttggtgagcc agagatatga ggaggaaaaa       840
     ggagaaaaca aaaaaggacc tccagagcgc cgttgctgtt actttaacag ctgatatgtg       900
     gacgtctatg aatatggagg catatctagc cgttactggc cactatgtgg acaaagaaag       960
     ccatggactc cattcatcag tcttgggagt gcagcatttt cctcagaaac acactgcaga      1020
     aaacattgcc acggttaaaa ggagcctcat ggaggagtgg ggcatngcgg gaaaggtcag      1080
     gtgtcttgtc actgatgcag cagcaaacat gacttcatgt gctcgaatgc tgcaaatacg      1140
     gcataccatt tgtatagccc attccatgaa tttaattgtg agaaaatcat gtgatcaaat      1200
     cccaacaata acagaaatac gcaacaaaac acgacacatt gtganatact ttcgatcgag      1260
     cgtgactgct aaagagaagc tcactcaaat acagcaacag ctgggaacac cggtccataa      1320
     attaataaac gaggtgccaa cacgatggaa cagtacctac caaatgtttg aaagaatgac      1380
     tgagcagaag gaggcagtct gggtgtcact ggcctcatta aaaactgaca tcactccact      1440
     gactccagaa gaatgtcaaa tcattgaaga gatgctcagg gttcttgctc cttttgacca      1500
     agccacaaga gaactgtctg aggaaaaaag ggtctctggg tcgaaggtca ttcccttgat      1560
     gagaatgatc cacattgagc ttcaacgtca ggccacaaca gtgacaaaaa cagctgctca      1620
     acaactggct gaaaacctga gaaagcggct aactgacgct atttgcagca tggaatcact      1680
     cagtgtgatg acactggcaa cactgttaga tcccagattc aaaacaattg gatttgttag      1740
     tcaacaaaag gcaagtgaag cggtgaagag actgaagtcg gagtgtgcgg aagaaatgag      1800
     gagccaagag cctgacccaa cagaagagag cctagctctt cacatgggtc agaacccagt      1860
     tcaggtatgg aaacacattt ctttgtgttt attcgtatat ttctgtggca ctttgtcatg      1920
     tgataataaa ctaatgatta actatttttt agggnacaat ctctggaaaa cacttgatat      1980
     ggaggttgca gagacccaga agacctctaa cgcaacagct gactccataa ttgaagtcca      2040
     acgctacctg gcagaaggaa acacacccag aaaccaagac cctttacaat attggaaacg      2100
     gaaccagaaa acatatccac atctgcatca acttgcactt aaaactctct gctcaccatc      2160
     gtcatctgca ccgtgtgaaa gagtattttc taaggctggg gagctggtgt ctaagaggag      2220
     aaatcgcctt ggagcaaaga cactccaaaa acttttgttc ctcaataaaa attcataaac      2280
     taatcacttt tttgtattat ttcatatgat ttaacagtta agttaacaaa gaatgtgtgt      2340
     acataagtaa aaaattgtaa ctctgaattg taactcaaat ttgctatatt ttacatacca      2400
     actcagttta gcaaacaagg aattccttta cctgcaatca ttttataact actgcagggg      2460
     tcactattgg gtgaccaaca cagtatcaat acagtgccga cacagtttgt gtagtgtgtc      2520
     aatacactcc ttgaggtatc atcgtcccat cacta                                 2555
//
ID   HP_FR2    repbase; DNA; FUG; 1079 BP.
CC   HP_FR2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Putative non-autonomous DNA transposons; HP_FR2.
XX
KW   Putative non-autonomous DNA transposons; HP_FR2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1079
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 28 (2002)
XX
CC   HP_FR stands for 'HairPin in Fugu Rubripes' and could be changed 
CC   if it can be further classified. HP_FR2 has ~300 bp TIRs. 
CC   The terminal TAs probably are target site duplications. 
CC   On average, copies have an 18% Kimura substitution level. 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1079 BP; 328 A; 207 C; 213 G; 328 T; 3 other;
     tatggggcgc caaatgtaaa aatgtcactt acaactagtt ttctcacatt cagctaaatg        60
     tgacaaagtc taaaagtaaa tgtgaaatgt aaatataaat attatataat ataaatacaa       120
     atgttaatgt aaatgtaaat gctaaatgta aatctaaatg ttaaatgtaa atgttaaatg       180
     tctcaacgag tgtaaaacta aagctccacc tcaaacagcg cacagccccg cccatgctga       240
     ctcaaatcag agctgactca aacagcgcgc acagccccgc ccacaactga ctctggatcg       300
     gtggacaaca tggccgtcag ctccggtgtt ctgtcgattt ctgctaccta tcgaaaagtg       360
     ctactgtgcg gttctgcgca tgngcagtac ctcatcactt tcacggccat anatttttgc       420
     tccgtgcatc tcaaatggtt attaaacaca tgcggtaaga gttaatatgt agcctacgtt       480
     aggttgcata ttggctttgc tcttgaatat gaagatcgga taattaaata attaattgcg       540
     tacgctgtgt cgctgggagc attatttgat ggggcgctgt tggactatca aatatgctcc       600
     ccctaaaata ttgattaaaa cacagaagaa aaccatacaa gatatatttt tatagggtaa       660
     cgttagcgcg aatagatgta gacacaacta aggtaaaagc agcggtagca aaattcaaca       720
     aggcagcaga gtttggtcta tttcgcttca gtttccctcc agcgttgtcc accgatccag       780
     agtcaggtgt gggcggggct tgtgcgtttg aggtctctga gtcatgactg actcagatgg       840
     caccgtgggc ggggctgtgc gctgtttgag gtggagcttt agttttacac tcggcgagac       900
     atttaacatt tacatttaac atttatattt atatttaaca tttacattta cattaacatt       960
     tanatttata ttatataata tttatattta catttcacat ttacttttag actttgtcac      1020
     atttagctaa atgtgagaaa actagttgta agtgacattt ttacattcgg cgccccata       1079
//
ID   RONIN3_I  repbase; DNA; FUG; 4349 BP.
CC   RONIN3_I DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN3_I.
XX
KW   LTR retrotransposon; long terminal repeat; Gypsy superfamily; RONIN3_I.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4349
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 43 (2002)
XX
CC   This consensus is derived for all copies <15% diverged from this 
CC   consensus and is 73% identical, over its full length, to that of 
CC   Ronin2. Several other closely related Ronin elements are housed 
CC   in the Fugu genome. 
