ID   Birddawg_LTR repbase; DNA   ; VRT   ; 341 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Birddawg (GGERVL18) retrotransposon, consensus LTR sequence.
XX
KW   Gypsy; LTR Retrotransposon; Interspersed Repeat; Birddawg_LTR;
KW   GGERVL18; LTR; retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
RN   [2]
RP   1-341
RA   Smit A.F.;
RT   "GGERVL18 retrotransposon, LTR.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
CC   [2] (Consensus)
XX
CC   Estimated 7,404 copies of Birddawg elements in the chicken
CC   genome. Wicker et al split Birddawg LTR into 6 subfamilies
CC   that range from 79% to 93% similar to this consensus sequence.
XX
SQ   Sequence 341 BP; 76 A; 84 C; 83 G; 98 T; 0 other;
     tgtatgggaa ctgttgaatc acggcctgaa cctctgattg atcacctgag gcaagcactg        60
     agtcagccgc gggagcacag gtgaaggcaa ttcacctgtg tgaccggaag gggtggagcc       120
     tggctccacc tctcctagac cccatttaag ggctgactgc cactgaggaa ggatctcttt       180
     ctggagatcg ctcctcttgg agttttttct gtgagcctag gacacgggtg agcattttca       240
     tttatttctg attatccctt tccaacgtga taatctttct agctgtacga tctgtggata       300
     ccagcctaac cacaccactc tgtatatttg ttgattatac a                           341
//
ID   TOL2_OL     repbase; DNA   ; VRT   ; 4681 BP.
XX
AC   D84375;
XX
DT   21-APR-1997 (Rel. 3, Created)
DT   21-APR-1997 (Rel. 3, Last updated, Version 1)
XX
DE   DNA transposon Tol2.
XX
KW   DNA transposon; Tol2; TOL2_OL.
XX
OS   Oryzias latipes
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Actinopterygii; Neopterygii; Teleostei; Euteleostei; Neoteleostei;
OC   Acanthomorpha; Acanthopterygii; Percomorpha; Atherinomorpha;
OC   Beloniformes; Adrianichthyidae; Oryziinae; Oryzias.
XX
RN   [1]
RP   1-4681
RA   Hori H.;
RT   "Direct Submission.";
RL   Direct Submission to EMBL/GenBank/DDBJ (10-APR-1996). Hiroshi
RL   Hori, Nagoya University, Division of Biological Science;
RL   Furo-cho, Chikusa-ku, Nagoya, Aichi 464-01, Japan
RL   (E-mail:hori@bio.nagoya-u.ac.jp, Tel:052-789-2504,
RL   Fax:052-789-2974).
XX
RN   [2]
RP   1-4681
RA   Koga A., Suzuki M., Inagaki H., Bessho Y., Hori H.;
RT   "Transposable element in fish.";
RL   Nature 383(6595), 30-30 (1996).
XX
DR   GenBank; D84375; Positions       1    4681.
XX
CC   repeat_unit 1..19
CC   /note="5' terminal inverted repeat"
CC   repeat_unit 4665..4681
CC   /note="3' terminal inverted repeat"
CC   CDS 320..673
CC   /note="ORF1"
CC   repeat_unit 1433..1734
CC   /note="internal inverted repeat"
CC   repeat_unit 1785..2087
CC   /note="internal inverted repeat"
CC   CDS 2167..3225
CC   /note="ORF2"
CC   CDS 3323..3631
CC   /note="ORF3"
CC   CDS 4013..4369
CC   /note="ORF4".
XX
SQ   Sequence 4681 BP; 1401 A; 880 C; 874 G; 1526 T; 0 other;
     cagaggtgta aagtacttga gtaattttac ttgattactg tacttaagta ttatttttgg        60
     ggatttttac tttacttgag tacaattaaa aatcaatact tttactttta cttaattaca       120
     tttttttaga aaaaaaagta ctttttactc cttacaattt tatttacagt caaaaagtac       180
     ttattttttg gagatcactt cattctattt tcccttgcta ttaccaaacc aattgaattg       240
     cgctgatgcc cagtttaatt taaatgttat ttattctgcc tatgaaaatc gttttcacat       300
     tatatgaaat tggtcagaca tgttcattgg tcctttggaa gtgacgtcat gtcacatcta       360
     ttaccacaat gcacagcacc ttgacctgga aattagggaa attataacag tcaatcagtg       420
     gaagaaaatg gaggaagtat gtgattcatc agcagctgcg agcagcacag tccaaaatca       480
     gccacaggat caagagcacc cgtggccgta tcttcgcgaa ttcttttctt taagtggtgt       540
     aaataaagat tcattcaaga tgaaatgtgt cctctgtctc ccgcttaata aagaaatatc       600
     ggccttcaaa agttcgccat caaacctaag gaagcatatt gaggtaagta cattaagtat       660
     tttgttttac tgatagtttt tttttttttt tttttttttt tttttgggtg tgcatgtttt       720
     gacgttgatg gcgcgccttt tatatgtgta gtaggcctat tttcactaat gcatgcgatt       780
     gacaatataa ggctcacgta ataaaatgct aaaatgcatt tgtaattggt aacgttaggt       840
     ccacgggaaa tttggcgcct attgcagctt tgaataatca ttatcattcc gtgctctcat       900
     tgtgtttgaa ttcatgcaaa acacaagaaa accaagcgag aaattttttt ccaaacatgt       960
     tgtattgtca aaacggtaac actttacaat gaggttgatt agttcatgta ttaactaaca      1020
     ttaaataacc atgagcaata catttgttac tgtatctgtt aatctttgtt aacgttagtt      1080
     aatagaaata cagatgttca ttgtttgttc atgttagttc acagtgcatt aactaatgtt      1140
     aacaagatat aagtattagt aaatgttgaa attaacatgt atacgtgcag ttcattatta      1200
     gttcatgtta actaatgtag ttaactaacg aaccttattg taaaagtgtt accatcaaaa      1260
     ctaatgtaat gaaatcaatt caccctgtca tgtcagcctt acagtcctgt gtttttgtca      1320
     atataatcag aaataaaatt aatgtttgat tgtcactaaa tgctactgta tttctaaaat      1380
     caacaagtat ttaacattat aaagtgtgca attggctgca aatgtcagtt ttattaaagg      1440
     gttagttcac ccaaaaatga aaataatgtc attaatgact cgccctcatg tcgttccaag      1500
     cccgtaagac ctccgttcat cttcagaaca cagtttaaga tattttagat ttagtccgag      1560
     agctttctgt gcctccattg agaatgtatg tacggtatac tgtccatgtc cagaaaggta      1620
     ataaaaacat caaagtagtc catgtgacat cagtgggtta gttagaattt tttgaagcat      1680
     cgaatacatt ttggtccaaa aataacaaaa cctacgactt tattcggcat tgtattctct      1740
     tccgggtctg ttgtcaatcc gcgttcacga cttcgcagtg acgctacaat gctgaataaa      1800
     gtcgtaggtt ttgttatttt tggaccaaaa tgtattttcg atgcttcaaa taattctacc      1860
     taacccactg atgtcacatg gactactttg atgtttttat tacctttctg gacatggaca      1920
     gtataccgta catacatttt cagtggaggg acagaaagct ctcggactaa atctaaaata      1980
     tcttaaactg tgttccgaag atgaacggag gtgttacggg cttggaacga catgagggtg      2040
     agtcattaat gacatctttt catttttggg tgaactaacc ctttaatgct gtaatcagag      2100
     agtgtatgtg taattgttac atttattgca tacaatataa atatttattt gttgttttta      2160
     cagagaatgc acccaaatta cctcaaaaac tactctaaat tgacagcaca gaagagaaag      2220
     atcgggacct ccacccatgc ttccagcagt aagcaactga aagttgactc agttttccca      2280
     gtcaaacatg tgtctccagt cactgtgaac aaagctatat taaggtacat cattcaagga      2340
     cttcatcctt tcagcactgt tgatctgcca tcatttaaag agctgattag tacactgcag      2400
     cctggcattt ctgtcattac aaggcctact ttacgctcca agatagctga agctgctctg      2460
     atcatgaaac agaaagtgac tgctgccatg agtgaagttg aatggattgc aaccacaacg      2520
     gattgttgga ctgcacgtag aaagtcattc attggtgtaa ctgctcactg gatcaaccct      2580
     ggaagtcttg aaagacattc cgctgcactt gcctgcaaaa gattaatggg ctctcatact      2640
     tttgaggtac tggccagtgc catgaatgat atccactcag agtatgaaat acgtgacaag      2700
     gttgtttgca caaccacaga cagtggttcc aactttatga aggctttcag agtttttggt      2760
     gtggaaaaca atgatatcga gactgaggca agaaggtgtg aaagtgatga cactgattct      2820
     gaaggctgtg gtgagggaag tgatggtgtg gaattccaag atgcctcacg agtcctggac      2880
     caagacgatg gcttcgaatt ccagctacca aaacatcaaa agtgtgcctg tcacttactt      2940
     aacctagtct caagcgttga tgcccaaaaa gctctctcaa atgaacacta caagaaactc      3000
     tacagatctg tctttggcaa atgccaagct ttatggaata aaagcagccg atcggctcta      3060
     gcagctgaag ctgttgaatc agaaagccgg cttcagcttt taaggccaaa ccaaacgcgg      3120
     tggaattcaa cttttatggc tgttgacaga attcttcaaa tttgcaaaga agcaggagaa      3180
     ggcgcacttc ggaatatatg cacctctctt gaggttccaa tgtaagtgtt tttcccctct      3240
     atcgatgtaa acaaatgtgg gttgtttttg tttaatactc tttgattatg ctgatttctc      3300
     ctgtaggttt aatccagcag aaatgctgtt cttgacagag tgggccaaca caatgcgtcc      3360
     agttgcaaaa gtactcgaca tcttgcaagc ggaaacgaat acacagctgg ggtggctgct      3420
     gcctagtgtc catcagttaa gcttgaaact tcagcgactc caccattctc tcaggtactg      3480
     tgacccactt gtggatgccc tacaacaagg aatccaaaca cgattcaagc atatgtttga      3540
     agatcctgag atcatagcag ctgccatcct tctccctaaa tttcggacct cttggacaaa      3600
     tgatgaaacc atcataaaac gaggtaaatg aatgcaagca acatacactt gacgaattct      3660
     aatctgggca acctttgagc cataccaaaa ttattctttt atttatttat ttttgcactt      3720
     tttaggaatg ttatatccca tctttggctg tgatctcaat atgaatattg atgtaaagta      3780
     ttcttgcagc aggttgtagt tatccctcag tgtttcttga aaccaaactc atatgtatca      3840
     tatgtggttt ggaaatgcag ttagatttta tgctaaaata agggatttgc atgattttag      3900
     atgtagatga ctgcacgtaa atgtagttaa tgacaaaatc cataaaattt gttcccagtc      3960
     agaagcccct caaccaaact tttctttgtg tctgctcact gtgcttgtag gcatggacta      4020
     catcagagtg catctggagc ctttggacca caagaaggaa ttggccaaca gttcatctga      4080
     tgatgaagat tttttcgctt ctttgaaacc gacaacacat gaagccagca aagagttgga      4140
     tggatatctg gcctgtgttt cagacaccag ggagtctctg ctcacgtttc ctgctatttg      4200
     cagcctctct atcaagacta atacacctct tcccgcatcg gctgcctgtg agaggctttt      4260
     cagcactgca ggattgcttt tcagccccaa aagagctagg cttgacacta acaattttga      4320
     gaatcagctt ctactgaagt taaatctgag gttttacaac tttgagtagc gtgtactggc      4380
     attagattgt ctgtcttata gtttgataat taaatacaaa cagttctaaa gcaggataaa      4440
     accttgtatg catttcattt aatgtttttt gagattaaaa gcttaaacaa gaatctctag      4500
     ttttctttct tgcttttact tttacttcct taatactcaa gtacaatttt aatggagtac      4560
     ttttttactt ttactcaagt aagattctag ccagatactt ttacttttaa ttgagtaaaa      4620
     ttttccctaa gtacttgtac tttcacttga gtaaaatttt tgagtacttt ttacacctct      4680
     g                                                                      4681
//
ID   Kronos_LTR  repbase; DNA   ; VRT   ; 476 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Gallus gallus Kronos LTR retrotransposon, consensus.
XX
KW   Gypsy; LTR Retrotransposon; Interspersed Repeat; GGERVL-B;
KW   GGLTR3F1; GGLTR3F2; Kronos_LTR; LTR; Gypsy-like; retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
RN   [2]
RP   1-476
RA   Smit A.F.;
RT   "GGERVL-B retrotransposon LTR sequence.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
CC   [2] (Consensus)
XX
SQ   Sequence 476 BP; 105 A; 119 C; 102 G; 150 T; 0 other;
     tgtcatggtt ttgtaatttt gctattggta ttccacatca taacatcatg gacaaaagag        60
     aagaagaact acgtatccca gaggacctca cggtcagaga aggaagatac atcacggaag       120
     atacgtcatc tggttgcgcg cggtcttttt cactttcgct tgctgccagg gagaggagtg       180
     ggtgtgcttc caagccgtgc gccttcatca agtagggctt tcggtttcgg aaactctctc       240
     actctctctc tctatcgctc tttcgctctc tctcatttca tttgatttat tatccttact       300
     tccaattaga ttgtattata tcgtgtcatc ttgcattcca acatcgtagt tagtaaaata       360
     agttctcctt cttagatcgt tgccgctgct ccgttttttt tcgggaagcc aggggggccc       420
     gcgagcctac tgcccccctg tcacgggcac agatctatct agataactcc gtgaca           476
//
ID   Soprano_LTR repbase; DNA   ; VRT   ; 913 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Gallus gallus Soprano retrotransposon, LTR sequence.