CC   The average substitution level of copies is 10%, but this 
CC   reflects the existence of multiple subfamilies 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 4349 BP; 836 A; 1329 C; 1091 G; 1075 T; 18 other;
     gaacaatcng accagtatgg acccggcaga cagcgactca gttcgcaaga ccttggaggc        60
     tcagggcagg cttctcgggc acacgacaag gtccttctga catttggaca tctctccagg       120
     atctcaccac cagcgtggct gacctcctca cccaaggtna tccgggccag tctccagccc       180
     cttcgacctc agcagctcca ggagttgtca ctcagctggc ctccattcct tcctctgccg       240
     ctgcaccgcg tgagcctcat gtccccattc ccgagcgtta ttctggtgag gcgggcaggt       300
     gcagtagttt tttgttacca gtgctcctta gttttcgacc ttcaacctct aacgtacccg       360
     agtgntaaat ctaagattgc ctttatttgt tatccggaag ggcagcgcaa tgggctactg       420
     ccatcattga aaatcaaacc ccggtatcta ctcactaccc ttccttcncc acggagctca       480
     ggcgtgtgtt cgaccacccg gtccagaaca gtgaggcagc atcgaagctn ctntctctgc       540
     accagggggc tagtgccgtg gctgattgtt ccatccactt ccggatcctt gcggccaaca       600
     gtggttggaa tgacaccgcc ctccggggag tttatattca ggggctggcg gaggaactaa       660
     aagacgagtt ggcagctcaa gaggagatgc cagatttgga gatgttactc gacctcncca       720
     ttcaatgtat ggacaatcgc ctcagggaga gagggagaga gagggtcagg ttgcgtcatg       780
     nggtttctcc aatggcgtct ggcnggttga gtggcgctgc ggctgaacca ccaacacgaa       840
     gccatgtccc tcctcctgaa gtcgcagctc tgagcccacg cagctgggac gaaccagact       900
     ctcccattcc gagaggcaga gaaggataac cgccaaggtc tgcctgtact gcggtcaacc       960
     aggccatttc attgctgcgt gtccggctcg gccaaaagac taagctcgcc agcgcatgca      1020
     ggagtgttgg cgagcggagc ttctccctgt ttctctccgg cccgtttgat gctgccaggt      1080
     acgcttcttt ggtctcatga caccatctct ttgtctttcc ttgtcgattc cggtgcagat      1140
     gacagtttca tcgaccagga tctagtcaca caggccagca tccccactga ggttctgtcc      1200
     gagcccaaga ccatcctcgg tttaaacggg gaaatcctgg ccaaaataac tcatcgaacc      1260
     gcacccttaa ccctcgtcgt ctcgggtaac cacagggaac agattcagct ttttcttatt      1320
     cctgcgtcct cctcccctgg cgtccttggt gcgccctggt tagcccgcca taacccacag      1380
     ttcgactggt cggccggtag gcttactagt tggagtgtct cctgccacac taacngtctt      1440
     cgctctgcac tctccccctc ttcagtaacc ccagatccat ccccggaggt tccngacctc      1500
     tccatggtac ctgcagaata tcacgacttg ggagcagtct ttagtaagca gcgtgctctc      1560
     tctctgccac ctcatcgccc ttatgactgc ggcatcgacc tcctcccagg agcttctctg      1620
     ccttcgagtc ggctatacaa cctctcccgg ccagagcagg aagcnatgga aaggtacatc      1680
     ggtgagtcct tggcaaccgg tctgatccgc ccttcctcct tccctgtggg agcggggttc      1740
     ttttttgttc agaagaaaga tggctccctt cgaccctgta tagattatcg agctctgaat      1800
     gacatcactt ccaagaacaa gtacccgtta cccctcctcg atgcggcgtt tggtcctctc      1860
     cacaaggctc ggatcttttc taagctngac cttcgcaatg cttaccatct ggttcggata      1920
     cgtcaaggtg atgaatggaa gacggcgttt aacacgccct tgggccactt tgagtatctg      1980
     gtcatgcctt ttggtcttac caatgcccca gccgtgttcc agtctctggt taatgatgtc      2040
     cttcgcgaca tgctaaataa gttcctcttc gtttaccttg atgacatcct cattttttct      2100
     gaaacgaagg aggaacatgt acagcatgtc cgcctagttc tccagcgcct cttagagaac      2160
     aaacttttca ttaaggcaga gaaatgtgac tttcacacca cttccattgc cttcctggga      2220
     ttcattgttg gacagggaca actctcacct gatcctgcca aggtgagtgc agtggcggat      2280
     tggcccaccc cagcttcccg caaacagctc caacggttct tggggtttgc aaatttctat      2340
     cggcgcttca ttcgcaatta tagtaaagtt gttgctcctc tcaccaagct aacttcctca      2400
     ctaagggttt ttcagtggtc ccacgaggct gaggcagctt tcagtcactt gaaagccctg      2460
     ttttcctccg cgccgattct gtctcaccca gaccccagcc ggcagtttgt ggtcgaggtg      2520
     gatgcttcgg acattggagt cagcgctgtt ctctcccaac gggacccagc tgatcagaag      2580
     ctccatcctt gtgccttcta cagtcgacga ctgacgccgg ctgaggtaaa ttatgatgtt      2640
     gggaatagag agctgctcgc agtggtgctt gccttgcagg agtggagaca ctggctggag      2700
     ggttctgccc aaccgttcgt agtgtggacc gaccataana acctgttgta ccttcgaaac      2760
     acaaagaggt tgaactcccg gcaagcacga tgggcgcttt tccttggccg ttttaaattc      2820
     tccctcactt accgcccagg ttcccgtaat gtcaagccag atgccttgtc tcgccagttt      2880
     tccctagatc cctccagttc agagccgggc cccatcctgt ccccatcctg cattgttgga      2940
     gctgcttcct ggcaggtgga ggagagggtc ctagaggcgc agcaatcgac tccggaccct      3000
     gggggcggcc cacctaaccg actctttgtt ccgagttctg cccgttcgga cgtcctgcaa      3060
     tggggtcatt cttccagact tacctgccac cctggnctct cacggactct gcacttcctt      3120
     aggcaacgct tctggtggcc ttccatggct cgagatgcca aggctttcat agcggcctgt      3180
     ccagtttgtg cccgtggaaa gtcctcccac caacctcctg ctggccttct caatccgcta      3240
     gacacccctc ggcgcccctg gtcacacatc gcagtggact ttgtcaccgg tcttccccca      3300
     tcggacggga ataacgccat cctcaccgtg gttgatcgtt tttccaaggc tgcccacttc      3360
     attcctctca caaaactccc ttccgcagca gagactgggg atctcctggt ccgacatgtt      3420
     tttcgtctcc acggtttccc taaggatatt gtgtcagacc gaggacccca attcacntcc      3480
     caagtctgga gagctttctg cgctgcgctg ggagcctcgg tgagcctctc atctgggtat      3540
     catccgcagt ccaatggcca agcggagagg accaatcaga gtttggagag tgccctgagg      3600
     tgtgtggtgg cccgaaaccc tgcttcctgg agttcgttcc taccctgggt ggagtatgcc      3660
     cataactcgc tggtctctgc tgccactgga ttgtcgccct tcatggcttc cctggggtac      3720
     caaccaccat tgtttgaatt ccaggaggat gaagtggcgg tgccctctgt ccgggccaac      3780
     ctgtgtcgtt gcagaagtgt gtggaggcag gtccgttctg cccttctgcg ttcctcccaa      3840
     cagnctcaga ggcaggccaa ccgccaccgt gttccagccc ctgcctatca accgggccag      3900
     agggtctggc tctctacaag ggatcttccc ctacaggtgg actcccagaa actggctcct      3960
     cgtttcattg gaccctttga gatcgaccac atcgtcaacc cctccgccgt gcatctgaaa      4020
     ttgcccccat caatcagagt tcatcccact ttccatgttt ctcgggtcaa gccggtctct      4080
     gagtcngatc tggtccctct atccgagccc ccgcctcccc cccgtgttat tgatggtggc      4140
     ccaggctaca cagttcagcg cattctggac gtccgccggc gtggacgcgg tcttcaattc      4200
     ctggtggact gggaggggta cggtccggag gagcggacat ggattccccg gcggaatatc      4260
     ttggatgaca gtctcctgcg tgatttttac cgggaccatc ccgacaagcc cggtagggtg      4320
     ccaggaggtg cccattgagg gggaggtac                                        4349
//
ID   SENKUSHA1 repbase; DNA; FUG; 2224 BP.
CC   SENKUSHA1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA1.
XX
KW   DNA transposon; Harbinger/PIF-IS5 class; SENKUSHA1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2224
RC   [1]  (bases 1 2224)
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 45 (2002)
XX
CC   SENKUSHA1 is the first Harbinger type DNA transposon reported in 
CC   vertebrates. SENKUSHA means harbinger/forerunner in Japanese. 
CC   This consensus may still contain internal deletions. The ORF at 
CC   pos 796-1716 encodes a protein (fragment) that has 48% 
CC   similarity to the Harbinger, and somewhat lower similarity to 
CC   the CANDYSTRIPE and TURMOIL transposases. 
CC   Copies are about 5% diverged from the consensus. The Fugu genome 
CC   contains multiple closely related elements (e.g. SENKUSHA2)
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2224 BP; 638 A; 476 C; 466 G; 622 T; 22 other;
     ggctgtttcc gaaaccacac actcgttccc tattcactac tcactacatg ggggacatgg        60
     attgagtgaa ctacgtagcg cactcaattt aaagttagca ttcggacact acggcgtcat       120
     ttacggcgca cgtaaagtga cgtcatggtg tcgcataata attacgaacc ggtcgccggg       180
     aaaagtggcc aggtccattt aattatttta acccatccga aacaacattc agcggtcgtt       240
     ttatgaaaat gcaatatttt accctataat taactttata taataaaata aaatattaat       300
     gtcaataata atanaataat aattacttat tacctaaaat aattagtgtc ccttgacatt       360
     ttcaagccaa gacgtgatgg cacattctca agtcatattc cgctgtagtg aaaacattta       420
     ataaagcaat ttttcatcaa gaaatggatc cagagctact tttcatcttt gtaaatattc       480
     ttttactgag atcctgtcgc ctggtgagga acagacgatt ccgaagaaca attttaagtg       540
     aggggcgggg gatcagtgaa gattgattga tttttttttt tttacacatt tatgttgtaa       600
     tattttaaga tgatcatatt ggacccctac tgaaaanaat tgtaaactac acattgattt       660
     cttatttccc aaaaatttca tatatcaaac cgcacagtag aaattacgtt aaaaaaaact       720
     tttttaccta cagaacganc acccatcaca ttattgtgtg aggaacaggc atgttccact       780
     gctggcgatg tacatcgatg gccaagctga cctccgccca gacttccgtc tctctcggtc       840
     gacggtggcc aaactcattg atgtcctgcg ctcaccgttt gaccatggct ggggtctgga       900
     ggtggaggtt ttagtcntcc ttttctggct ggcaggcgca acctcctacc gtgtggtgtc       960
     aagagnnttc tcaattccac gctccacagt caatgacatc gttcacnggg tctcagataa      1020
     agtactggcc ctgaaaaaat gtccaattat attttctaag ctggacaagc tgacaacaat      1080
     tgctgcaggc tttcagcgcc cggctggatc accagcttct gccaaagtgg tgggcagcat      1140
     agatggatgc cacnttagga tcaagccccc tggtgcagat gctcagtgtt actttaacag      1200
     aaaactgttt tattccattc agcttcaagc ngtgtgtgac caccagngcc tgtttatgga      1260
     catnttcact ggatacccag gctctgtcca tgactcgaga gtcctgaaaa acagccctct      1320
     ntatgttcag ggactgtacc cacctgaggg ttactgtatc ctaggggacg gtggttatcc      1380
     ctgtatgtcc aggcctgtag cgttgatnac accatncaga gagcangtga ggcatatgat      1440
     ggcggccagg ttcaacagac atcatgcaaa agctcgatct gtcatagaaa gggcnttggg      1500
     gattatgaag accagatggc gggcaatatt ttncaaaacc ttggaggtga agcctgcctt      1560
     tgccaccaag gttattgcat gctgcaccat tttgcacaat gtctgcctga ggaatggtga      1620
     cagcatggaa ccctcagaat cccaggaaaa ggtggtcctt ctccacccag cngcggatca      1680
     aactttggac gtcatcgtca ctccctaaag aaatcagttc aatcgatgag tctgcagtat      1740
     gtttatatca ctccaacaat atcttaaatc tccatttaaa gtgtgacaac tctagtanag      1800
     tatgattaaa atggtatgaa agagcaacga gctaactaat gcttataatc gcataaattc      1860
     taatgtcttt aaggcaaaaa catattanac aggaagcanc aatgtgtcac taaagtgaaa      1920
     gaatttgacg ctttagtatg aaatgtgaaa caaacagcgg acaatacata catttgtaag      1980
     tcatctctcc ttgtttaccc gccattgata gattgtcacg tgataccgta aaggctgatg      2040
     ggatacattt tccgagttag ggtgcatcgg ttgtacacta cttttcgcag tgcattgtgg      2100
     gatacattga gtgcactaca tagggtacag cgatgctcac taacanttcg gacactattt      2160
     caaaatggcg tccacactat tgagtgcact atgtagggta tagggggtgg tttcggaaac      2220
     agcc                                                                   2224
//
ID   TC1_FR5   repbase; DNA; FUG; 1555 BP.
CC   TC1_FR5 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR5.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc1-family; TC1_FR5.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1555
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 58 (2002)
XX
CC   Open reading frame from bp 219-1031, encoding a product 48% 
CC   similar to C. elegans TC1 over 200 AA.
CC   On average, copies are 2.8% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1555 BP; 482 A; 324 C; 358 G; 389 T; 2 other;
     cagggagtgc agaattatta ggcaaatgag tattttgacc acatcatcct ctttatgcac        60
     gttgtcttac tccaagctgt ataggctcga aagcccacta ccaattaagc atatcaggtg       120
     atgtgcatct ctgtaatgag aaggggtgtg gtctaatgac atcaacaccc catatcaggt       180
     gtgcataatt attaggcaac ttcctttcct ttggcaaaat gggtcagaag agggacttna       240
     caggctccga aaagtcaaaa atagtgagat atcttgcaga gggatgcagc actcttaaaa       300
     ttgccaagct tctgaagcgt gatcagcgaa caatcaagcg tttcattcaa aatagtcaac       360
     agggtcgcaa gaagcgtgtg gaaaaaccaa ggcgcaaaat aactgcccat gaactgagaa       420
     aagtcaagcg tgcagctgcc aagatgccac ttgccaccag ttttgccata tttcagagct       480
     gcaacatcac tggagtgccc aaaagcacaa ggtgtgcaat actcagagac atggccaagg       540
     taagaaaggc tgaaaaacna ccaccactga acaagacaca caagctgaaa cgtcaagact       600
     gggccaagaa atatctcaag actgattttt ctaaggtttt atggactgat gaaatgagag       660
     tgagtcttga tgggccagat ggatgggccc gtggctggat cggtaaaggg cagacagctc       720
     cagtccgact cagacgccag caaggtggag gtggggtact ggtatgggct ggtatcatca       780
     aagatgagct tgtggggcct tttcgggttg aggatggagt caagctcaac tcccagtcct       840
     actgccagtt tctggaagac accttcttca agcagtggta caggaagaag tccgcatcct       900
     tcaagaaaaa catgattttc atgcaggaca atgctccatc acacgcatcc aagtgctcca       960
     cagcgtggct ggctggcaag aaagggccta aaagaagaaa aactaatgac atggcctcct      1020
     tgttcacctg atctgaaccc cacagagaac ctgtggtccc tcatcaaatg tgagatttac      1080
     aaggagggaa aacagtacac ctctctgaac agtgtctggg aggctgtggt tgctgctgca      1140
     cgcaatgttg atcgtgaaca gatcaaaaca ccgacagaat ccatggatgg caggcttttg      1200
     agtgtccttg caaagaaagg tggctatact ggtcactgat ttgtttttga atgtcagaaa      1260
     tgtatatttg tgaatgttga gctgttatat tggtttccct ggtgaaaata aataattgaa      1320
     atgggtatat atttgttttt tgttaagttg cctaataatt atgcgcaaag taatagtcac      1380
     ctgcacacag atatcctcct aaaatagcta aaactaaaaa agccccactc caactcccaa      1440
     aaatattcag ctttgatatt aatgagtctt ttgggttcat taagaacatg gttgttgttc      1500
     aataataaaa ttaatcctca aaaatacaac ttgcctaata attctgcact ccctg           1555
//
ID   TC2_FR1   repbase; DNA; FUG; 1668 BP.
CC   TC2_FR1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR1.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR1.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1668
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 59 (2002)
XX
CC   TC2_FR1 to 6 are Tc2-like DNA transposons grouping with the 
CC   Kanga1 and 2 elements that were active in Mesozoic mammals.
CC   On average, copies are 3.5% diverged from the consensus.
CC   There are at least 82 mutagenic CpGs (4.9% of the dimers), so 
CC   that the family is actually very young
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1668 BP; 491 A; 363 C; 412 G; 398 T; 4 other;
     ccgtattttc cggactataa gtcgcacttt ttttcatagt ttgtcagggg gtgcgacttg        60
     tactccggag cgacttaaat aaatacatta ttacagaatt tcacatgttc gttattttca       120
     cactgacaac cacaagaggg cgctctaggc ttgtgtacct gtacccgcta cttctgnacc       180
     accgaaaatt taaaatttaa agaaacagta gcttaaaaag acaactgaga agagcaggaa       240
     aaatgccatc aaaaagaaaa tcctattctg cagattataa gctgcaagta gtgaaatatg       300
     cggccgaaaa tggtaatcga gcagcagaaa gaangttcgg agttagcgag aaacttgtga       360
     gggactggcg aaaagcagag gttactcttg ctgcgatgaa gaaaacaaaa aaagcgaatc       420
     gcaggctgaa agctnggtgg ccacagcgag aggaaggagt ccgcatacgg gtgctcgaac       480
     aacgctccgc cgggagaggc tggacaacag cgcagttgcg tctccacgca accatcatat       540
     ataaataaag attgattgat tgattgatgt gggaggacct tcttggtgtt acctctcgag       600
     cagagcgagg acagccatgt gccagaaact gccagcagac ttccaagcca aggctgacag       660
     tttccatgag ttcctcggaa cttgacacgg accctattat taacatggac acggtccccc       720
     tcacatccga cgttcccatg ggccgaagcg tcgcagaaaa agggcaaaag agtgtgaata       780
     tagtaacaac tggtcacgag gaatcacact tcacagtggt gctggcatgt tgtggagatg       840
     gatgaaaacc atggaaaacc atggaaaacc atggaaacat ccagtaagga agtgctccac       900
     caaacggcca gacggcctct tcggaacacc caaagccctg cagctgatga cagcgtgcca       960
     gcgcactatt ctccagccac ttgacgtctc cgtgaaccgg agcttcccgg cagccttgcg      1020
     tgagctgtgg gagcagtgga tgatggacgg agcttcacgc caacccgggg gaatgcacca      1080
     cgcaactttc ctggaagtca ttggacggat cgacaaagca tgggcttcag tgacaaccga      1140
     aaccatcctg tcgggattca gaaaggccgg aataattgga accgcaactg atgacaggtc      1200
     tgacgaaagc gacgcagaag aagaagcggt gcttcgtcta cctccggagt tggcggagtt      1260
     gttaagaagt gacaccgagg atgaagaatt caatggattt actgacgtgg gaatgagact      1320
     tgattgtttg ggaaacttgc tcggatgttc tttatgctat agttatctga ataactgtta      1380
     atatgttacg ttaacaaagc agacacgtac tcagttcgtt gtgggtcatg tagctgaatt      1440
     tgttacgtta gcataccgta acnctattgc taatccatgc taatggattg ctaattgcct      1500
     ttcaagatga aatgtatgtt cttggtctcg gattttatca aataaatttt cccccaaaat      1560
     gcgacttata gtccagtgcg acttatatat ctatttttct tctttattat gcattttttg      1620
     gctagtgcga cttaaactcc ggagcgacat atagtccaga aaatacgg                   1668
//
ID   TC2_FR1A  repbase; DNA; FUG; 577 BP.