XX
KW   LTR Retrotransposon; Interspersed Repeat; ENS1; LTR; Soprano_LTR;
KW   retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
RN   [2]
RP   1-913
RA   Smit A.F.;
RT   "ENS1 derived retrotransposon, LTR sequence.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
CC   [2] (Consensus)
XX
CC   cENS is expressed in embryonic stem cells.
XX
SQ   Sequence 913 BP; 212 A; 270 C; 207 G; 224 T; 0 other;
     tgtaagagac tattctttta tatcattgac tcaaagtttg ctgaggaaca agtccaggca        60
     agtcctgggc aaaggcagag aaatcttttg tcttgaggac actgatggac aggtcctggc       120
     taaggattgt gaaatcctct aaggagcaca gatggacaag gccaggggca tcgagagaga       180
     gataagctgc cgctaatggc cgggaaacgg tctttttgtg tggacttatc tcaaggaaaa       240
     tggccatctc aggaggtatg cacaggactc ttgctcaagc acccaggaat gtcacgtagg       300
     cagcagaaaa tggaggataa aagagggtcc aataaccaca acggtggaag ctgatccttc       360
     accacaacca cggcaacggg agaggcttat ctctcaccac gacagacttg aggggttctc       420
     tgccaactga tctctcaccg caacgtgtag acggatctct acgtggagac tgatctctca       480
     ccacgacacg agcttcctgc cttccgatcc tcctctacgg accgtttgct gacggacttc       540
     cctgggcctg ctacctgaga cctgctgctt cctccctgac ctgcatcctc tcgctgcccc       600
     agaccggcct cgctgctcct gcccttcggc ctcggaccgt cggaacgtcg tgcaacggga       660
     ctgctgccgg atcctggtgg tgactatccc cgctttacgc aattcttgcc tctttctatc       720
     ttttctatcg ctcgccttcc cttccccatc accccaatcc ttaatagcgt ccgtcctccc       780
     ctttccccat ctcccttatt aacatttgta ataaactggt cggaccaaca tttgaaccgc       840
     tgtttcttaa tctcacgccg ggcatacata tttcaaagaa cctcctctcc ctcctataaa       900
     ttggagcgag aca                                                          913
//
ID   PSLINE      repbase; DNA   ; VRT   ; 388 BP.
XX
AC   D82939;
XX
DT   10-APR-1997 (Rel. 3, Created)
DT   10-APR-1997 (Rel. 3, Last updated, Version 1)
XX
DE   Platemys spixii CR1-like LINE, partial sequence.
XX
KW   retrotransposon; CR1-like LINE; PSLINE.
XX
OS   Platemys spixii
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Testudines; Pleurodira; Chelidae; Platemys.
XX
RN   [1]
RP   1-388
RA   Okada N.;
RT   "Direct Submission.";
RL   Direct Submission to EMBL/GenBank/DDBJ (05-JAN-1996). Norihiro
RL   Okada, Tokyou Institute of Technology, Faculty of Bioscience and
RL   Biotechnology; 4259 Nagatsuta-cho, Midori-ku, Yokohama, Kanagawa
RL   227, Japan (E-mail:nokada@bio.titech.ac.jp, Tel:81-45-923-1136,
RL   Fax:81-45-923-1136).
XX
RN   [2]
RP   1-388
RA   Ohshima K., Hamada M., Terai Y., Okada N.;
RT   "The 3' ends of tRNA-derived short interspersed repetitive
RT   elements are derived from the 3' ends of long interspersed
RT   repetitive elements.";
RL   Mol. Cell. Biol 16(7), 3756-3764 (1996).
XX
DR   GenBank; D82939; Positions       1     388.
XX
CC   3' end of LINE, CR1 like.
CC   291-351 portion of PSLINE is similar to GRTE9 (116-179).
XX
SQ   Sequence 388 BP; 101 A; 68 C; 119 G; 100 T; 0 other;
     ctgcagaaga gaaaaatgag gggggatttg atagcagcct ttaactaccc aaaagggggt        60
     tccagggagg atggagctaa gctgttttca gaggtggcag atgacagaac aaggaacaat       120
     ggtctcaagt tgcagtgggc gaggtctagg ttggacatta ggaaaaagtt tttcactagg       180
     agggtggtga agcattggaa taggttacct agggaggtgg tggcatctct accttagagg       240
     ttattaagct gcggcttgac aaaaccctcg ctgggatgat ttagctaggg ttggtcctgc       300
     tttgagcagg gggttggact agatgacctt ctgaggtccc ttccaattct aatattctat       360
     gattctctga catggcatgc cacatccg                                          388
//
ID   Charlie-Galluhop repbase; DNA   ; VRT   ; 1299 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Chicken putative Charlie-Galluhop fusion transposon - a
DE   consensus.
XX
KW   Charlie-Galluhop; putative class 2 transposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-1299
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
CC   [1] (Consensus)
XX
CC   A putative fusion between two transposons; the Mariner-like
CC   Galluhop and Charlie. The element has 5' and 3' ends similar
CC   to Charlie12, with an internal region consisting of a full
CC   length Galluhop element, complete with 2 bp TA target site
CC   duplications, characteristic of Mariner-like transposons.
XX
SQ   Sequence 1299 BP; 383 A; 256 C; 276 G; 381 T; 3 other;
     caacaagagg cccagctcca ggcacacacc catcactcac aacagccaca caatggtgtg        60
     caatgggcac cgtctaggct gaagacaggg catggggtgc agtgcagtgc tgactcagtg       120
     atggcacgta actatatgca ctttggtaca ctggctgaac acagtcctgt gaaaataggc       180
     agccgtgttt tccttttgat aaaggaattt gagaaagttt caagattgca tttttttttg       240
     caactccatt ttcagttgac ataaatacat tacctgcaaa ttttcaaatg gaatgtaaga       300
     gttgcaatca aaaaaatctg atcatgtctc tttaccagac ttttataagc cctctcttac       360
     cagagaaaaa tatccctcac ttcacaatca caccttattc atgtcatcgc tttttggcag       420
     tacttacatt ttgaacaact gtttcaagga tgaagtacag gaagagtaaa atttcatcaa       480
     aaatctctga tgaacacctt gagaactcac taagaattgc agccactgcc attgaaccag       540
     actgatgcat tagtttcaca aaaacaaggt caaatatccc actagtttta tggttttgtt       600
     gctctctttt tttttaataa aaatattaaa aattaaaaag ttttgttact tatatacaaa       660
     aaatattata tattttatga gggctgctcc gaaagtaatg cctcctattt tattatgttg       720
     gcccacaaca tcagaggtgg atgttggtgg tatggcagta gaggttgaac cttcccacca       780
     atattccatt acattttgtt gctgtgtgac agatggcagc agaggggcag tctgacaaaa       840
     tggcrtctga catggaagtg cgtatgaagc aaaggtgtgt cactgaattc ctccatgcag       900
     aaaaaaatgg cacccactga cattcattga ygcttgctga acgtttatgg agaccaaaca       960
     gtggatgtga gcacagtgag gggtgggtgg tgcgtttcag cagtggtrac agtgggtcac      1020
     ctccgtggtg cagattttta tgagcatggc atgcaggctc ttgttcattg ctggtaaaaa      1080
     tgcatagcta atggtggtga ctatgttgaa aaaagtgttt tgtagctgag aatttgctct      1140
     atcaaatagt gttattgtgc tctttgtatc tgttgtagtt tccatggaaa taaataggag      1200
     gcattacttt tggagcaacc tacgtatatg cagcccaaga caattcctct tcactcagtg      1260
     cggcccaggc aagccaaaag gttggacacc catgcccta                             1299
//
ID   GGLTR8B_LTR repbase; DNA   ; VRT   ; 1071 BP.
XX
AC   .
XX
DT   06-SEP-2005 (Rel. 10.08, Created)
DT   06-SEP-2005 (Rel. 10.08, Last updated, Version 1)
XX
DE   Long terminal repeat of ERV3 Endogenous Retrovirus from chicken.
XX
KW   ERV3; Endogenous Retrovirus; Interspersed Repeat;
KW   LTR retrotransposon; GGLTR8B_LTR.
XX
OS   Gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae.
XX
RN   [1]
RP   1-1071
RA   Smit A.F.;
RT   "GGLTR8B_LTR - ERV3 Endogenous Retrovirus from chicken.";
RL   Direct Submission to Repbase Update (06-SEP-2005).
XX
CC   [1] (Consensus)
XX
CC   GG000081, GG000168 20% subst 5bp dups cut general.
XX
SQ   Sequence 1071 BP; 223 A; 272 C; 379 G; 193 T; 4 other;
     tgtattgggc ttacgtggca aggttttggt agcggagggg ctgcaggggt ggcctctgtg        60
     agcagagccc agcagctgcc ccatgtcaga tcagagccag ctccagctgc tccaaaaggg       120
     acccgccgct ggccagagct gagccatgag cgacgctggn tgtgcctctg ggagagcaga       180
     tttaagaaag ggaaaaactg ctgcgcaaca gcagctggga gagaggagtg agaaatgtgg       240
     agagaaacag ccctgcagnc accaaggtca gtgcagaagg agggcaggag gtgctccagg       300
     cgcggagcag aagttccctg cagcccagga gaggcccatg gnggagcagg ctgtccccct       360
     gcagcccacg ggcaccacgc ggagcagatc tccacgtgca gccatggagg agcccacggt       420
     gcagcagtgg atgtggcctg gaggaggtgc agcccatgga gagcccctgc aggagcagcc       480
     ccgggccgga gctgcagccc atggagagga gcccgcggtg gggcaggagg gctgggggag       540
     ctgctgcccg tggggacccg tgctggagca gtgcgctcct gaaggatggg ccccgtggta       600
     cggagccatg ttggagcagt gcttggagag ctgcagcctg tgggaagccc acgcaggatc       660
     agttcgggaa ggacggcatc ccgtgggagg gaccccacgt ggagcagggg cagagagtga       720
     ccatgaagga gcggcagaga cgaagcgtta tggactgacc gcagccccca ttccccgttc       780
     ccctgcaccg ctcgggggga ggaggtagaa gagggtggat ggggggaagg tgtttttagt       840
     ttgcttttag ttctcactgc tctagtctgt tagtaatagg caataaatta cattaatctc       900
     cctacgctga gtctgttttg cccgtgacgg taattggtga gtgatctccc tgtccttatc       960
     tcaacccntg agcctttttt catcgtattt tctccccctg ttcctttgag gagggggagt      1020
     gagagagcag cgtggtggag cttagctgcc catcagtgtg aaaccaccac a               1071
//
ID   CR1_F       repbase; DNA   ; VRT   ; 6509 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Gallus gallus CR1_F mother element.
XX
KW   CR1; Non-LTR Retrotransposon; Interspersed Repeat; CR1_F; non-LTR;
KW   retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Smit A.F.;
RT   "CR1-F non-LTR retrotransposon.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
RN   [2]
RP   1-6509
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
CC   [2] (Consensus)
XX
CC   ORF-2:
CC   MRGEGDKTRPARDEPGGTIIGLGVRREAQLKCVYTNAHSMGNKQEELEAIVQQASYDLVAITET
CC   WWDRSHDWSAAMDGYKLFRKDRQGRRGGGVALYVKECFGVTELMTGDNKVESLWVKIRGRADKA
CC   DILVGVCYRPPNQDEETDELFYEQLVEAARSPAFVLMGDFNFPNICWEYNLAQKKQSRRFLEYT
CC   FQKEDSFLMQMIREPTRGAAPLDLLFTNREGLVGDVEIGGCLGQSDHDMVEFSILGGVRRRNSK
CC   TATLDFQRADFELFRRLVGRVPWGSVLESKGVQDGWLLFKKEVLKAQEQAVPLSRKMSRRGRRP
CC   VWMNRELFLRLQEKKRIYLLWKKGRATRKEYKEVIKMCREKIRKAKAQLELNLAAGVKGNKKLF
CC   YKYINSKRRTRENLHSLLDEAGNVTTEDKEKADVLNAFFTSVFKSQTSYPQVSPLSDLAALAGE
CC   QTKPPTIHEETVRDLLHQLDCHKSMEPDEIHPRVLRELAEVIAEPLSIIYQRSLLTGEVPEDWR
CC   LANVTPISKKGCREDPGNSRPVSLTSVPGKIMEQIVLREITWHVQDNRGIRPSQHGFTKGRSCL
CC   TNLISFYDPVTRLVDEGKAVDVVYLDFSKAFETVSHSILLQKLAVRGLDRYTLGWVRNWLEGQA
CC   QRVVVNGVKSSWGPVTSGVPQRSVLGPVLFNVCIDDLDEGIECTLIKFADDTKLAGSVDLPEGR
CC   EALQRDLDRLDSWAEANGMGFNKTKCRVLHFGRSNPRQCYRLRAEWLEDCVEEMDLGVLIDTRL
CC   NMSQWCAQVAKKANGILACIRNSVASRNREVIVSLYSALARLHLEYCVQFWAPHCKKDIEALEC
CC   VQRRATKLVRGLEHRPYEEWLKELGLFSLEKRRLRGDLIALYNYLKGGCSELGVSLFSRVTVIE
CC   REGMASSCAREDSGWTLGNTTSLKGWSGTGMGCPEWWWSHRAWWCLKSIWMLC
CC   ORF-1:
CC   MVSTRQRACTRKTVATQTEGLPRNVAVQVSGCRGCHSLLLPREDGKDATCVRCEQVDELSLVVE
CC   LREEVERLRTIRECEREIDWWSDSLRERCRDSVPQTVVDPFPCCSRAQRADSRQEKEWQQVPAR
CC   KCRRPPPQPTTVPQVSLHNRFDALKPEGEVSEDKVGRLPPSVTKVRRSAPRLKTASSKKERKVI
CC   VVGDSLLRGTEGLICQPDPTRREVCCLPGARVRDISRKLPGLIHPSDYYPLLIVQAGSDEVADR
CC   SLRAIKNYFRGLGRLVDNAGMQVVFAGIPTVAGKDNAVTRKTHHINTWLRGWCKRKNLGFFDHG
CC   AIYLAPGLRFADGYHLSQRGKRTLAQELAGLVERSLN.