CC   TC2_FR1A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR1a.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR1a.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-577
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 60 (2002)
XX
CC   A non-autonomous element formed by internal deletion of TC2_FR1.
CC   On average, copies are 3.5% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 577 BP; 152 A; 107 C; 118 G; 199 T; 1 other;
     ccgtattttc cggactataa gtcgcacttt ttttcatagt ttgtcagggg gtgcgacttg        60
     tactccggag cgacttatat gttaaataaa tacattatta cagaatttca catgttcgtt       120
     attttcacac tgacaaccac aagagggcgc tctaggcgtg tgtacctgag gaacgagttc       180
     ctttagcgac gcagaagaag aagcggtgct tcgtctatgg agttagactt gattgtttgg       240
     taaacttgct cggatgttct ttatgctata gttatctgaa taactgttaa tatgttacgt       300
     taacaaagca gacacgtact cagttcgttg tgggtcatgt agctgaattt gttacgttag       360
     cataccgtaa cnctattgct aatccatgct aatggattgc taattgcctt tcaagatgaa       420
     atgtatgttc ttggtctcgg attttatcaa ataaattttc ccccaaaatg cgacttatag       480
     tccagtgcga cttatatatc tatttttctt ctttattatg cattttttgg ctagtgcgac       540
     ttaaactccg gagcgacata tagtccagaa aatacgg                                577
//
ID   TC2_FR1B  repbase; DNA; FUG; 559 BP.
CC   TC2_FR1B DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR1b.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR1b.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-559
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 61 (2002)
XX
CC   A non-autonomous element formed by internal deletion of TC2_FR1.
CC   On average, copies are 3.5% diverged from the consensus.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 559 BP; 147 A; 107 C; 114 G; 191 T; 0 other;
     ccgtattttc cggactataa gtcgcacttt ttttcatagt ttgtcagggg gtgcgacttg        60
     tactccggag cgacttaaat aaatacatta ttacagaatt tcacatgttc gttattttca       120
     cactgacaac cacaagaggg cgctctaggc gtgtgtacct gaggaacgag ttcctttagc       180
     gacgcagaag aagaagcggt gcttcgtcta tggagttaga cttgattgtt tggtaaactt       240
     gctcggatgt tctttatgct atagttatct gaataactgt taatatgtta cgttaacaaa       300
     gcagacacgt actcagttcg ttgtgggtca tgtagctgaa tttgttacgt tagcataccg       360
     taaccctatt gctaatccat gctaattgcc tttcaagatg aaatgtatgt tcttggtctc       420
     ggattttatc aaataaattt tcccccaaaa tgcgacttat agtccagtgc gacttatata       480
     tctatttttc ttctttatta tgcatttttt ggctagtgcg acttaaactc cggagcgaca       540
     tatagtccag aaaatacgg                                                    559
//
ID   TC2_FR2   repbase; DNA; FUG; 1425 BP.
CC   TC2_FR2 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR2.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR2.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-1425
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 62 (2002)
XX
CC   TC2_FR1 to 6 are Tc2-like DNA transposons grouping with the 
CC   Kanga1 and 2 elements that were active in Mesozoic mammals.
CC   Open reading frame from bp 542-1147. 
CC   Including CpGs, copies are 4.5% diverged from the consensus;
CC   At least 88 CpGs (6.2% of dimers) 
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1425 BP; 393 A; 338 C; 377 G; 317 T; 0 other;
     ccgtattttc acgactataa ggcgcaccta aaacactgag attttctcaa aaatcgacgg        60
     tgcgccttat aatatggtgc gccttgtgtg tggactgagt tccaaaatct gctgtgcgcc       120
     tttggtgggt gcactacggt aaacgctccg ccaatcgatt agcggcacac ctacgcgtaa       180
     ggatccccta aaatggcgcc ggtcaagcga gacgcgtatg aatgaggctt actttaaact       240
     gcaggccatc gaatatgcgg ctgaaaatgg caatcgagca gctgcaagac attttaatgt       300
     aaatgagtcc atggtcagaa agtggagaaa acaagaaagt gaactgcgcc aagtgaggaa       360
     gacgaagctg agtttccgcg ggaacaaagc aaggtggccc gagctggaag accgagtgga       420
     acagttggtt gtggaacagc gaacaactgg aaggggcgtc tctactgtca ccattcgaca       480
     aaaggccaaa gcgattgctg aagaaatgga cattgagcac ttccaaggag gtccgtctta       540
     gtgttttcgc tttatgagga ggcggcatct ctccatacgc gcgaggacaa ctgttgcgca       600
     gcggctgccc gcggattacc aggagagggt ggccatcttc cctaacccta accaggagag       660
     ggcggccatc ttccctaacc ctaaccagga gagggcggcc atcttcccta accctaacca       720
     ggagagggcg gccatcttcc ctaaccctaa ccaggagagg gcggccatct tccgcaccta       780
     ctgccgcgac aagataaccg cgcccagcca catcaccaac atggatgaga tccctctgac       840
     ttttaacatc cctttgaccc acaaagtgga gaaaaaggga ccagcacggt ggcgatacgc       900
     acaacggggc acgagaagtc gtcgttcacc gtggttctcg gctgccacgg aaacggacag       960
     agcgctggat gacggaaggc gaacactcct tcacaaagac tatgaggcag cggcgggcaa      1020
     gttatgccac catatgcggg tggattgtag acgcatgggc tatgataccg tcttcatgta      1080
     ttgtaagagc tttcacaaaa tcaacgctga accggaaccg gtcggtgagt ccgattcaga      1140
     tgattaagaa gaggaattcg ggatgttgga cattgaaata gcgcagctgt ttaattcaga      1200
     tacagaagat gaaaactttg atggttttgt ggcggaagaa tgaatatttt gttcaataaa      1260
     tgtgtcgaaa ctcactgttt tacttccgtt gtcatttttt actgtatgtt tcagcatgcg      1320
     cctaataata cggtgcgcct tatgtatgtt ttaaatacag aaatagcacc cataactgag      1380
     actgcgcctt ttaatacagt gcgccttatg gtcgtgaaaa tacgg                      1425
//
ID   TC2_FR3A  repbase; DNA; FUG; 966 BP.
CC   TC2_FR3A DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR3A.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR3A.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-966
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 64 (2002)
XX
CC   TC2_FR1 to 6 are Tc2-like DNA transposons grouping with the 
CC   Kanga1 and 2 elements that were active in Mesozoic mammals.
CC   An internal deletion product of an autonomous element.
CC   On average, copies are 7.5% diverged from the consensus,
CC   including at least 51 CpGs (5.3% of dimers).
XX
CC   [1] (Consensus)
XX
SQ   Sequence 966 BP; 297 A; 177 C; 212 G; 275 T; 5 other;
     ccgtaatttc cggactataa gccgctactt ttttcctaca ctttaaacac tgcggcttat        60
     tctacggtgc ggcttattta tgtttttttt cgtggcgcac tatcacaact attgtgaatc       120
     agtcattttt actaaccctc atcaacgtgg aaaatactag aagaaaagca tatgatgcgg       180
     cttttaagtt aaaagcgatc actctggcgg ttgaagaagg aaatcgagct gccgcgcgta       240
     atcttggcat acattacggt aatcaatggc gagaaggtgg agacgcccgc ctgaagaact       300
     gatccaaagc aaaaagacga caaaagcttt tagacgtaaa catngcaggt ggcccgagct       360
     tgaaaacgtt ctggaagact gggtnaacac acagagagca ggcggccgcg gtgtttccgc       420
     tgtacaaatc agacngaagg caaaagcaat cgccaccgcg atgaaaatag aagattttag       480
     aggtgggcca tcggggngtt ttagattgtt cattgtttga gtaaaaaagc ataaacaacg       540
     taatttgtgt gtagctgata caaacgtata tttcaaggta gctgcattac agacaccgtt       600
     agaaaaaaaa agcatttacc ggtacaatat atttgtttat gttgctaagc ggattaaatt       660
     aaaagaaaag ttaaaaaatc ctgacgtgat aaaaattgga tttaaggtct ctgtataaac       720
     atacaagtga aaagagtggc tgttgtttct tacctgtctg tttgtcactc gtcagtgact       780
     cgtctcttac ggtaataaaa acatctaccg gtactgaatg ttttcgatct aatttttcat       840
     attactacgt gggatacctg cggcttaaaa tccggtgcgg cttgtataag tacaaaattg       900
     attttctttc taaaattaga ttatgcggct tntaatcagg tgcgctctgt agtccggaaa       960
     ttacgg                                                                  966
//
ID   TC2_FR4   repbase; DNA; FUG; 2092 BP.
CC   TC2_FR4 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR4.
XX
KW   DNA transposon; Pogo-Tc1-IS630 class; Tc2-family; TC2_FR4.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-2092
RC   [1]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Repbase Reports 2:(1) p. 65 (2002)
XX
CC   TC2_FR1 to 6 are Tc2-like DNA transposons grouping with the 
CC   Kanga1 and 2 elements that were active in Mesozoic mammals.
CC   Open reading frame from bp 222-1058, coding region to ~1580. 
CC   Over coding region 70% similar at DNA level to TC2_FR5.
CC   On average, copies are 3.5% diverged from the consensus,
CC   including at least 112 CpGs (5.4% of dimers).
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2092 BP; 619 A; 453 C; 503 G; 509 T; 8 other;
     ccgtattttc acgactataa ggcgcaccta aaagcctaga attttctaaa aaaaatcgac        60
     ggtgcgcctt ttaacccggt gcgccttttg tatggattac ggtaatattg gttaatcgcg       120
     gctaccgtag tcagtaggcg tggccgaagt aacagcagta agaacgataa ataggaattc       180
     cagtccagtc ccaaaccatt tctgtctgta aagaccccaa aatggctcct tgcaagagac       240
     acgcttacga cgcagagttc aaactgaagg ctatcagtca cgcagttgaa cacggaaata       300
     gagcagcggc aagagaattt aacgttaacg agtcaatggt gcggaagtgg aggaagcaac       360
     aagacgacct gcgccaggta aagaagacta aacggagctt ccgaggaaac aaagcaagat       420
     ggccacagtt ggaggacaaa ctcgaacagt gggttgttga acagagagca gcaagtagaa       480
     gtgtctctac agtcactatt cgaatgaagg caacagcgct agcagacgaa ctgaagataa       540
     atgantttag aggcggtcct tcttggtgct ttcggtttat gaaaagacgc cacctctcca       600
     tccgcacacg aacgagtgtt tcgcagcaac tgcctgaaga ctaccaagaa aagctggcca       660
     ctttccgcgc atactgcaga aacaacatca ctagaaaaaa gatccggcca gagcacatca       720
     tcaacatgga ngangttcca ctcacctttg atattcctgt gaaccgcact gtggacaaaa       780
     cgggagcaca tacggtgaat gttcgcacna cagggaatga gaaggcatcc ttcactgtag       840
     ttctcgcctg ccwggctaaw ggccasaaac ttccacccat ggttattttc aaaaggaaga       900
     ctgtgccaaa agaaaacttt ccagccggcg taaccatcaa agctaactcc aagggatgga       960
     tggatgaaga aaagatgagt nagtggctga gagaaattta cgtcaagaga ccgggtggct      1020
     tttttcacgc agctccgtcc ctattgatct gcaagtgaag cacactaatt cagttcttgc      1080
     ctcattccgg gtggattaac aaaggaactg cagccgctag atattggtgt caacagggca      1140
     ttcaaagcta gactgcgaac tgcgtgggag cggtggatga cggaaggcga acacacgttc      1200
     accaagacgg ggagacagcg ccgagcggca tacgccacta tctgccagtg gatcgtaaat      1260
     gcctgggctg atatatcagt ctcgaccgtg gtccgagctt tcaggaaggc agggattgtc      1320
     actgaaatgc cagacaacac cagcgacact gaccctgatg acgactttga cgagacggag      1380
     ccggccatgt tggacgccgt attcgcacaa ctgttcaatt cggacaccga agaagaagaa      1440
     ttcgagggat tcctggatga ggaatgaact gataaagtga gctttacgtg tttcttttgt      1500
     gtgtttacaa cttaacaagg ctggtcatac tgtgaatatg gacattaccg tttgaacaac      1560
     gttgttatat tgctattgtt atattgctat tgctttgcac tacttcgaga gtttcgagtt      1620
     accgtatatt gtgtttgcac taacgtttga tttaccgcaa cggtactacg tgataaaaat      1680
     gttgcactaa atcgaagatt tattaaactc cactatccac ttgtgataaa aatgttgcac      1740
     tgcctgttat aactcgctgt tattaaacga actgtgttac gcgaaaacac tacgtcactc      1800
     gggaaaaata ataaaacagc tgtttattca ttttgggagt gaatggagtt gtgagaacgc      1860
     cggtttgtat tctattaata aagtttgact gacttatctg actgttttat tgacattcct      1920
     tttagcgcag ctcgatctag tgaatgcgtc atgaaaccac aggcactacg cagtttctat      1980
     gctatgcgcc ttataacacg gtgcgccctg tgtatgaaaa tagttctaaa ataggccgtt      2040
     aattgaaggt gcgccctata atacggtgcg ccttatggtt gtgaaaatac gg              2092
//
ID   DONG_FR   repbase; DNA; FUG; 3621 BP.
CC   DONG_FR DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Non-LTR retrotransposon; site-specific LINE; R4/Dong superfamily; 
DE   REX6; DONG_FR.
XX
KW   Non-LTR retrotransposon; site-specific LINE; R4/Dong superfamily;
KW   REX6; DONG_FR.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-3621
RC   [1]
RA   Volff J.N., Korting C., Froschauer A., Sweeney K., Schartl M.;
RT   "Non-LTR retrotransposons encoding a restriction enzyme-like 
RT   endonuclease in vertebrates";
RL   J Mol Evol. 52(4):351-60 (2001)
XX
RN   [2]
RP   1-3621
RC   [2]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Direct submission to RU (November 28, 2001)
XX
CC   This is the first site-specific LINE reported in vertebrates. 
CC   The consensus has a full length ORF from bp 130-3540. 
CC   Comparison of the encoded product with figure 1 of reference [1]
CC   showed DONG_FR and REX6 to be the same elements.
CC   On average, copies are 5% diverged from the consensus, but some 
CC   are >99% identical to consensus.