XX
SQ   Sequence 6509 BP; 1708 A; 1359 C; 1804 G; 1638 T; 0 other;
     tgtcaggtct tgcattactc catatatatc tgtaggaaac tgaaatcatt actctgtagt        60
     gttatgaaca ctaaattgaa aacaaaaact taatccaaat ccccatattc tggattaaaa       120
     ctaactttat tttgaaagca agtatttttc tttgatgaat gcctcttttt tctttctagg       180
     ttactttgca acttgaagga tacagtagct ctctaccctg ctgagttttg aatttcagct       240
     tttagttgtt ttactttaat ctgagggaaa actcccatgt attcaaaaag gtataagcca       300
     tttaaaaagt atcaacaaaa atatgcttcc tctctgaacc tgcattcagt atccaacaat       360
     aaatttgaca ctgcagccac attttagccc cagatcagtc acaataaaca tcagttgcaa       420
     acctagcaac tcaaatcagc aaattcaata tcacttgtcc tagttctgct aaccttgccg       480
     tgaacctatc catttagtcc aagaggtcct aaccttcatt gctgcagaga ccagcttcag       540
     ggcaggtaag actgctctgg acaagggacc taaagcaaaa aggctgacca aaaagctctt       600
     tttagggctt ttttgaagct agcaaaagca ctataccggt gccggggggc tggcagcttg       660
     tgggcgggct actgagccag caggggcaga gctggcactg cccactctta tctcgcgagc       720
     tcgaccttga ccttttgctg tgtgactaga agcatctttg atagagtgga agctagcttc       780
     caccccctta actcactaga tgagaaatgg gtgttacctt ccaccgttaa caggaaggga       840
     gtcagtgtgt gagcgcagcc cacgctgccc atactgcagc agcaggtgtg ggaggtgggt       900
     cttgtggcag gatacgtgag tgtttctttt gttccttttg tcttcactta ggagacaagc       960
     tctcctacac agtccctgtg acctgcaatt tgaacatggc aggcagcagg cttgcaccag      1020
     gaagactgtg gcgacccaga ccgagggcct gcccagaaat gtggctgtct ggagagcaaa      1080
     gagttatcac tggcatgcca attacagtta acaaggagaa gcttggtctg ttggcaaggc      1140
     tacagggtgc cttatgtttt aatgacaacg gtgatcaaac actgcatgag tatgcttcag      1200
     aattaatata ttaatagtga gcaaaagagg tccctgtcca tgtgtaggag atgccgttac      1260
     agaaataatg caaatattga tagtaattag tcatggggat ctcagtgtag tctctctttc      1320
     tcttgtattc cttcacaatg tcatgtctta aaagaatcgt tggcttctat ggttaatttt      1380
     ttgtacttgg aaattttatt ttcattatcc tttcatgcag tgttttagac cttgggatta      1440
     tcaggactgc attatgtcat gtatgcatca tgtacttcag aaacttttta gcagatcact      1500
     tcagaagcag aagttgggat attagcaggg aggggtcacg gctatattgt cattcaagag      1560
     actgacaggc acttaggcca gttctgatga agcgacctaa acaaagtgag atgcttttgg      1620
     agggctgtag atctctcatg ttctcccccc attagtcctg actaatgtag gagcaagtgg      1680
     gtcttgtggc agtatacgtg agtgtttctt ttgttccttt cgtcttcgct taggagacca      1740
     gctctcctac ggacagtccc tgtgacctcc agtttgaaca tggtctctac caggcagcgg      1800
     gcttgcacca ggaagactgt ggcaactcag acagagggcc tgcccagaaa tgtggccgtg      1860
     caggtctctg gctgcagggg ttgccacagc ctgctgctgc cgagggagga tgggaaggat      1920
     gccacttgtg tgaggtgcga gcaggtagat gagctgctca gcctggtggt agagctcagg      1980
     gaggaggtgg agagattaag aaccatcaga gagtgcgagc gggagattga ctggtggagt      2040
     gactctctga gagaaagatg cagagattcc gtcccccaga ccgtagtgga ccctttccct      2100
     tgctgtagtc gagcacagag agctgattca agacaagaga aggaatggca gcaggtccca      2160
     gctcggaaat gcaggcgacc cccaccccaa cctaccacgg ttcctcaggt gtctctacat      2220
     aataggtttg atgccctgaa accggaggga gaggtaagtg aggataaggt gggaagactg      2280
     cctccaagtg tgactaaggt gaggaggtca gctccacgct taaagactgc ttcctccaaa      2340
     aaagaaagga aggtgatagt tgtaggtgac tccctactga gaggaacaga gggccttata      2400
     tgtcagcctg accctacccg cagggaggtg tgctgcctcc ctggggcccg ggtcagggat      2460
     atttccagga aacttcctgg tctgatccac ccctctgatt actatccatt attgatagtt      2520
     caggctggaa gcgatgaggt tgctgacaga agcctgaggg ctataaagaa ttattttagg      2580
     ggactgggga ggttagttga caatgcaggc atgcaagtag tatttgcagg tattcctaca      2640
     gtggcaggga aagataatgc agtgaccagg aaaacccatc acataaacac atggctgaga      2700
     ggctggtgca aacgcaagaa tctcgggttc tttgatcatg gggcgatcta cttggcacct      2760
     ggcctgaggt ttgcagatgg gtatcacctg tctcaaaggg ggaaacggac ccttgcccag      2820
     gagctggcag gacttgtaga gaggtctttg aactagacat gaggggggaa ggggataaaa      2880
     ccaggcctgc tagagatgag cctgggggaa cgataatagg attaggggtg aggcgagagg      2940
     cccagctaaa gtgtgtctat accaatgcac acagcatggg caacaaacaa gaagagttag      3000
     aagccattgt gcagcaggca agctatgacc tagttgccat tacagaaacg tggtgggacc      3060
     gctcccatga ctggagtgct gcaatggatg gctacaaact cttcaggaag gataggcaag      3120
     gaaggagagg tggtggagtg gctctctatg ttaaagagtg ctttggggtt actgaactta      3180
     tgactgggga taataaggtt gaatccttat gggttaagat caggggaaga gctgacaagg      3240
     cagacatcct ggtgggcgtc tgttatagac cgccaaacca ggatgaagag acagatgagt      3300
     tgttctatga gcagctggtg gaagctgcac gatcgccggc ctttgtcctc atgggggact      3360
     tcaacttccc caacatatgc tgggaataca atttagcaca gaagaagcag tctaggaggt      3420
     ttctggaata tacattccag aaggaggaca gcttcttgat gcagatgata agagaaccta      3480
     cgagaggagc tgccccatta gacttgctgt tcacaaacag agaaggtctg gtgggagatg      3540
     tagagattgg gggctgtctt gggcagagtg accacgacat ggtagagttc tcgattcttg      3600
     gtggagtcag gaggaggaac agcaaaactg ctaccttgga cttccagagg gcagactttg      3660
     aattgttcag gagactagta gggagagtcc cctggggttc agtcttagag agtaaagggg      3720
     tacaagatgg ctggttgctc ttcaagaagg aagtcttaaa ggcgcaggag caggctgtac      3780
     ccctgagccg caaaatgagc cggcgcggaa gaagaccggt gtggatgaat agggaactat      3840
     tcttgaggct ccaggagaaa aagagaatct acctcctgtg gaagaaggga cgggcaaccc      3900
     ggaaagaata caaagaagtt attaagatgt gcagggagaa aatcagaaag gcaaaagccc      3960
     agcttgaact caacctggct gctggggtaa aagggaacaa gaaactcttt tacaagtata      4020
     tcaacagtaa gaggaggacc agggagaatc tccattctct actggatgag gctgggaatg      4080
     tgaccactga ggataaggaa aaggcagacg ttctgaatgc cttctttaca tctgtcttta      4140
     aaagtcagac cagttatcct caggtttctc cactctctga cctggcagcc ctggctgggg      4200
     agcagactaa acctcccaca attcacgagg aaacagtcag agacctgcta caccaactgg      4260
     actgccacaa gtccatggaa ccagatgaga ttcacccgag agtgctgagg gaactggcag      4320
     aggtgatagc cgagccgctt tccatcatct atcagcgctc cttgttgacg ggtgaggtcc      4380
     cagaagactg gaggcttgcc aatgtgactc ccatctccaa gaagggctgc agggaggatc      4440
     cggggaactc caggcctgtt agcctgacct cggtgccggg gaagattatg gagcagattg      4500
     tcttgaggga gatcacgtgg cacgtgcagg acaaccgggg gatcaggcct agccagcatg      4560
     ggttcacgaa gggcaggtcc tgcttgacca acctgatctc cttctatgat ccagtgaccc      4620
     gtctggtgga tgagggaaag gctgttgatg tagtctacct agatttcagc aaagcctttg      4680
     aaactgtctc ccacagtatt ctcctgcaaa agctggcagt ccgtggcttg gacagataca      4740
     ctcttggctg ggtaaggaac tggctggagg gccaggccca gagagtggtg gtgaatggag      4800
     ttaaatccag ctggggaccg gtcacgagtg gtgttcccca gaggtcggtg ctggggcctg      4860
     tcctgtttaa tgtctgtatt gatgacctgg atgagggcat tgagtgcacc ctcattaagt      4920
     ttgcagatga caccaagcta gctggaagtg ttgatctgcc tgagggtaga gaggccctac      4980
     agagggatct ggataggttg gatagctggg ctgaagccaa tgggatggga ttcaacaaga      5040
     ccaaatgccg ggtcctgcac tttggccgca gtaaccccag gcaatgctac aggcttaggg      5100
     cagagtggct ggaagactgt gtagaggaaa tggacctggg ggtgttgatt gacactagac      5160
     tgaacatgag ccagtggtgt gcccaggtgg ccaagaaggc caatggcatc ctggcttgta      5220
     tcagaaatag tgtggccagc aggaacaggg aagtaattgt ctccctgtac tcagcactgg      5280
     cgaggctgca ccttgagtac tgtgtccagt tttgggcccc tcactgtaag aaagacattg      5340
     aggccctgga gtgtgtccag aggagggcaa caaagctggt gaggggtctg gaacacaggc      5400
     cttatgaaga gtggctgaag gagctgggat tgttcagtct ggagaagagg aggctcaggg      5460
     gagaccttat tgctctctat aactacctga agggaggttg tagtgagctc ggggtcagcc      5520
     tcttctctcg tgtgacagtg atagaacgag agggaatggc ttcaagctgc gccagggaag      5580
     attcaggctg gacattagga aatactactt ctctgaaagg gtggtcaggc actggaatgg      5640
     gctgcccaga gtggtggtgg agtcaccgag cctggtggtg tttaaagagc atttggatgt      5700
     tgtgttgagg gacatggttt agtgagaacc attggtgaag ggcgaatggt tggactggat      5760
     cctgtgggtc ttttccaacc ttagcgattc tatgattctg tgattctgag tttgttgaaa      5820
     cctgcagaac agctgccatg tccttccact gagaggctgt ggctattcct catttaattg      5880
     tctgtcgaca ctctgtcaaa cagcaaggga ggcactctgt ttgcacctgt gaacaagctg      5940
     tgcctcagcg aatgctcata ttctctcaga agatgcatgt tcccaaggag aaaagacttt      6000
     cagtgtcaaa tcttccacac ctattagtgg ctaagcctcc aggcccatgt atacatgttt      6060
     ctgatgggct gacagatttt tggtgtctca gcatccgtgt tcagagcaac tgagaatgct      6120
     tcaaatggca ggatcatcct caatcaataa gtttagtacc actgctgcct gctatttgca      6180
     tcataagaga gtcttgatgg actgccttta attcatatga tacaaatatc tataaaaatc      6240
     actcttttgt atctagtggt tttttttgtt tgtttgtttg tttgtttgtt tttttgtggg      6300
     attgttttca tcacatctca acatatttaa taaagtgtat aggactcctt ggaggacttg      6360
     ctgttatctg acatcttagc atgattagaa acacagatct tacagggaga atctactgtg      6420
     tactggagct ctttatcaga tattcttcct cccctttagc aggaggcttg atcaggtttt      6480
     tcattttgag aatcacattg aagagataa                                        6509
//
ID   CR1_B       repbase; DNA   ; VRT   ; 4081 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Gallus gallus CR1_B mother element.