XX
CC   [2] (Consensus)
XX
SQ   Sequence 3621 BP; 1125 A; 919 C; 973 G; 596 T; 8 other;
     ttctatgcgc cttatgcgac tggataggcc agtggtttac gccgctgact ttggtgcgga        60
     aggttgtcgg ttcgaatcca ggcgagccct taggcaaggc tccttacgca tatatgccta       120
     cacctcggta tgagcggaac mwtaactgat agagtcatac cggctcggac gtcgcccggg       180
     tcaacaaggt ccgcgtcagg ggtcggggaa ccagggccac ctgatgtcaa attggctact       240
     ggaacaaggc attcatggag cagggcagag aacgtggtac tgatggagtg ttactacggg       300
     agtaacccca gcgagagagg gtacatgcag aggatgtggg agaaatgggt gcttcgaaac       360
     cccacatcct cactgactaa gaagcagctc ttagctcagt gttcgaatat ccgcaataag       420
     aagctgctat cacagctaga gattgacgag gcacggcgnt gtgcctcacc cacggtacaa       480
     atatgctacg gcaaggggga gccaggacgc caggtcagcn tgggggtgat ttcatcatca       540
     ccccccaata tcgagattgg gtacaaagcc ccaatgacag acggactcgg cacaagggca       600
     gctgacctga gagagagaat catgaagtcc tgggggaact caactacctc cctgccaagg       660
     ctaacacaca aagtaccaga ccaatctcta ctggaggaca tgaacacggc actgtcaacc       720
     atccctacca ctaccatcac tgagaccaat cagctgatgt atgcagcggc aacagtaatc       780
     ctacagatgc ttggctataa gatgaagagc atgaacagcc agaaggagca aatggcccca       840
     tggaggagaa ggctagaggc aaaaatcatg gcgacacgga gagaagtcag ccttctaaca       900
     gagctgagta gaggcgtgaa tctaaggaca gagcngccca agaaatataa caaactgtcc       960
     acaactgagg cactggagac tgctaagcaa aggctcacag ccctggctac ccgactaaag      1020
     aggtacacaa gagaagtaga ggcaaggaga ataaacaagg tgttctccac caatccagcn      1080
     aaggtctact ctcaatggca gggcaacaag atgacaacag acccccccag ggctgagact      1140
     gagcaatact ggaagagtat ctgggagaaa gaggcaacgc acaacactan tgcccaatgg      1200
     ctgcaagacc tacagacaga gcacagccaa cttccagaac aagacccagt agtcatcacc      1260
     ttagcagaca tccaaacaag agtgtccaaa atgaagagct ggacagcacc agggcccgat      1320
     aagatccacg cctactggct taagaagctg actgcactcc atgaacgcct ggcagcacag      1380
     atgaaccagc tgctaacatc agggaaccac ccagagtggc taacccaggg ccggacagtc      1440
     ctcataatga aggaccccca gaagggcaca ataccatcca actaccggcc cataacctgc      1500
     ctcagcacca catggaagct cctatcaggc atcatagcgg ctaagatcag taggcacatg      1560
     gatcaataca tgagcagagc acagaaaggc ataggcaaca acaccagagg tgccaagcac      1620
     cagctactgg tcgacagggc aatcgcccag gactgtagga cgcggcacac caacctgtgc      1680
     actgcctgga ttgattacaa gaaagcctat gactcaatgc cgcacacatg gatactggag      1740
     tgcctaaagc tgtataacat caacaggaca ctaagagagt tcatccagaa ctccatgaag      1800
     ctgtggaaca cgactctgga ggccaactca aagccaattg cgcgggtgag catcagatgc      1860
     ggcatatatc aaggagatgc cctgtccccc ctgctgttct gcataggcct aaaccccctc      1920
     agccagatca tcacaaagag tggctatggg taccagttcc gaagtggaac aaccgtcagc      1980
     cacctcctct acatggatga catcaagctg tatgccaaga acgagcgtga catcgactcc      2040
     ctgattcacc tcactaggat ctacagcaaa gacatcggga tgtcattcgg actagataaa      2100
     tgtgggcgga tgatatctag aagaggaaag gtgatcgcaa ctgatggggt tgaactacct      2160
     gaagggaaca tcacagatgt gcaggacagt tacaaatacc tggggatccc gcaggcaaat      2220
     ggtaaccatg aggaggcagc taggaggtca gccacagcca aatacctaca gaggttaagg      2280
     caggtcctga aaagtcagct gaatggtaag aataagatcc aggccataaa cacctacgcc      2340
     ctgccagtaa tcagataccc tgctggcata ataccctggc cactggaaga gatacaagcc      2400
     actgacatca agacaaggaa gctgaatggt aagcataaga tccaggccat aaacacctac      2460
     gccctgccag taatcagata ccctgctggc ataataccct ggccactgga agagatacaa      2520
     gccactgaca tcaagacaag gaagctcctc accatgcacg gagggtttca ccctaagtcc      2580
     agcgtcctga ggctgtacac gaagcgaaag gaagggggcc gaggactagt aagtgtccga      2640
     actactgtcc aggaggaaac aacaagcctc cgagaataca tcaagaagat ggcccccact      2700
     gaccgactgc tgagtgaatg cctcaggcaa caaaagccca ccaaggagga ggagcctgag      2760
     gggctatcat ggaaggacaa gcccctgcat ggnatgtacc accgacaaat tgaggaagtg      2820
     gctgatatcg agaaaacata ccagtggctg gaaaaggccg gactgaaaga cagcacagag      2880
     gcactactca tggctgcaca agaacaggcc ctgagcacca gagcaataga ggccagggtc      2940
     taccatacca gacaagaccc caggtgcagg ctgtgtggag acgcccctga gacagtccag      3000
     cacatcacag cagggtgcaa gatgttggca ggcaaggcat acatggagcg gcataaccag      3060
     gtggctggca tagtgtacag gaacatctgc actgagtatg gactggaggt cccagggtcc      3120
     aggtgggaga cacccccgaa agtgctggag aacaagcagg ccaagatcct gtgggacttc      3180
     cagatccaga ctgacaagat ggtggtggcc aaccagcctg acatagtggt ggtggataaa      3240
     caccagaaga cagtggtggt gatagatgta gcaatcccaa gtgatagcaa catcaggaag      3300
     aaggaacacg agaagctgga gaagtaccaa gggctgaagg aggagatgga gagaatgtgg      3360
     ggcatgaagg caacagtggt cccagtagtg attgggacac taggggcagt aacacccaag      3420
     ctgagtagat ggctccaaca gataccagga accacatcag agatctctgt ccagaagagc      3480
     gcagtcctag gaacagctaa gatcctgcgc agaaccctca gactcccagg cctctggtag      3540
     aggacccgag tctgaaggaa ggaggcaccg cccaggaggg cgaggaagag attttttttt      3600
     atatatatat atatatatat a                                                3621
//
ID   FUGUSAT1  repbase; DNA; FUG; 118 BP.
CC   FUGUSAT1 DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   FUGUSAT1 Satellite.
XX
KW   FUGUSAT1; Satellite.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-118
RC   [1]
RA   Brenner S., Elgar G., Sandford R., Macrae A., Venkatesh B.,
RA   Aparicio S.;
RT   "Characterization of the pufferfish (Fugu) genome as a compact 
RT   model vertebrate genome.";
RL   Nature 366:265-8 (1993)
XX
CC   Probably centromeric satellite unit.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 118 BP; 33 A; 25 C; 25 G; 33 T; 2 other;
     gttttcagat gatcatgttg cattcacctc tgttttgaga aakwtgtgtc tcctgaccaa        60
     aagtgatggt ttccccacga gaagacgtca aaaacgtcat aatgtgaccg cagcatga         118
//
ID   MAUI      repbase; DNA; FUG; 4804 BP.
CC   MAUI DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Non-LTR retrotransposon; CR1 superfamily; L2 family; MAUI.
XX
KW   Non-LTR retrotransposon; CR1 superfamily; L2 family; MAUI.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-4804
RC   [1]  (bases 1 to 4585)
RA   Poulter R., Butler M., Ormandy J.;
RT   "A LINE element from the pufferfish (fugu) Fugu rubripes which shows
RT   similarity to the CR1 family of non-LTR retrotransposons";
RL   Gene 227(2): 169-179 (1999)
XX
RN   [2]
RP   1-4804
RC   [2]  (bases 1 to 4585)
RA   Poulter R.T.M., Butler M.I., Ormandy J.;
RT   "Direct Submission";
RL   Submitted (24-AUG-1998) Biochemistry, University of Otago,
RL   Cumberland Street, Dunedin, New Zealand
XX
RN   [3]
RP   1-4804
RC   [3]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Direct submission to RU (November 28, 2001)
XX
CC   MAUI is the most numerous repeat in Fugu (>6500 copies), belonging 
CC   to the L2 class of LINE-like elements [1]
CC   Consensus [3] contains a full-length gag (pos 191-1078) and pol 
CC   (pos 1100-4186) open reading frames. 242 bp fragment of the 3' UTR 
CC   (pos 4351-4592) added to previous sequence [2].