XX
KW   CR1; Non-LTR Retrotransposon; Interspersed Repeat; CR1_B; non-LTR;
KW   retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Smit A.F.;
RT   "CR1-B non-LTR retrotransposon.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
RN   [2]
RP   1-4081
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
CC   [2] (Consensus)
XX
CC   ORF-1_protein:
CC   MGAPRRKVGVTKTVETQAEVPCSSRRKTVAKKTVESQTEDLCMHERKADGKICVATQTEVPSQD
CC   ASTQVTGCVDCWSLAFAVPDDGGRTCIRCDQLNDLLSLVIDLKEEVERLRTIKDCEREIDRWCQ
CC   SLSASRSWHTAEALHGACQPLPPCKQVVEGKQPADGAAVSSLSSPPPSSNLREEEEWKQVPARR
CC   GGHPPSQPSSAPQVPLHNRFEALELEGGVSETVEGGPPVRLPRVKWSTPHLTTASTWKDGRVVV
CC   IGDSLLRGTEGPVCQPDPTRREVCCLPGAQVRDISRKLPGLIRPSDYYPLLIIQAGRDEIVEKS
CC   LRSIKKDFRGLGRVVDGAGVQVVFSSVPSVAGKGTERIQKTHLLNKWLRGWCKHRNFVGFFFDH
CC   GAIYSAPGMMAADGSSLSLKGKRILAEELAGLIERSLN.
XX
SQ   Sequence 4081 BP; 1007 A; 850 C; 1240 G; 843 T; 141 other;
     taatgtatca tattgatcgc caaggttcac tgctcggagc catctcaggc agagccgctg        60
     cgactattag cgaggtacag gggggttccg atcgcttccc tcacacgaag gatccctgcc       120
     tagaagaagc ctttgagagg gcagcgatgt gtcactgccc atcagagacg gagaggagga       180
     gtcggggtgt gagatccacg taggctgttt taacgagtgt tactgagcct gctggttacc       240
     atgggtgcac cccggcggaa ggttggtgtc acaaaaactg tggagaccca ggcagaggtc       300
     ccatgctcaa gcaggaggaa gacagtagcc aagaagactg tagagagcca gactgaggac       360
     ctgtgtatgc acgagaggaa ggctgatggt aagatatgtg tggcgactca gactgaggtc       420
     ccgtcacaag atgctagtac acaggtcact ggctgtgttg actgctggag cctggccttt       480
     gcagtgccag atgatggagg ccgcacttgc ataagatgtg accaactgaa tgacttactc       540
     agccttgtga ttgacctgaa ggaggaggta gagaggctga ggaccataaa ggactgtgag       600
     agagagattg acaggtggtg ccaatccctg tcagcttcga gatcttggca cacggctgag       660
     gctctgcatg gagcatgtca acccctgcca ccttgcaaac aggtggtaga agggaaacaa       720
     ccagcagacg gtgctgcagt gagctccctg tcctctcctc cccctagcag caatttgaga       780
     gaggaggagg agtggaaaca ggtaccagct cggcgaggtg ggcatccccc atcccaacca       840
     tcctcggctc cccaggtgcc tctgcacaat aggtttgagg ccctggaact tgagggaggg       900
     gtgagtgaga ctgtggaggg aggcccaccc gtgaggttgc ctcgggtgaa gtggtcgacg       960
     ccacacctca cgactgcctc cacctggaag gacggaagag tagttgtcat aggtgactcc      1020
     ctcctgcgag gaacagaagg ccctgtatgt cagcctgacc ctacccgtag ggaggtgtgc      1080
     tgcctccctg gggcacaggt cagggacatt tcaaggaaac ttcctggact gattcgccct      1140
     tctgactatt accccttatt gataattcag gctggcagag atgaaattgt tgagaaaagc      1200
     ctgaggtcta tcaagaaaga cttcagggga ctggggaggg tagttgatgg agctggcgtg      1260
     caggtggttt tctcttctgt accatcagtg gcaggaaagg gtactgagag gatccaaaaa      1320
     acccacctct taaataaatg gctcagaggt tggtgcaaac acaggaattt tgttggtttt      1380
     ttttttgacc acggggccat ttactcagca cctggcatga tggctgcaga tggaagtagc      1440
     ctgtctctaa agggtaagag gatcttggct gaggaactgg cgggactcat tgaaaggtct      1500
     ttaaactagg tatgaagggg gaaggggaca aaacgagggc cactggggtt gagcgggtcg      1560
     ttagagggct tgtaccaaac tccatgggca aagatggtgg agtacaaagg aatggagtag      1620
     ggcaggggga tgctgggaat gctgctgttc taggggaccc tagatcccct ataaaggtgg      1680
     cgagagggaa agcccagcta aagtgccttt ataccaatgc acgcagcctg agtaataaac      1740
     aggatgagtt ggaaactgtg atgcacttgg aaagttatga ccttgttgct atcaaagaaa      1800
     catggtggga tgactcccac aactggaata ctaccattga tgggtattgg ctctttagaa      1860
     gggataggag aagtaggaag ggtgggggag ttgccctcta tgtcaaagag tggatagact      1920
     gtgaggagct ccctctgaga aacagtcagg aacaggtcga gggcctgtgg gttagaatta      1980
     gggatgggac taataaaggt cagctggtga taggggtata ctacaggcca cctgatcaag      2040
     gggaggctgt tgacgaggct ttcttgctcc agatgcagga ggcaacgtgc tcacgggccc      2100
     tcatcctggt gggggacttc aaccatccgg gcatctgttg gaaagaccac acggcgagct      2160
     gcaagaggtc cagaaggctt gtggaatcca ttgatgacaa ctttctggta caggtagtgg      2220
     acagaccaac cagaggtgaa gcgttgctgg acctgctgct caccaatgcg gaagagatca      2280
     tcaaagatgt caacgttgga ggcaacctgg gctgcagcga ccatgccctg gttgagttag      2340
     tgatctcgag ggatttgggc ctggtaaagg gtggggtcag gaccctgaac tttggaatag      2400
     caaactttaa gctgttcagt agattgttgg ccaagattcc ctgggatgct gtccttaaag      2460
     ataaagatgt tgaggagagc tggctactct tcaaggatgc cctcctgaaa gcacaagagg      2520
     tctccatccc tctgaatagg aaagtgggca gacgagatag gaaaccggca tggcttggca      2580
     aggacctgct gggcacactg agagcgaaga aaggtgcgtg caagctctag aaacaagggc      2640
     gtgtcacctg ggaagagtac agggatgctg tccggacttg cagatgtagg atcaggaaag      2700
     ccaaggcaca ggtagaactg aacttggtga gggatgtgaa aaacaataag acattctaca      2760
     ggtacattgg ccagaaaaga caggccaaaa caggtgtacc ttctttagta aatttaaaag      2820
     gagaactggc ttcaacggac aaagagaaag ctgaggtact gaatgagttc tttgcctcga      2880
     tcttcactgg tggccaggat tccagtcttt ctcacgttcc tgagccctgc acccccaagc      2940
     ctccaggtgg ggaccagggg ggtaaatccc ctcccactgt aagggcagag caagtccaag      3000
     accgcctcat gagactggat gagtacaagt ctttggggct ggatggcgtg catcccaggg      3060
     ttctgaagga gctggctgag gtggttgcca tgccgctctc catcatattt gagaagtcgt      3120
     ggctgtcagg agaggtccca gatgactgga ggaagggtta catcactccc atttacaaga      3180
     aagggagcaa ggaggaccca gggaactaca ggccggtgag tctcacctct gtgcctggga      3240
     agaccatgga acagatccta ctggatgaca tgctcgatca catgaggaat gagcgtgtga      3300
     tccagaatcc caccacatnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn      3360
     nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn      3420
     nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnt ctcctgggct ccatcatgag      3480
     aggggtggcc agcagggacc ctttggagat tgtccctctt tactctgctc ttgtgaggcc      3540
     cctttaaaag tactgtgtcc ttgtatggag cccacagtac aagaaagaca gagagctgtt      3600
     ggagagggtc cagaggaggg ccatgaagat gatcaggggg ctggagcacc tcccctatga      3660
     agacaggctg aaggagctgg tcttattcag cctggagaag agaaggctgc ggggtgacct      3720
     cattgcagcc tttcagtacc tgaagggagc ctataaacag gaagggagta aactctttga      3780
     aagggtagat aacagcagga caagggggaa cggttttaag ttgaaagagg gaagatttag      3840
     gttggatgtt agggggaagt tctttaccag gagagtggtg aggtgctgga ataggctgcc      3900
     ctgagaggtt gtggatgccc cgtccctgga ggtgttcaag gccaggttgg atgaggccct      3960
     gggcaacctg gtctaataaa tggggaggtt ggtggccctg cctggctggg gggttggaga      4020
     ttcatgatcc ttgaggtccc ttccaaccca ggccattctg tgattctgtg atgcacggag      4080
     a                                                                      4081
//
ID   Gypsy1-I_ST repbase; DNA   ; VRT   ; 4302 BP.
XX
AC   AC146867;
XX
DT   05-FEB-2004 (Rel. 9.01, Created)
DT   05-FEB-2004 (Rel. 9.01, Last updated, Version 1)
XX
DE   Internal portion of Gypsy1_ST retrotransposon.
XX
KW   Gypsy retrotransposon; Gypsy1-I_ST; Gypsy1-LTR_ST; LTR; RNase H;
KW   Tf1 group; chromodomain; gag; protease; reverse transcripatase.
XX
OS   Xenopus tropicalis
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Amphibia; Batrachia; Anura; Mesobatrachia; Pipoidea; Pipidae;
OC   Xenopodinae; Xenopus; Silurana.
XX
RN   [1]
RP   1-4302
RA   Kapitonov V.V., Jurka J.;
RT   "Gypsy1_ST, a self-primed Gypsy LTR retrotransposon from the frog
RT   Silurana tropicalis.";
RL   Repbase Reports 4(1), 24-24 (2004).
XX
DR   Genbank; AC146867; Positions   67702   63401.
XX
CC   Gypsy1-I_ST is an internal portion of a young Gypsy1-I_ST LTR
CC   retrotransposon. The internal sequence is flanked by identical
CC   Gypsy1-LTR_SR long terminal repeats.
CC   Gypsy1_ST belongs to the Tf1 group of self-primed Gypsy LTR
CC   retrotransposons. Its reverse transcription is primed by a
CC   heteroduplex
CC   formed between a 11-bp portion of PBS (Gypsy1-I_ST, pos. 2-12)
CC   and
CC   the 11-bp 5' end of the Gypsy1_ST mRNA (Gypsy1-LTR_ST, pos.
CC   182-192).
CC   Gypsy1_ST encodes a 1493-aa Gypsy1_STp polyprotein (Gypsy1-I_ST,
CC   pos.
CC   14-4302, and Gypsy1-LTR_ST, pos. 1-190) composed of gag (pos.
CC   100-200),
CC   protease (pos. 340-450), reverse transcriptase (pos. 560-730),
CC   RNase H (pos. 820-950), integrase (pos. 1062-1220) and
CC   chromodomain
CC   (pos. 1361-1413).
XX
FH   Key           Location/Qualifiers
FT   CDS           0..0
FT                 /product="Gypsy1_STp"
FT                 /translation="MDPEEAVPDVGRALRGLASRMEAYESQQVRIGQVLDS
FT                 ILSRLPATPAVAEIPPAVVVPLPAMSSAREPRIPPPPRYSGNPQACRGFVT
FT                 QCQIQFEFQPSQFSCERAKVGYVMSRLEGKPLEWATSLWESQSPLTFDVKE
FT                 FLQMFRTIFDAPGRVATASSRLLQIRQGSLGASEYAIDFRTLMAETSWNEE
FT                 AYKAVFYQGLSSRLKDDLVSRDLPDSLEDLIALAIKVDTRLKEHQADKERS
FT                 KKSHPVLAPRFQNPMIPPPSPQFTTSSSEEPMQLGKARLSAQEKLRRRLSG
FT                 LCLYCGGQSHLAVSCPVKLGNTPASSKTVVSFAGSIVPKSVEQSHQFHVPV
FT                 QIRLSSQAIPVSAFLDSGAAGNFMDLAFAKKVGISLFPVTPSIRVFAIDDR
FT                 PLSTDTITLTTGELSVQIGALHLEKMSFLIIPCPSSPVVLGLPWLRLHNPS
FT                 IDWSSGQISRWSQYCQRHCLIPQPLQRVTVSSTSFSALPSVYRDFSDVFCK
FT                 KSAEFLPPHRRYDCPIDLLPGTMPPRGRTYPLSPAETAAMKEYISENLQRG
FT                 FIRPSTSPAGAGFFFVEKKDGGLRPCIDYRGLNKITVKNRYPLPLISELFD
FT                 QLKGAKIFSKLDLRGAYNLIRIREGDEWKTAFNTRDGHYEYLVMPFGLCNA
FT                 PAVFQEFVNDIFRDLLGKSVVVYLDDILIFSQDLETHRSQVKEALSRLREN
FT                 FLFAKLEKCTFEVPKISFLGYIISSRGFEMDPAKVSAIQKWPLPQSTKAIQ
FT                 RFIGFANYYRQFIKDFSSRIAPILSLIRKGGRPNCWPPVALEAFQSLKDAF
FT                 ISASVLRHPEPHLPFFIEVDASDVGAGAILSQRHSADGKLHPCAYFSKKFS
FT                 SAEQNYDIGNRELLAVKLALEEWRHLLEGASHPVTIYTDHKNLEFLQSLKR
FT                 QNPRQARWSLFFSRFNFVLTYRPGTKNRKADALSRSFSPEDRLPIEQEPII
FT                 PPFRIIASVLPQFAEQILLSQSAAPSDTPIGMAFVPPELRLPILQQTHSSK
FT                 QAGHPGSEKTLELLRRLVWWPTIRKDVRDFVAACTVCATTKASHSRPCGLL
FT                 HPLPIPSRPWTHLGMDFIVELPPSCGNTVIWVVIDRFSKMAHFIPLRKLPS
FT                 AVELAHLFIQHIFRLHGFPVEIVSDRGSQFVSRFWRSLCKSLGVSLQFSSA
FT                 YHPQTNGAAERVNQALEQFLRNHVSLCQDDWSDLLPWAEFAHNNASHSSTG
FT                 RSPFLSVYGQHPLAFPQDLLLSEVPAADDLAAHMSVIWAATKSNLEKSSLV
FT                 HKTFADRRRKPSPPYKVGEKVWLSSRNIRLKVPSPKLGPKFLGPFSISEVI
FT                 NPVAVRLQLPPEMRIPNVFHVSLLKPVVLNHFSSAQSPPSAVLVDGQQEYE
FT                 VEKILDSRLSRGSLQYLVQWKGFGPEECSWEKDSDVHAPRLVKAFHDQFPQ
FT                 KPRPSGPVAPRGGGGTVMNRRRSLPAPVRRRPSSRRGESKMAAPRAPRGRR
FT                 DAGAMTSRAMAPNSNLKGRQRPRFNARV"
XX
SQ   Sequence 4302 BP; 927 A; 1227 C; 972 G; 1176 T; 0 other;
     ttatactcgg gccatggatc ccgaggaagc ggtaccggac gtcggaagag cccttcgcgg        60
     gctggcgtcc cgtatggagg catatgaatc ccagcaagtc agaattgggc aagtacttga       120
     ttccattttg tcccgtttgc ccgctactcc cgctgtcgcg gaaattcctc ctgctgtggt       180
     ggttcctctg ccagcaatgt cgtcagctcg tgagccacga atacctcctc ctccgcgcta       240
     cagtggcaat ccgcaggcct gcaggggatt cgtgactcaa tgccagattc agtttgagtt       300
     ccaaccttcc caattctcct gtgagcgagc aaaggtgggc tacgttatgt ctcgtctgga       360
     gggcaaacca ctggaatggg caacttctct ctgggagagc cagtcacccc tgacatttga       420
     tgtgaaggaa tttctacaga tgttcagaac catctttgat gcccctggtc gggtcgctac       480
     tgcctcttca cgcctgctgc aaatccgaca gggcagtctc ggtgccagtg agtatgccat       540
     agactttaga accctcatgg cggaaacttc ctggaatgaa gaggcgtata aggcagtctt       600
     ctaccaaggc ctatcgtccc gtctgaagga tgacctggta tccagagatc tacctgactc       660
     ccttgaagat ttgattgctc tcgctattaa ggtggacact cgccttaaag aacatcaggc       720
     tgataaagag cggagtaaaa agtctcatcc agtcctggct ccgcgcttcc agaaccctat       780
     gatacccccg ccttctccgc agtttaccac ttcctcttcg gaggaaccca tgcaacttgg       840
     gaaggctcga ctatccgcac aagagaagct tcggagacgc ctttccggcc tatgtctgta       900
     ctgcggcgga caatcccact tagcggtttc ctgccctgtc aagctgggga atactcctgc       960
     ttcaagtaag actgttgttt cttttgctgg tagtattgtt cctaagtcag tggaacaatc      1020
     tcaccaattt catgttcctg tgcagatccg gttgtcctcc caggcaattc cagtctcagc      1080
     cttccttgat tccggagcgg caggaaactt tatggacttg gcattcgcaa aaaaggttgg      1140
     catttccctc tttccagtga ctccttctat tcgggtcttc gccatcgatg acagacctct      1200
     ctccacggac accatcactt taaccaccgg tgaactatct gtccagattg gagcactaca      1260
     tctggaaaag atgtcattcc tgatcatccc atgtccttcg tctcctgttg tgctggggtt      1320
     gccatggcta cgactccata acccctccat tgactggtca tcgggtcaaa tctcccgttg      1380
     gagtcagtac tgccaaagac attgtttaat tcctcagcca ctccagcggg ttacagtctc      1440
     ctccacgagt ttttcagctc tcccctccgt ctacagggac ttctctgatg ttttttgtaa      1500
     aaagtcagca gagtttcttc ccccgcatcg gcggtatgac tgccctattg atctccttcc      1560
     tggaaccatg ccaccccgtg ggcggaccta tcctttatcc cctgcagaga cggctgccat      1620
     gaaggagtat atctctgaga atctccagcg tggatttatc cgtccttcta cctccccagc      1680
     aggagctggc ttcttttttg ttgaaaagaa ggacggtgga ctccgcccct gtattgacta      1740
     ccggggtctc aataaaataa ctgttaagaa cagatatcca ttacccctta tttctgaact      1800
     ttttgaccaa cttaaagggg ccaagatttt ctctaagttg gatctccgcg gggcctataa      1860
     tctcatcagg atccgagagg gcgatgagtg gaagacggct ttcaataccc gtgatgggca      1920
     ttacgagtac ctcgtgatgc ccttcggcct ctgcaacgct ccagccgtct tccaagagtt      1980
     cgttaacgat atttttcggg acctcctggg gaagtctgtt gtcgtgtacc tggatgacat      2040
     cctcatcttc tctcaagatt tggagaccca tcgctcccaa gtcaaagaag ccctttctcg      2100
     ccttagagaa aatttccttt tcgccaagtt ggagaaatgc actttcgaag taccaaagat      2160
     ctccttcctg ggctacatta tctcgtctag gggcttcgaa atggatcctg ccaaagtatc      2220
     tgctatccag aagtggccac ttccccagag taccaaagca atccagaggt ttataggatt      2280
     tgcgaactat tatcgccaat tcattaaaga cttttcttcc cgcattgctc ctatcctttc      2340
     cctcatccgc aaaggaggga gacccaattg ttggcctcct gtggcccttg aagccttcca      2400
     gtccctgaag gatgccttca tttcggcctc tgttcttcga caccctgagc ctcatttacc      2460
     cttctttatt gaagtcgacg cctctgatgt aggagcaggt gctatccttt cccagagaca      2520
     ttctgctgat ggtaagctcc atccatgtgc atacttctcc aagaagtttt cctccgccga      2580
     gcagaattac gacattggga atcgtgaact cctggctgtc aaactcgccc tcgaggaatg      2640
     gcgacacctc ttagagggag catctcatcc agtcacgatc tatactgatc ataagaacct      2700
     agaatttctt cagtctctca aaagacagaa tccccgtcag gcgaggtggt cgctgttctt      2760
     ctcccgtttc aattttgtcc tgacgtatcg tcctgggact aaaaatcgga aggcagacgc      2820
     tctgtctcga agtttctccc ccgaagatcg tctacctata gagcaagagc ctatcattcc      2880
     tcctttcagg atcattgcct ctgtattgcc ccaatttgct gaacaaattt tgctaagcca      2940
     gtctgccgct ccttccgata ctcctatagg aatggcattt gtacctcccg agttacgcct      3000
     tcctattctc cagcagactc atagctccaa acaagctggc catccgggtt ctgaaaaaac      3060
     tcttgagctt cttcgacgcc tagtttggtg gccgaccatc cgcaaggatg tccgagactt      3120
     tgtcgcagct tgtacagtat gtgccaccac taaagccagc cactctcgac cctgcggtct      3180
     tctgcatcca ttgccaatac cctctcgccc atggacgcat ttgggtatgg acttcattgt      3240
     ggagctgccg ccctcctgtg gtaacactgt catttgggta gtgatagacc gcttcagcaa      3300
     gatggcacac ttcataccct tgaggaaact cccctcggct gtggaactgg ctcatctctt      3360
     catacagcat atctttcgtt tacatggttt ccctgtggaa attgtctccg atagagggtc      3420
     ccagtttgtt tccagatttt ggcgctcctt gtgcaagtct ctgggagtat ctcttcagtt      3480
     ctcctcggcc tatcatcctc agaccaatgg ggcagcagag cgtgtaaacc aagctcttga      3540
     acagtttctg cgaaaccatg tttccctttg ccaagacgac tggtcggatt tactcccgtg      3600
     ggcagagttc gctcacaaca atgccagtca ctcctccact ggaagatctc ctttcttgtc      3660
     ggtgtatggt caacatcctt tggccttccc tcaagatttg cttctctccg aagttcccgc      3720
     tgcagatgac ctggcggctc acatgtctgt tatctgggct gccaccaagt ctaatttgga      3780
     aaagagttcc ttggtacaca agaccttcgc tgatcgtcgg agaaagcctt cccctccata      3840
     caaggttggt gaaaaagtct ggctttcttc caggaatatc cgcttgaagg taccatctcc      3900
     gaaactgggt cccaagttcc tgggtccctt ctccatctct gaggtgatca atcccgtagc      3960
     agtccggcta caacttcccc cagagatgcg gattcctaac gtgttccacg tctccctgtt      4020
     gaaaccagtg gtgctcaatc acttctcctc tgctcagtcc cctccttctg ccgtcctcgt      4080
     ggatggtcag caagagtacg aagttgagaa gattctagat tctaggctct ccagggggtc      4140
     actccaatac ctcgtccaat ggaagggatt cggccctgag gaatgctcct gggagaaaga      4200
     ctctgatgta catgctcctc gtcttgtgaa ggcattccat gatcaatttc ctcagaagcc      4260
     tcggcctagt ggtccagtgg ccccccgtgg gggggggggt ac                         4302
//
ID   TOL-TYR     repbase; DNA   ; VRT   ; 1855 BP.
XX
AC   D42062;
XX
DT   01-FEB-2005 (Rel. 1, Created)
DT   01-FEB-2005 (Rel. 1, Last updated, Version 1)
XX
DE   DNA transposon Tol-tyr.
XX
KW   DNA transposon Tol-tyr; TOL-TYR.
XX
OS   Oryzias latipes
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Actinopterygii; Neopterygii; Teleostei; Euteleostei; Neoteleostei;
OC   Acanthomorpha; Acanthopterygii; Percomorpha; Atherinomorpha;
OC   Beloniformes; Adrianichthyidae; Oryziinae; Oryzias.
XX
RN   [1]
RP   1-1855
RA   Hori H.;
RT   "TOL-TYR.";
RL   Unpublished (1996).
XX
RN   [2]
RP   1-1855
RA   Hori H.;
RT   "Direct Submission.";
RL   Direct Submission to EMBL/GenBank/DDBJ (08-NOV-1994). Hiroshi
RL   Hori, Nagoya University, Division of Biological Science;
RL   Furo-cho, Chikusa-ku, Nagoya, Aichi 464-01, Japan
RL   (E-mail:hori@bio.nagoya-u.ac.jp, Tel:052-789-2504,
RL   Fax:052-789-2974).
XX
DR   GenBank; D42062; Positions       1    1855.
XX
SQ   Sequence 1855 BP; 534 A; 315 C; 432 G; 574 T; 0 other;
     cagtagcggt tctaggcacg ggccgtccgg gcggtggcct ggggcggaaa actgaagggg        60
     ggcggcaccg gcggctcagc cctttgtaat atattaatat gcaccactat tggtttactt       120
     atgtcacagt ttgtaagttt gtaacagcct gaacctggcc gcgccgccgc cctcgccccg       180
     cagctgcgct ctcctgtctt tgagaagtag acacaaatgt gtgtgaagaa ggagaaggga       240
     gggggcgcgg ggtgagcacg gagcgtcgcc gcgtttgcgc atgcgcaaaa cctggctggc       300
     tcatctttca ggggaggcga cggtcgcggg cttgatgaaa aaaataaaag taaaaactgc       360
     gactgcgccg tcatgtagcg aatcagcgcc cctggctgta gctgcacgcg ctcctgctgg       420
     aaatgtgtga agaggggggg gggggggggg gctgcgggga atcagttcaa ttgtgggacg       480
     cttccaaatt aagtggctag gtggggacaa gggcgggggt ttgaatctac ttcataaaac       540
     ctttttatat tataagtcag tcataaggtg acattctata acctacattt taataaaggt       600
     ataaaaaata tattctgctt tttttgggtt aattttgtgt gaaatgtcca aataaaaaaa       660
     atggcaacac aaaacaatgc tgtcactaag gtgacagttg gttcagtcga cggacttgat       720
     gccttcttcg tgacgtgagg acatttatgc caaacaaacg ccaataaaca tctaaaatat       780
     ggaaaagaaa aggtcaaagc catctggtgc ccaatttaga aagaaaagaa aagaagaaga       840
     ggagaaaaga gataaagaaa agggtaagtc ctcacagctt gatgcatgtt ttttctaaat       900
     tctaatgcta cctgccctac aacaacgttg ccgatgaaaa ctttattttg gtcgatgacc       960
     aacactgaat taggcccaaa tgttgcaaat agcgtcattt tttttttttt ttttagattt      1020
     tattcttaaa aatttgctct gccttaactt gtaacattag ttatgattca tgtgtctgtc      1080
     tgctctgctg taacacaaag gttttgttgg gttttgctgt tgtatactag ctcataatgt      1140
     taaaaaagct gtgatggtta cacagcatgc tggtgctgcc ataagatgct aatggggcaa      1200
     ataatttgag attggtcatt aatttaataa tcatttgtgg cagcctaaac gttttcacaa      1260
     tgtttttttg acatttaact ggggatttag gggttaattt tgagcctgca tatgaagttt      1320
     attttttatt tgttttacaa atgtgggatt atatttttag ccaatagaat ttccataaat      1380
     ctgtaggtag ttttaaaaat gaatatttac catttactgc aactctatgg ggacaaaaca      1440
     taatgtaaca ggtcataact aaaaatgtgc caatcaaagg attgaagacg gaaaacatga      1500
     gttaattttt cttctctgaa gtagagatcg atatagaaca tgacaattta aatttccaat      1560
     tcataaatgt ttttaaaata tttattttat attatttatt taacattgag tttgattcaa      1620
     tattttctta gctaactgta tttttgccat gcttatggtc ttttattttt tgtgttctga      1680
     taacttttat aatgcttttc agaattttga catcttttgt atccacttct taatttcaat      1740
     gacaataaaa catttcagtt gacgaagaca aacaaagttc tgttgtgact atgggggggg      1800
     ggggcgcctg gggatggtct cgcccgggga gtaattcagg gtagaaccgc cactg           1855
//
ID   Kronos_I    repbase; DNA   ; VRT   ; 5405 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   01-JUL-2005 (Rel. 9.08, Last updated, Version 2)
XX
DE   Gallus gallus Kronos LTR retrotransposon, internal sequence.