XX
CC   [3] (Consensus)
XX
SQ   Sequence 4804 BP; 1228 A; 1156 C; 1015 G; 1383 T; 22 other;
     ggcttccgtt gggtaacgta ttgcgtcact tcctgtcttc tcaatcgttc gttggttgca        60
     ctgtgcacgg tgtgttgtat tcactttact taaaatttga acacttggga cattctagtc       120
     acctgataac aacagtgaga aataacccat attaaacaaa tacagggctc cgccgattat       180
     tagcattagc atggcctcac cgtctgtttc acccggtgtc tcaccctgtg tctgttcagc       240
     gtgtgaaatg tttagttact cctctgcctc ctttagtgaa gggaataggt gcagaaagtg       300
     tagtttattt atggctctgg aggcgagact tagtgagctt gagacgcggt tccgcagctt       360
     ggagttgnct ggagttgcgt caggtagcca ggagaaggta gctgctgcgg agctgcctag       420
     cgtagctaca gctagctgtc ccccggcagc agccgagcag ccggctagcc agggcggctg       480
     ggtgacggtt cgcaggaagc gtagcccaaa ccaaaggccc acggtgcacc accaaccgct       540
     tcccgtggct aaccgttttt ccccactcgg cgacacaccc gctgagaaac cgaccctggt       600
     aattggcgac tctgttttgc gctacgtgaa gccgactcca gcgaccatag ttaggtgcat       660
     tccgggggcc agagcgggcg acatagaagc caatctaaag ctgctggcga gaagtaaacg       720
     taaattcggt aaagttatta ttcacgtcgg agcaaacgac acccggcttc gtcagtcgga       780
     ggtcaccaaa attaacatag agtcggtgtg caactacgca aaaacgatgt cggactccgt       840
     agcattctct ggtcccctcc ccaatctggc cagcgatgaa atgtttagtc gcatgtcgtc       900
     gcttcgtcgc tggctgtcac ggtggtgccc cgaaaaccag gtgtcctttg tagacaattg       960
     gaacagtttt tggggaaaac ctggtctgat taggagagac ggtgtccatc ccacccggga      1020
     tggtgcctct ctcatttcta gtaacttggc caattttatt ngacccaaag tgacctgaca      1080
     aaccagggtc cagaccagga tgcagagttg tagtcttaca cacctctctg ctgcttccgt      1140
     agaaccctca tccaccaaca ataacatatt taacactata gaggtagtct ctgttccacg      1200
     gttaaaagtt caccaagcac agagcagggg agcggtcaat caccataatc ttattaaaat      1260
     taataccaaa gcacaagtag gagaaactaa tagcacaatt aaatgtggac tgttaaatat      1320
     tagatctctt ttgtgtaaat ccctgttagt gcacgacctg atagcngatc atcacattga      1380
     tttattttgt cttactgaga cctggcttca ggaggaggag tatgttagct taaatgaatc      1440
     tactcctcct acccatctta attatcatat tcctcgtgtt actggtcgag gagggggagt      1500
     ggcagcaatc tatcactcca agttattaat taatcctaga cccaaacatg gctccagttc      1560
     atttgaaagc ctgactcttg gcatcaccca tctgaactgg aggacagaaa agccacttct      1620
     gtttgtagtt gtatatcggc cccctgctgg gccacattca gagttcctgt ctgagttctc      1680
     tgacttctta tctgacttgg tcctcagaac agataaagtc attattattg gagactttaa      1740
     catccatgta gacgttgtaa atgacagctt tagaaatggc ttcatttcat tacttgagtc      1800
     agttggtttc cttcaacaga taaaccaacc aactcatagc ttcaaccaca cccttgatct      1860
     agttctgact tatggtgttg aggtagaaca tgtgtcagtg ttccctcaga acccactcct      1920
     gtcagatcat tctttgatca cttttacatt tatgattaag gattcttcta tgttcagaac      1980
     acagtcttac tacagcagat gtctctcaga taatgctgta gctaagttta aggaagtgat      2040
     ccctgtgtta attccgggac caccgtgtgt ttntncaggg ancagtcatt ataatcttag      2100
     ccctgctgag gtcgactcta ttgctgaagg tgcagcagcc tcactgngaa tcacgcttga      2160
     ttctgttgcc cccctgaaaa agaaaatagt aaatcagagg aggtgtgccc cctggtataa      2220
     ttcgcacatt aggaccctca agcagaaagc gcgaagacta gaaaggaagt ggtattcttg      2280
     taaaatagan agctaccatt tagcctggaa agactgtctg gtagcttaca aaaaggccct      2340
     ccgtaaggct agaacngcct atttttcttc tttaattgaa gaaaaccaga acaaccccag      2400
     gtttcttttc agcactgtgg ccaaattaac caagagtcac agtgttttag atccacgtat      2460
     cccttcttcc cttagtggtg aagacttcat gagcttcttc actgataaag ttataactat      2520
     tagagaaaaa gctaatcagg ccatcccaac agctgctaga ccatcaccag atgtgctgac      2580
     tgtgggaaca tacagggtct ccaacgagcc cttaaactcc tttancccta tatatttttc      2640
     tgagacgtcn tcgttaattc agaaatccaa gtccaccacg tgtcttttag atcccatccc      2700
     aacacacctg ttgaaggatg ttttaccant gataggcagc tctatcctgg accagatcaa      2760
     ttgttcttta gcgacaggtt atgtaccccg gtcctacaag gtggcagtga ttaaaccgtt      2820
     gcttaaaaaa ccatcactgg atcctgatgt gttagcaaat tataggccna tatccaacct      2880
     tccttttatc tctaaaattc ttgagaaggt ggtggtgact cagttactgg accacctgca      2940
     gaggaacagc ctgtttgaga tgtttcagtc aggttttaga gctcatcaca gcacagaaac      3000
     agcacttgtt aaagttacta atgatcttct canagcttca gatcatggac tggtttctat      3060
     gctggttctg ctggacctca gtgctgcttt tgatacagtt gatcacagca tcctgttaca      3120
     gagactggaa catgtgattg ggattaaagg gacagcacta gactggttta gatcatattt      3180
     atcagataga taccagtttg ctcatgtcca cggcgttccc tcttcataca gtagggttag      3240
     ccatggagtt ccacaaggtt ctgtacttgg accaatcctt ttcaccttgt acatgcttcc      3300
     cttaggaaac attattcggc agcatggaat aaattttcat tgctatgctg atgacactca      3360
     gctatattta tccatgaaac cagaggagac agagcagtta gtgaagctcc aggcctgtct      3420
     taaagacata aagtcttgga tgncctcaaa tttccttctt cttaattcag acaaaactga      3480
     ggtcatggtg tttggtccta aacntctcag ggatagatta gatcacatna tcactctaga      3540
     tggtatctcc ttagcctcta gtctctctgt gaggaatctt ggagtaactt ttgaccaaga      3600
     tctgtccttt aactcacaca ttaaaacagt ctctagaagc gccttttttc acttgagaaa      3660
     cattgcaaag atcaggaaat tattgaccca gcatgatgct gaaaagttag tccatgcatt      3720
     tgttacttcc aggctggact attgtaattc attattatca ggatgtccaa acaattcttt      3780
     gagaagcctc cagctgatcc aaaatgctgc agctagagtt ctgacaggta ttgacaaaag      3840
     agatcacatn actcctgtac tggcntctct tcattggctg cccattaaat ctagaataat      3900
     ttttaaaatt cttcttctga cctacaaggt cctcagaggc ctagctccat cctacctgga      3960
     ggagctagtg acaccttatn atcccaatag accgctccgc tctcagaatg ctggtttact      4020
     tgtggtcccc agagtctcta aaggtagaat ggggggccga gcatttagct accaggcccc      4080
     cctgctgtgg aaccagctcc ctgtccaggt acgggaggct gactccatct ctacttttaa      4140
     gattagactt aaaaccttcc tctttgaaaa agcttatngt cagtaattct gtagttccag      4200
     ttattatcct agacagacta attatcatat ttagagggtc gtctaattat taggttaaca      4260
     tcttagttat gctgctatag gccgaggctg ccggggtcca gaaacatgat cacctgacag      4320
     gcctctgtca ccccgctggg tcatggtctc ctctcctctc ctctcctctc cgagtagatc      4380
     antggtgatg ttatttcttg tgtagttttt ctgcttctcc ccccctctct gtatccatct      4440
     acaggtatcg ccgccttcat agctgtatgc tgacctgctg acctccgacc ccgctgaccc      4500
     actcaactct tataccggca gcttgttata attaatgtat ttccatgatc tctgcctatt      4560
     ctctcctcta cctgtcctcc cccttctcct ctctctctac ccagccggcc atcagcagga      4620
     gggtccccct acatgagcct ggtcctgctc aaggtttctt cctgttaaag gggagttttt      4680
     ccttgccact gttgcttgtt gggggtcagg ccctgggatt ctgtaaagcg cctagaaaca      4740
     attttgattg taacagacgc tatataaata aagattgatt gattgattga ttgattgatt      4800
     gatt                                                                   4804
//
ID   REX1_FURC repbase; DNA; FUG; 3401 BP.