XX
KW   Gypsy; LTR Retrotransposon; Interspersed Repeat; GGERVL-B;
KW   GGLTR3F1; GGLTR3F2; Kronos_I; Gypsy-like.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-5405
RA   Smit A.F.;
RT   "GGERVL-B LTR retrotransposon internal sequence.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
RN   [2]
RP   1-5405
RA   Wicker T., Robertson J.S., Schulze S.R., Feltus F.A., Magrini V.,
RA   Morrison J.A., Mardis E.R., Wilson R.K., Peterson D.G.,
RA   Paterson A.H., Ivarie R.;
RT   "The repetitive landscape of the chicken genome.";
RL   Genome Res 15(1), 126-136 (2005).
XX
CC   [1] (Consensus)
XX
SQ   Sequence 5405 BP; 1538 A; 1144 C; 1449 G; 1256 T; 18 other;
     gtttttggtg gagaatgcgg gcaatctgaa gcttttaacg ttagcagaga aaaaaaagga        60
     tttctttaag ccggagactg cgagactgca aggcattgct agtgtgacct tcatagatta       120
     gattatagtc tgggcagtct gccaaactcc ggacactgta ccgagtgggt ttttttgttt       180
     tgtttttgtt tttcccccct tttagcagct accagctatg agtctgctct ttattgtagg       240
     agcgctgtat aagggattaa aagccatcat gttctttgga anttactggc ctataattaa       300
     catcatgatt tcttgctgtg gaattgtgtt catatataac caaataaggg cactgatgga       360
     gacacctgcc tggtaccttt atgcaatgtg gtatgatttg aattttgaca ctacatccca       420
     gatggaatag ctaattttac aaacaacacg atgtttcaaa ccggtttcca ggctttcttc       480
     tcagtttgtc acacgttttt cgaatgccga gctagtgctc atactcgtgt gcatgttatc       540
     aatctccctg aatgtattcc tctccattcg tgctangtgg aagaagtctc ctccaaaacc       600
     agagaatgct gactggcagg gaatatggag aggtttagga aaaatcttag aagcgtgggg       660
     acccgcaatg tcatgggatt tcactcttga acacctgtgg gatcccgaga aactaagcca       720
     gcatttgagt cagggatggt gcggcttaga tagatctaag gaggtacggc ttatctgggg       780
     cttggcttgt gcctaccgcg ctctatataa tactattctg gagagagaga gtttccgagc       840
     tgaggttcaa gccaaagggg gaaatctcca agtcaaatct gatcagtcac aggagacacc       900
     agtaacagtg tcagttgccc ctgtggaagg caagaaatgg aagcgggtgt cctcgcgtct       960
     agaacggaaa aaagaagaag aagaagcgga ggaggaggta gaggaagatc caggcgaggg      1020
     gncctcctca gaaccaagaa aggcaaaagc aaaaaccaag agacacggag aggagagtga      1080
     tgaagaggaa gtctctatta ctgttcgtcg acctctgaag atgactgaaa tccaaggctc      1140
     aagaaaggag tttacacggc gcccgaacga aactcttgtc acctggttgc ttcgctgttg      1200
     ggacggcggg gccagtagct tgtctctaga tggtaacgaa gcccgccaac taggaggcat      1260
     tgccagagac nnatctattg acagagggat tagtagatgt ttggatggag ccgcnaccct      1320
     ctgggaacga atgttagtag ccgtgaggga aaggtatccc tncaaagaca gtctgaagcc      1380
     tgcgatgaaa aagtgggata caattgaaaa aggtatccag tatttgaggg aaatagccgt      1440
     ggtggaaatg ttgtatgacc ctaattttgt tcctaacgat ccacgccaag accatgatcc      1500
     ngagagagtg aggacaacgc ctgatatatg gcagaaactc acaagagcag caccaganag      1560
     atacgccccc acactagcag caacgttcga cagatacgag gaccaacaga gaagacccct      1620
     agttttcgaa ttgattctta cacttcaaaa ctatgaacaa catctacccc caactcacgc      1680
     ttccatttca gccgtctcag aantagcaaa cagactggat gaagtgcaag agcaggtgtc      1740
     tctattgatt aatcgtgacg aacccgtagt agtatcagaa acgtttgatg aagatcagga      1800
     taagcaaagg ggcctaatga aggaactgat caaactaatg aaaatccaat taattaaagg      1860
     ngatggaccc ccctcctcac ctgtatcatc aaaaatctca gctattgaag gcaaacgctt      1920
     tcctgctcaa gcgagnaaca atagtaagac tacatcgcgt attgccttgt ggcgttacct      1980
     ccgtgaccat ggagaagaca tgaggaagtg gcatgaccaa gctactcctg tactgcgagc      2040
     acgggtgaga gaattacaga acagatcaac caccagtgta gttgctccag ttaccacagg      2100
     taatgaatag aggggccctg ccctcagtca ggggggggag agggataaca gagtttattg      2160
     gactgtgtgg atccgatggc ctggcacatc agaaccacag aaatataagg cactggtgga      2220
     taccggtgca cagtgcactc taatgccctc gagtcatgaa gggacagaat caatccatat      2280
     ttctggagtg actgggggct ctcaagaatt gactgtgttg gaggccgaaa taagcctcac      2340
     tggtaaagac tggcaaaaac accctattgt gactggccca ggggctccat gcatacttgg      2400
     tatcgattac ctcagaaggg ggcatttcaa ggatcctaag gggtatcgat gggcctttgg      2460
     aatagctgct gtagatacag acaacattaa gcagctgtct gttttgcctg gcctgtcaga      2520
     agatccgtct gctgtggggt tgctacgagt aaaagagcag caggtaccga ttgccacaaa      2580
     aacagtgcac agacggcagt accgcaccaa cagggattcc ttgctcccca ttcataagtt      2640
     gattcgtcaa ctagagagtc agggagtgat cagcagaact cactcacctt ttaacagccc      2700
     catatggcca gtgcgtaaag ccagtggaga atggaggctg acggtagact accgtggcct      2760
     gaatgaagtc acacccccgc tgagtgctgc tgtgccggac atgctagaac tccaatatga      2820
     actggagtca aaagcagcca agtggtatgc caccactgac attgctaatg ccttcttttc      2880
     cattcctctg gccacagaat gcaggccgca atttgccttc acctggaggg gcgttcagta      2940
     tacttggaac cgtttgcccc aggggtggaa acacagccca accatttgcc atgggttgat      3000
     ccaaactgta ttggaacagg gcagtgctcc tgagcacctg caatacattg atgatattgt      3060
     tgtgtggggc gatacagcag aggaagtttt tgagaaagga gagcaaataa tccaaattct      3120
     tctgcaagct ggttttgcta ttaagcgaag caaagtgaaa ggacctgccc aggagattca      3180
     gttcctaggt ataaagtggc aagatgggcg tcgtcacatc ccagcagatg tgatcgacaa      3240
     aatcactgcc atgtctccgc ccactaataa gaaagagaca caatcttttc tgggtgtagt      3300
     gggcttttgg agaatgcatg ttccaaacta cagcctcatt gtaagccccc tntatcaggt      3360
     gacgcggaag aagaatgatt ttacgtgggg tcctgaacag cagcaggctt ttgagcagat      3420
     taaacaggag atagcccgtg ccgtggccct ggggccagta cggacgggac aggatgtaaa      3480
     gaacatcctc tacactgctg ctggagagaa aggtcccacc tggagtttgt ggcaaagagc      3540
     ctcaggagag acccgaggcc gacccctggg attctggagt cgagcataca gggggtctga      3600
     agagtgctac actccaactg agaaggagat cttagccgcg tatgaggggg ttcgggctgc      3660
     ttccgaagta gtcggtactg aaacgcagct cctcctggca cctcgactgc cagtgctgaa      3720
     ctggatgttc aaaggaaagg ttccctccac ccatcatgct actgatgcca cttggagcaa      3780
     gtggattgca ctgattacgc aacgagctcg gatggggaac ctcagtcgtc caggaatctt      3840
     agaggtgatc atggactggc ctgaaggtaa aaagtttgga acatcaccag gagaagaggt      3900
     atcacgtgct aaagaggccc caccatacaa tgaactacca gaaaatgaaa agaaatatgc      3960
     cctgttcacn gatggatcgt gtcgtattgt ggggaagcat cgcagatgga aagctgctgt      4020
     gtggagcccc acacgacaag ttgcagaggc cactgaagga aaaggagaat caagccaatt      4080
     tgcagaggta aaggctgtcc agctggcctt agatgttgct gaacgggaga ggtggccaat      4140
     gctttatctt tatactgact catggatggt ggcgaatgcc ttatgggggt ggttacagca      4200
     gtgggagcaa aacaactggc aacggagggg taaacctatt tgggctgctg aactgtggaa      4260
     agacattgct gcccgaataa agaatatggt tgtaaaggtg cgccacgtag atgctcatgt      4320
     gcccaagagt cgggctactg aagaacagca aaataaccat caggtagatc gagctgccag      4380
     aattgaggtg gctcaaatag acttggactg gcagaacaag ggtgaattat ttctagctcg      4440
     gtgggcccat gagacctcgg gccatcaagg aagagatgca acatataagt gggctagaga      4500
     ccgaggggtg gacttaacta tggatgctat tgcacaggtt attcatgact gtgaaacacg      4560
     cgccataatt aaacaagcca agaggatgaa acctctctgg gaggaagggc gatggcaaaa      4620
     gtataaatat ggggaggcgt ggcaggttga ctatatcacc ttgccacgan ctcgcaatgg      4680
     taagcgttat gtgcttacca tggtggaggc gaccactggg tggcttgaaa catatgcagt      4740
     accccatgct accgcccgaa acaccatatt aggtctggag aaacaagtcc tgtggcgaca      4800
     tggcacccca gaaagaattg agtcagataa tgggactcat ttcaaaaatt ctcttgtaaa      4860
     tacttgggcc aaagancatg gcattgagtg gatttatcat atcccctatc atgcaccagc      4920
     ctctggtaag atcgaacgat acaatgggtt gttaaaaact atgctgaaag caatgggtgg      4980
     tggaacattt aagcactggg agaagcattt ggcagaagcc acctggttgg tcaacactag      5040
     aggatcnatc aatcgcgatg gtcctaccca atccagctcc ctacatactg tagagggaga      5100
     taaggtccct gtagtacacg taaagagcat gttgggaaaa gcggtttggg tccttccagc      5160
     ttntggaaag ggcaaacctc tccgtggaac tgtttttgcc cagggacctg ggtccacttg      5220
     gtgggtgatg cagaaaaatg gggatgttca gtgtgtacca caagggaatt tgatgctggg      5280
     ggagtgcagt cagtaattcc atgtatatat atgtgtatat gtgtgcgtgt gtaatgcatg      5340
     ttaattattg tttgtttgta tatatatatt aagcatgatg tagtgatgtg gaataagggg      5400
     tggaa                                                                  5405
//
ID   LFFP2       repbase; DNA   ; VRT   ; 298 BP.
XX
AC   X56096;
XX
DT   22-DEC-1995 (Rel. 2, Created)
DT   22-DEC-1995 (Rel. 2, Last updated, Version 1)
XX
DE   Lesser black-backed gull (L. fuscus) female specific DNA repeat
DE   P2000-17.
XX
KW   Female-specific repeat sequence; LFFP2.
XX
OS   Larus fuscus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Charadriiformes; Laridae; Larus.
XX
RN   [1]
RP   1-298
RA   Griffiths R., Holland W.P.;
RT   "A novel avian W chromosome DNA repeat sequence in the lesser
RT   black-backed gull (Larus fuscus).";
RL   Chromosoma 99, 243-250 (1990).
XX
DR   GenBank; X56096; Positions       1     298.
XX
CC   This is a protein.
XX
SQ   Sequence 298 BP; 84 A; 90 C; 61 G; 63 T; 0 other;
     gatcaaagca tagataaagt cgaacctgac tcaactccac agactagtct ggttccactg        60
     ccactatctg aaacccccga caatgacacc ttattgagcg gacttaagaa tctgcccctt       120
     gatgatgagc tttgggataa tgcactgtca cgatacactg caagcactga gacattagaa       180
     aacatgaggg atttaaatac acctgccctc ctctccccag cgccagtgtg tgcagtatgc       240
     gctgaaggct cgcccgctgc ggcgctacat ccccaagaac ccctaccagt accagatc         298
//
ID   Gypsy2-I_ST repbase; DNA   ; VRT   ; 4321 BP.
XX
AC   AC146867;
XX
DT   05-FEB-2004 (Rel. 9.01, Created)
DT   05-FEB-2004 (Rel. 9.01, Last updated, Version 1)
XX
DE   Internal portion of Gypsy2_ST retrotransposon.
XX
KW   5-bp TSD; Gypsy retrotransposon; Gypsy2-I_ST; Gypsy2-LTR_ST; LTR;
KW   RNase H; Tf1 group; chromodomain; gag; protease;
KW   reverse transcripatase.