CC   REX1_FURC DNA
XX
AC   ;
XX
DT   08-FEB-2002 (Rel. 1.0, Created)
DT   08-FEB-2002 (Rel. 1.0, Last updated, Version 1)
XX
DE   Non-LTR retrotransposon; CR1 superfamily; REX1/Babar family;
DE   Rex1_FurC.
XX
KW   Non-LTR retrotransposon; CR1 superfamily; REX1/Babar family;
KW   Rex1_FurC.
XX
OS   Fugu rubripes (consensus)
CC   consensus
OC   Eukaryotae; mitochondrial eukaryotes; Metazoa; Chordata;
OC   Vertebrata; Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Oncorhynchus.
OC   Eukaryota; Metazoa; Chordata; Vertebrata; Actinopterygii;
OC   Neopterygii; Teleostei; Euteleostei; Acanthopterygii; Percomorpha;
OC   Tetraodontiformes; Tetraodontoidei; Tetraodontidae; Fugu.
XX
RN   [1]
RP   1-3401
RC   [1]
RA   Volff J.N., Korting C., Schartl M.;
RT   "Multiple lineages of the non-LTR retrotransposon Rex1 with varying 
RT   success in invading fish genomes.";
RL   Mol Biol Evol 17(11):1673-84 (2000)
XX
RN   [2]
RP   1-3401
RC   [2]
RA   Smit A.F.A.;
RT   "Initial survey of interspersed repeats in Takifugu rubripes. ";
RL   Direct submission to RU (November 28, 2001)
XX
CC   Described by [1] but no sequences were deposited to GenBank or 
CC   RepBase Update. Reference [1] mentions 3 more Fugu REX1 families.
CC   The consensus [2] contains one full ORF from bp 174-3158 and may 
CC   have an incomplete 5' end. 
CC   Average substitution level of copies is 5%, but this partially 
CC   reflects differences between subfamilies (mostly in the 3' UTR). 
XX
CC   [2] (Consensus)
XX
SQ   Sequence 3401 BP; 864 A; 870 C; 823 G; 840 T; 4 other;
     aaaatggcgc tgtcccaggc ggcagccagt agtagcagct ccctacactt aattgttctt        60
     ttttaaattt tcgtagtgtt tgctatactt gtttacattc ttttctattt ggtatttact       120
     ttctttcttt ccatttacaa ctggagtatt cagacaccat gttctggagg ctcgaatact       180
     tttttctctg ttttgcggtg cttgggttat tcgcggcccc catcagctgt gccgagaagc       240
     ggaccggtat tgtttacaca cgagaccagc tgatggctct aagaccacca tccttcgtgg       300
     tcggagagaa gccccaaatc ccgaaggagc tgaggaggaa acgacgaggg agtaaggctg       360
     gagttaaaca gaggatgaag aggcgacgtt ttaaaccctg cgtccccgcg gtcataacgg       420
     ggaatgtcag gtccctggca aataagatgg acgagctgga ggcgctcaca cggacacagc       480
     gggagtacag agaggccagt atcatgtgtt tcacggagac atggctccat ggactgatac       540
     cggactctaa tgtgacgatc gctggtttca gcactgtgcg agcggaccga gacaccaccg       600
     cggccggtaa gaagaaagga gggggacttg ccgtgttcat tagcaacagg tggtgcaacc       660
     cggagtatat tcatgtcaag gagcgcgtgt gcagtcccga cgtggaactt attgctatcg       720
     gactccgtcc atactatttg ccacgggagt ttactaatgt catcgccatc accgtttata       780
     ttcctccgac cggtaaagcg aacacggcct gtgacgttat tcactctgtc acggctgacc       840
     tgcagactaa acatcccgga gcctttatcc tcatcacagg tgacttcaat catgcctccc       900
     ttaagtccac tctccctaca ttccatcaat atgtccagtg cagcaggaga gacaggaaga       960
     ctttggattt actgtatgct aatgtcacca gtgcatacac ctccactgca ctccctccgc      1020
     taggcaagtc tgatcacaat ctcgtgctgc tctccccatc atacacacct gtggttcagc      1080
     agcaaccagt cactgtgagg actgttanga aatggtcaga tggtgccatg gactgtctgc      1140
     gggatgccct ggagaccacc aactggtctg ctctctgtga accacatggt gaggacctgg      1200
     atggactgac agactgtgtt tccgactaca tcaagttctg cactgagaac tccgtcccca      1260
     ccaagaaggt acgctgttac ccaaacaaca aaccatgggt gacaagtgac ctgaaggccc      1320
     ttttgaacaa gaagaagagg gccttcactg ctggggaccc ggctgagctc aggagtgtac      1380
     agaaggaact gaaacgcagt ctgaaggaga gcaaggacgc ctataggaag aagctggagg      1440
     agagactgga gaggaaccag accagggatg tttggagtgg gatgaggaca atcactggct      1500
     tccagaagaa aggaatacgc tcagctgatg ggaacgtgga ccaagctaat gagttgaacc      1560
     agtttttcaa caggtttgat tctagctccc cctcccccag ctgtcccaat attcctctgg      1620
     ataacaatgg gtccccttca cacctcccag agcccctaac acctctgcca acttcttccc      1680
     cctcccccct gctgacaccc tacatagatn ccaacatgtc acccatcccc ccgacaggac      1740
     tatccttcac gtctagccag gtgaggagag agctggagag gctcaaccag agaaaggctg      1800
     ccggaccgga cggcatcagc ccacgagtgc tgaagaactg ctccaggcag ctgtgtggaa      1860
     tactgcagca cctgttcaac cagagccttc atcttcagag gatcccagtg ctttggaaga      1920
     catcctgcct ggtcccggtg ccgaagaaga cccatcctgt ggcaccgagt gactacaggc      1980
     caatagcact gacctcccac attatgaagg tcatggagcg gctggtgctg ncacacctca      2040
     gacctctggt gagccccttt caagaccctc tgcagtttgc ctatcagccc aaggtggggg      2100
     ttgatgacgc agtgatatac ctgctacaga gggcttactc ctccttggac agactaaaca      2160
     ccacagtgcg ggtcatgttc tttgacttct cttctgcctt caacaccatc cagccaagac      2220
     tgctgagggc taagttggag aacatgcaga tggatgctcc ccttgtttct tggatcgagg      2280
     actacctgac aggtcgacca cagtttgtga gactgcggag ctgtgtgtcc gaccccctga      2340
     tgagcaacac aggggctccc caaggaactg tgctctcccc ctttctgttc accacctaca      2400
     cagctgactt ccagtaccac tctgagacat gtcatctcca gaagtactcg gatgacacag      2460
     tcatagtcgg gtgtgtggag aatggacagg aggatgaata cagggacctt gtggagagtt      2520
     ttgtcaggtg gagcagggag aaccttctgc agctcaacgt gaccaagacg aaggagatgg      2580
     tggtggattt cagtaaaagc aagtccccac cctccccagt ctgcattagt gggaaagatg      2640
     tggaaatagt cccatcttac aggttcctgg gtgttcagct ggacaataaa ctggagtggt      2700
     ccacaaacac cgatgctgtc tacaagaagg ccatgagcag actctatttc ctcaggagac      2760
     tcaggtcctt cagtgtttgc agcaggatgc tccacatgtt ctaccagtct gtcatggcta      2820
     gcaccatctt ctttgctgta gtgtgctggg gtgcaggcat taaagcaaag gatgccaaca      2880
     gactcaacaa actcattaaa aaggcagggt ctgttgttgg ctgtagactt gcaaacttgg      2940
     acgaggtggt gagggacagg atggtgttga aactgcggac aatcatggac aatccctccc      3000
     accccctcca taacacagtg gacaaactga gaagcagctt cagcaacaga ctcctgcagc      3060
     ctcgctgctc taaggaacgg tacaggaagt cattcctgcc gtccgccatc agactctata      3120
     actcatccaa acccanccaa taacaataat tgtgtaatgt ttatgttgta attttatttc      3180
     tattttattc tatatttatg tatatatgct tataatgctt ataatatgta tatattatat      3240
     tatgtatata ttatatattc tgtatatatg ctttataacg ttctaatctt atctgtattt      3300
     atattattct gtttctatac tttgtatagg ctgctactac aattcaattt ccctacgggg      3360
     atgaataaag tacatcttga atcttgaatc ttaatcttaa t                          3401
//