XX
OS   Xenopus tropicalis
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Amphibia; Batrachia; Anura; Mesobatrachia; Pipoidea; Pipidae;
OC   Xenopodinae; Xenopus; Silurana.
XX
RN   [1]
RP   1-4321
RA   Kapitonov V.V., Jurka J.;
RT   "Gypsy2_ST, a self-primed Gypsy LTR retrotransposon from the frog
RT   Silurana tropicalis.";
RL   Repbase Reports 4(1), 27-27 (2004).
XX
DR   Genbank; AC146867; Positions   90354   86034.
XX
CC   Gypsy2-I_ST is an internal portion of a young Gypsy2_ST LTR
CC   retrotransposon. The internal sequence is flanked by identical
CC   Gypsy2-LTR_SR long terminal repeats.
CC   Gypsy2_ST belongs to the Tf1 group of self-primed Gypsy LTR
CC   retrotransposons. Its reverse transcription is primed by a
CC   heteroduplex
CC   formed between a 10-bp portion of PBS (Gypsy2-I_ST, pos. 3-12)
CC   and
CC   the 10-bp 5' end of the Gypsy2_ST mRNA (Gypsy2-LTR_ST, pos.
CC   193-202).
CC   Gypsy2_ST encodes a 1499-aa Gypsy2_STp polyprotein (Gypsy2-I_ST,
CC   pos.
CC   23-4321, and Gypsy2-LTR_ST, pos. 1-198) composed of gag (pos.
CC   100-200),
CC   protease (pos. 350-450), reverse transcriptase (pos. 560-730),
CC   RNase H (pos. 820-950), integrase (pos. 1060-1220) and
CC   chromodomain
CC   (pos. 1360-1410).
CC   Gypsy2_ST and Gypsy1_ST are highly diverged from each other,
CC   there
CC   is only 46% identity between the Gypsy2_ST and Gypsy1_ST pol
CC   proteins.
CC   Surprisingly, in both retrotransposons, the ~63-aa C terminal
CC   portions
CC   of the pol proteins are encoded by the 3' proviral LTRs, and the
CC   stop
CC   codons are in the regions complementary to the PBSs.
XX
FH   Key           Location/Qualifiers
FT   CDS           0..0
FT                 /product="Gypsy2_STp"
FT                 /translation="MDPAEESAASPFDQISQQLASLTQAVRDLQGSYQHLQ
FT                 TQVQGLSDPSNPVPPAAPAMSASPSAEYTGRPFEPKVPLPDKFSGDRRQFR
FT                 TFINSCRLLFSLQPYTFSSEQTKVGVMISLLSGEPQTWAHRLLERRSSILI
FT                 DANTFIHAMAQLYDDPHREVTAEAALRSLTQGKRPVEEYVSDFRRYAADTE
FT                 WNTQALKHQFRIGLSETLKDELAHVGVPQGLEELIDLSVQIDRRLRERRAE
FT                 RLQPSSMSWLSPRTSGNLQAAAHAGDTSEPMQIGLVRSALSSEERTRRRQL
FT                 NLCLYCGQPGHFLKDCPTRPKGKTRCPAMSPCVTFREPTSLSFPVVLQWPQ
FT                 DCLKSTVVIDSGACGCFMDLDFIKEHAVPTRPKMQPLSLRTADGSPITSGP
FT                 VTLETLPLEVFLDSKHIETISFDVVASPLFPILLGFPWLRLHNPSINWNTG
FT                 DIHFDSKTCSSHLLEKSHSMAVAPATDTQFAVVPNYLHEFKDVFDEKGADT
FT                 LPPHRVYDCPIDLLPGAAIPFGRIYPLSEPELIVLKKYIDENLEKGFICPS
FT                 TSPAGAGIFFVEKKDHSLRPCIDYRQLNLITVKNRYPLPLIPELFQNLREA
FT                 KIFSKLDLRGAYNLVRIRKGDEWKTAFRSRYGHFEYLVMPFGLCNAPATFQ
FT                 HLVNDIFRDFLDQFVIVYLDDILVFSSSIKEHEIHMRKVFSRLREHSLFAK
FT                 LEKCEFHKTSIEFLGFVISTDGILMDPKKVSAVLNWPVPTSRKATQRFIGF
FT                 SNFYRRFIRNFSKIISPITDLTSTTKRFQWSSQAQSAFDKLKELFTSAPIL
FT                 KHPDPSLPFVVEVDASETAVGAVLSQRSGLQNFLHPVAFFSKKLSPSEKNY
FT                 DVSDRELLAIKVAFEEWRQYLEGSSHPILIFSDHRNLEYLRTAKRLRPRQA
FT                 RWALFFSRFNFHITYRPGSQNHKADALSRMFHDENVETQSDTILRPQNFLL
FT                 LQTDLVAKMLEQSSSVVPSDQLRNKDGLLFFKDRIFVPEALRLDVLRLIHD
FT                 HPLAGHMGGRKTVDLAKRSFYWPGMIRDCNQYVLSCEVCARFKESRTKHLG
FT                 LLHPLPIPDRLWGSVSLDFIVELPHSHGFNTIFVVVDRLSKMAHFIPLTSI
FT                 PSAVTTAEVFIREVVRLHGVPDEIISDRGVQFTSRFWRTLCNALKIKLALS
FT                 TAFHPESNGQTERTNQTLEQYLRCFSSFLQDNWYELLPLAEFAYNNSVHSS
FT                 IKQTPFYANFGFHPQVLPNFPKEVSVPAVQDRLSFISNNVQLIQSAMKQAQ
FT                 RNFKFFADRKRRSDPEFKLGDSVWLSTRHIKLPCPTKKLGQKFVGPFPITK
FT                 QVNEVAFKLKLPSSYKIHPVFHAALLKPVVKNRFVRRSAKPPDPVPIEGVE
FT                 EFEVQSILDSRIRRGRLQYLIQWKGYSPEENSWESASDVHAPLLVRSFHKK
FT                 HPEKPASTCARRSHLGGGQCQAIRTARAKPPVQRMRDYSRAPVRICARALT
FT                 RSRRRAHASAHFRAKTGACASRLKRRRGLQSSAR"
XX
SQ   Sequence 4321 BP; 1099 A; 950 C; 890 G; 1382 T; 0 other;
     gtatcacctc gccaaggtaa agatggatcc ggctgaggaa tctgctgctt ccccttttga        60
     tcaaatatcc cagcaattgg catcactaac tcaggctgtg agagacttgc aaggtagtta       120
     tcagcactta caaacccagg ttcaagggct gagtgatcca tctaaccctg ttccacctgc       180
     tgcacctgct atgtctgcct ctccttctgc tgaatacaca ggacgtcctt tcgaacccaa       240
     ggttccgctt cctgataaat tttctggtga cagacgtcag tttcgcactt tcattaatag       300
     ctgcagacta ttattttctc ttcagcccta taccttttct tcagaacaaa ctaaggtggg       360
     agtgatgatt tccttgttat cgggggaacc acagacgtgg gctcatcggt tgttggagcg       420
     tcgcagttct attcttattg atgctaatac cttcattcat gctatggctc agctgtatga       480
     tgacccccat agagaagtca ctgctgaagc ggctctacgc tctttgacac agggtaaaag       540
     gcctgtagaa gaatatgtgt cggatttccg ccgctatgct gctgataccg aatggaatac       600
     gcaggcttta aaacatcagt ttcgcattgg gctgtcagag actctgaaag atgaattggc       660
     ccatgtggga gttcctcagg gtcttgagga acttattgac ctttctgtcc agattgaccg       720
     ccgcttgagg gaaagacgtg cagaaagact tcagccttct tcaatgtcct ggttatcccc       780
     aagaacctct gggaatcttc aagctgctgc ccatgcgggt gatacttctg aacccatgca       840
     aattggtcta gtgaggtctg ctttatcgtc tgaggaacgt acccgtagac gccagttaaa       900
     cttatgtcta tattgtggtc aacctggtca cttcctgaag gattgcccaa ctcgtcctaa       960
     gggtaagact agatgtcctg ccatgtctcc ctgtgtgact tttagagaac caacatctct      1020
     ttcattccct gttgttttac agtggcctca ggactgtctc aaaagcacag tggtcattga      1080
     ttcgggagcc tgtggttgct ttatggatct cgacttcatt aaagaacacg cggtgcccac      1140
     ccgacctaag atgcaaccac tatcgttgag gacagctgac ggttcgccca tcacttctgg      1200
     tcccgttacc ctagagactt tacctttgga agtatttttg gactctaaac atattgaaac      1260
     catttcgttt gatgttgtcg cttctccttt attccctatt cttctggggt ttccttggct      1320
     aagactgcac aacccatcaa taaattggaa cactggggac attcattttg attctaagac      1380
     ttgttcttct catttgttag agaaatctca ttcgatggca gtggctcctg caactgacac      1440
     tcaatttgct gttgttccta actatctcca tgaattcaaa gatgtttttg atgagaaagg      1500
     cgctgacact cttcctcctc atcgggtgta cgattgtccg atcgatttat tgccgggggc      1560
     cgccattcct tttggtcgca tttatccgtt gtctgaacct gaattgattg tgttgaaaaa      1620
     gtatatcgat gaaaatcttg aaaaaggctt catttgtcca tccacgtctc cagctggggc      1680
     cggtatcttc tttgttgaga aaaaggatca ttcgctacga ccttgtatcg attacaggca      1740
     attaaatttg atcactgtga aaaatcgtta tcctcttccc ttaattccag aattgttcca      1800
     gaacctacga gaggctaaga ttttttctaa attggactta cgtggtgcat ataatttggt      1860
     aagaattcgt aagggggacg aatggaagac agctttcagg tcacgttacg gtcattttga      1920
     atatctcgtg atgccatttg gattatgtaa cgcacccgcc actttccaac acctcgttaa      1980
     tgacattttt agagacttcc ttgatcaatt cgttatagtc tatttggatg acattttggt      2040
     tttttcttcc tcaattaaag aacacgagat tcatatgaga aaagttttta gcaggttacg      2100
     ggaacattca ttgtttgcta aacttgaaaa atgtgagttc cacaagacct ctattgaatt      2160
     tcttggtttt gtcatctcaa ctgatgggat tctcatggac cctaagaagg tgtcagcagt      2220
     tctgaattgg ccagttccga ctagtcgtaa ggcgacacag agatttatcg gtttttctaa      2280
     tttttacagg aggtttattc gcaatttctc aaagattatt tctcccatca cggacttaac      2340
     cagtaccact aaacgttttc agtggtcttc tcaagctcag tctgcttttg acaaattaaa      2400
     ggaacttttt acgtcggctc ctatcctcaa gcatcctgat ccttcattac cgtttgttgt      2460
     tgaagtggat gcctcagaga ctgctgtggg agctgtcctt tcgcagaggt ccggtttgca      2520
     gaattttctt catcctgtgg cttttttttc aaaaaaactc tccccctccg aaaagaacta      2580
     tgacgtttct gacagagaac ttttggccat caaagtagct ttcgaagaat ggcgtcaata      2640
     tctagaaggt tcctcccatc ctattctcat cttttcagat cacagaaatc tggaatattt      2700
     acgtacagcc aaacgtttaa gaccaagaca ggctcgctgg gctttatttt tttccagatt      2760
     caattttcat ataacataca gacctggttc tcaaaatcat aaagctgacg ccctttctcg      2820
     tatgttccat gatgaaaatg ttgaaactca atctgatacc atccttagac ctcaaaattt      2880
     tttgttatta caaactgatc tagtggctaa gatgttggaa cagtcctctt ctgtagttcc      2940
     ttctgatcaa cttcggaata aagatggtct tctatttttt aaggatagaa tttttgtacc      3000
     agaagctttg cgattggatg ttcttcgatt aattcatgat catccattag caggtcacat      3060
     ggggggacgc aagactgttg atttagctaa aagatctttt tattggccag gaatgatcag      3120
     agactgtaat caatatgttt tgtcttgtga agtttgtgcc cgttttaagg aatcacgcac      3180
     caaacattta ggtcttcttc atccattacc tataccggac agactttggg ggtcagtttc      3240
     cttggacttt attgttgaac tccctcattc tcatgggttc aatactattt ttgtggttgt      3300
     tgaccggtta tccaagatgg cacatttcat ccctctgacc agtattccgt ctgcagtaac      3360
     cactgctgaa gttttcatta gggaggtggt tcgtttacat ggggttccgg acgaaattat      3420
     atctgaccgt ggggtacaat tcacctccag gttttggaga accctttgta atgctttaaa      3480
     aataaaactt gctctctcta ctgctttcca tcctgaatcc aacggtcaaa cagagagaac      3540
     taaccaaact cttgagcagt atctgcgttg tttttcgtct tttttacaag acaattggta      3600
     tgaacttttg ccactagcgg agtttgcata taacaattct gtgcattctt ccattaaaca      3660
     aactcctttt tatgcaaatt ttgggtttca tccgcaagtt ctcccaaatt ttcctaagga      3720
     agtttcagtg ccagcggtcc aggatagact ttcttttatt tctaataatg tccaattaat      3780
     tcaatctgct atgaaacagg ctcaaaggaa ttttaaattt tttgcagatc gcaagcgaag      3840
     aagtgatcct gaatttaagt tgggagattc tgtgtggtta tccactcgtc atatcaaact      3900
     cccgtgccca actaagaaat taggtcagaa atttgttggc ccgtttccta tcacaaaaca      3960
     agtcaatgag gtagccttta aattgaaatt accgtcttct tacaagattc atcctgtgtt      4020
     tcatgctgcg ttactaaaac cagtggtcaa gaatcgcttt gtgaggagaa gtgccaagcc      4080
     tcccgatcct gttcctatcg aaggtgttga ggagtttgaa gttcagtcaa ttttggattc      4140
     aagaataaga agaggtcggt tgcaatatct gatccaatgg aaggggtatt ctccagagga      4200
     gaattcatgg gaatccgcat ctgatgttca tgctcccttg ctggtaagaa gttttcataa      4260
     gaaacatcct gaaaaaccag catctacttg cgcccggagg tcgcacctcg ggggggggca      4320
     a                                                                      4321
//
ID   Kronos_I    repbase; DNA   ; VRT   ; 5405 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Gallus gallus Kronos LTR retrotransposon, internal sequence.
XX
KW   Gypsy; LTR Retrotransposon; Interspersed Repeat; GGERVL-B;
KW   GGLTR3F1; GGLTR3F2; Kronos_I; Gypsy-like.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
RN   [2]
RP   1-5405
RA   Smit A.F.;
RT   "GGERVL-B LTR retrotransposon internal sequence.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
CC   [2] (Consensus)
XX
SQ   Sequence 5405 BP; 1538 A; 1144 C; 1449 G; 1256 T; 18 other;
     gtttttggtg gagaatgcgg gcaatctgaa gcttttaacg ttagcagaga aaaaaaagga        60
     tttctttaag ccggagactg cgagactgca aggcattgct agtgtgacct tcatagatta       120
     gattatagtc tgggcagtct gccaaactcc ggacactgta ccgagtgggt ttttttgttt       180
     tgtttttgtt tttcccccct tttagcagct accagctatg agtctgctct ttattgtagg       240
     agcgctgtat aagggattaa aagccatcat gttctttgga anttactggc ctataattaa       300
     catcatgatt tcttgctgtg gaattgtgtt catatataac caaataaggg cactgatgga       360
     gacacctgcc tggtaccttt atgcaatgtg gtatgatttg aattttgaca ctacatccca       420
     gatggaatag ctaattttac aaacaacacg atgtttcaaa ccggtttcca ggctttcttc       480
     tcagtttgtc acacgttttt cgaatgccga gctagtgctc atactcgtgt gcatgttatc       540
     aatctccctg aatgtattcc tctccattcg tgctangtgg aagaagtctc ctccaaaacc       600
     agagaatgct gactggcagg gaatatggag aggtttagga aaaatcttag aagcgtgggg       660
     acccgcaatg tcatgggatt tcactcttga acacctgtgg gatcccgaga aactaagcca       720
     gcatttgagt cagggatggt gcggcttaga tagatctaag gaggtacggc ttatctgggg       780
     cttggcttgt gcctaccgcg ctctatataa tactattctg gagagagaga gtttccgagc       840
     tgaggttcaa gccaaagggg gaaatctcca agtcaaatct gatcagtcac aggagacacc       900
     agtaacagtg tcagttgccc ctgtggaagg caagaaatgg aagcgggtgt cctcgcgtct       960
     agaacggaaa aaagaagaag aagaagcgga ggaggaggta gaggaagatc caggcgaggg      1020
     gncctcctca gaaccaagaa aggcaaaagc aaaaaccaag agacacggag aggagagtga      1080
     tgaagaggaa gtctctatta ctgttcgtcg acctctgaag atgactgaaa tccaaggctc      1140
     aagaaaggag tttacacggc gcccgaacga aactcttgtc acctggttgc ttcgctgttg      1200
     ggacggcggg gccagtagct tgtctctaga tggtaacgaa gcccgccaac taggaggcat      1260
     tgccagagac nnatctattg acagagggat tagtagatgt ttggatggag ccgcnaccct      1320
     ctgggaacga atgttagtag ccgtgaggga aaggtatccc tncaaagaca gtctgaagcc      1380
     tgcgatgaaa aagtgggata caattgaaaa aggtatccag tatttgaggg aaatagccgt      1440
     ggtggaaatg ttgtatgacc ctaattttgt tcctaacgat ccacgccaag accatgatcc      1500
     ngagagagtg aggacaacgc ctgatatatg gcagaaactc acaagagcag caccaganag      1560
     atacgccccc acactagcag caacgttcga cagatacgag gaccaacaga gaagacccct      1620
     agttttcgaa ttgattctta cacttcaaaa ctatgaacaa catctacccc caactcacgc      1680
     ttccatttca gccgtctcag aantagcaaa cagactggat gaagtgcaag agcaggtgtc      1740
     tctattgatt aatcgtgacg aacccgtagt agtatcagaa acgtttgatg aagatcagga      1800
     taagcaaagg ggcctaatga aggaactgat caaactaatg aaaatccaat taattaaagg      1860
     ngatggaccc ccctcctcac ctgtatcatc aaaaatctca gctattgaag gcaaacgctt      1920
     tcctgctcaa gcgagnaaca atagtaagac tacatcgcgt attgccttgt ggcgttacct      1980
     ccgtgaccat ggagaagaca tgaggaagtg gcatgaccaa gctactcctg tactgcgagc      2040
     acgggtgaga gaattacaga acagatcaac caccagtgta gttgctccag ttaccacagg      2100
     taatgaatag aggggccctg ccctcagtca ggggggggag agggataaca gagtttattg      2160
     gactgtgtgg atccgatggc ctggcacatc agaaccacag aaatataagg cactggtgga      2220
     taccggtgca cagtgcactc taatgccctc gagtcatgaa gggacagaat caatccatat      2280
     ttctggagtg actgggggct ctcaagaatt gactgtgttg gaggccgaaa taagcctcac      2340
     tggtaaagac tggcaaaaac accctattgt gactggccca ggggctccat gcatacttgg      2400
     tatcgattac ctcagaaggg ggcatttcaa ggatcctaag gggtatcgat gggcctttgg      2460
     aatagctgct gtagatacag acaacattaa gcagctgtct gttttgcctg gcctgtcaga      2520
     agatccgtct gctgtggggt tgctacgagt aaaagagcag caggtaccga ttgccacaaa      2580
     aacagtgcac agacggcagt accgcaccaa cagggattcc ttgctcccca ttcataagtt      2640
     gattcgtcaa ctagagagtc agggagtgat cagcagaact cactcacctt ttaacagccc      2700
     catatggcca gtgcgtaaag ccagtggaga atggaggctg acggtagact accgtggcct      2760
     gaatgaagtc acacccccgc tgagtgctgc tgtgccggac atgctagaac tccaatatga      2820
     actggagtca aaagcagcca agtggtatgc caccactgac attgctaatg ccttcttttc      2880
     cattcctctg gccacagaat gcaggccgca atttgccttc acctggaggg gcgttcagta      2940
     tacttggaac cgtttgcccc aggggtggaa acacagccca accatttgcc atgggttgat      3000
     ccaaactgta ttggaacagg gcagtgctcc tgagcacctg caatacattg atgatattgt      3060
     tgtgtggggc gatacagcag aggaagtttt tgagaaagga gagcaaataa tccaaattct      3120
     tctgcaagct ggttttgcta ttaagcgaag caaagtgaaa ggacctgccc aggagattca      3180
     gttcctaggt ataaagtggc aagatgggcg tcgtcacatc ccagcagatg tgatcgacaa      3240
     aatcactgcc atgtctccgc ccactaataa gaaagagaca caatcttttc tgggtgtagt      3300
     gggcttttgg agaatgcatg ttccaaacta cagcctcatt gtaagccccc tntatcaggt      3360
     gacgcggaag aagaatgatt ttacgtgggg tcctgaacag cagcaggctt ttgagcagat      3420
     taaacaggag atagcccgtg ccgtggccct ggggccagta cggacgggac aggatgtaaa      3480
     gaacatcctc tacactgctg ctggagagaa aggtcccacc tggagtttgt ggcaaagagc      3540
     ctcaggagag acccgaggcc gacccctggg attctggagt cgagcataca gggggtctga      3600
     agagtgctac actccaactg agaaggagat cttagccgcg tatgaggggg ttcgggctgc      3660
     ttccgaagta gtcggtactg aaacgcagct cctcctggca cctcgactgc cagtgctgaa      3720
     ctggatgttc aaaggaaagg ttccctccac ccatcatgct actgatgcca cttggagcaa      3780
     gtggattgca ctgattacgc aacgagctcg gatggggaac ctcagtcgtc caggaatctt      3840
     agaggtgatc atggactggc ctgaaggtaa aaagtttgga acatcaccag gagaagaggt      3900
     atcacgtgct aaagaggccc caccatacaa tgaactacca gaaaatgaaa agaaatatgc      3960
     cctgttcacn gatggatcgt gtcgtattgt ggggaagcat cgcagatgga aagctgctgt      4020
     gtggagcccc acacgacaag ttgcagaggc cactgaagga aaaggagaat caagccaatt      4080
     tgcagaggta aaggctgtcc agctggcctt agatgttgct gaacgggaga ggtggccaat      4140
     gctttatctt tatactgact catggatggt ggcgaatgcc ttatgggggt ggttacagca      4200
     gtgggagcaa aacaactggc aacggagggg taaacctatt tgggctgctg aactgtggaa      4260
     agacattgct gcccgaataa agaatatggt tgtaaaggtg cgccacgtag atgctcatgt      4320
     gcccaagagt cgggctactg aagaacagca aaataaccat caggtagatc gagctgccag      4380
     aattgaggtg gctcaaatag acttggactg gcagaacaag ggtgaattat ttctagctcg      4440
     gtgggcccat gagacctcgg gccatcaagg aagagatgca acatataagt gggctagaga      4500
     ccgaggggtg gacttaacta tggatgctat tgcacaggtt attcatgact gtgaaacacg      4560
     cgccataatt aaacaagcca agaggatgaa acctctctgg gaggaagggc gatggcaaaa      4620
     gtataaatat ggggaggcgt ggcaggttga ctatatcacc ttgccacgan ctcgcaatgg      4680
     taagcgttat gtgcttacca tggtggaggc gaccactggg tggcttgaaa catatgcagt      4740
     accccatgct accgcccgaa acaccatatt aggtctggag aaacaagtcc tgtggcgaca      4800
     tggcacccca gaaagaattg agtcagataa tgggactcat ttcaaaaatt ctcttgtaaa      4860
     tacttgggcc aaagancatg gcattgagtg gatttatcat atcccctatc atgcaccagc      4920
     ctctggtaag atcgaacgat acaatgggtt gttaaaaact atgctgaaag caatgggtgg      4980
     tggaacattt aagcactggg agaagcattt ggcagaagcc acctggttgg tcaacactag      5040
     aggatcnatc aatcgcgatg gtcctaccca atccagctcc ctacatactg tagagggaga      5100
     taaggtccct gtagtacacg taaagagcat gttgggaaaa gcggtttggg tccttccagc      5160
     ttntggaaag ggcaaacctc tccgtggaac tgtttttgcc cagggacctg ggtccacttg      5220
     gtgggtgatg cagaaaaatg gggatgttca gtgtgtacca caagggaatt tgatgctggg      5280
     ggagtgcagt cagtaattcc atgtatatat atgtgtatat gtgtgcgtgt gtaatgcatg      5340
     ttaattattg tttgtttgta tatatatatt aagcatgatg tagtgatgtg gaataagggg      5400
     tggaa                                                                  5405
//
ID   EFG_GG      repbase; DNA   ; VRT   ; 1245 BP.
XX
AC   X08030;
XX
DT   22-DEC-1995 (Rel. 2, Created)
DT   26-MAR-1997 (Rel. 3, Last updated, Version 2)
XX
DE   Chicken EGF-like repeat.
XX
KW   EGF-like repeat; GGEFG; EFG_GG.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-1245
RA   Chiquet-Ehrismann R.;
RT   "Direct Submission.";
RL   Direct Submission to Repbase Update
RL   (06-JUL-1988)Chiquet-Ehrismann R., Friedrich Miescher Institut,
RL   PO Box 2543, CH-4002 Basel, Switzerland..
XX
RN   [2]
RP   1-1245
RA   Pearson A.C., Pearson D., Shibahara S., Hofsteenge J.,
RA   Chiquet-Ehrismann R.;
RT   "Tenascin: cDNA cloning and induction by TGF-B.";
RL   EMBO J 7, 2977-2982 (1988).
XX
DR   GenBank; X08030; Positions     255    1499.
XX
CC   This is a protein.
XX
SQ   Sequence 1245 BP; 223 A; 334 C; 475 G; 213 T; 0 other;
     tgcgtgtgcg agccaggccg gaaaggcccc aactgctccg aaccggcctg cccacgcaac        60
     tgcctcaacc gcggcctctg cgtgcggggc aaatgcatct gcgaggaggg ctttaccggc       120
     gaggactgca gccaggctgc ctgcccgtct gactgcaacg accaaggcaa gtgtgtggat       180
     ggggtgtgcg tctgcttcga gggctacacg ggcccggact gcggcgagga gctctgcccc       240
     cacgggtgtg gcattcacgg gcgctgtgtg ggtggacgct gtgtgtgcca cgagggcttc       300
     actggcgagg actgcaatga gcccctgtgc cccaacaact gtcacaaccg cgggcgctgt       360
     gtggacaacg agtgcgtctg cgatgagggc tacacgggag aggactgcgg cgagctgatt       420
     tgccccaatg actgctttga ccgtgggcgc tgtatcaacg ggacctgctt ctgcgaggag       480
     ggctacactg gagaggactg cggcgagctg acctgcccca acaactgcaa cggcaacggg       540
     cgctgcgaga acgggctgtg tgtgtgccat gagggcttcg tgggggatga ctgcagccag       600
     aagaggtgcc cgaaggactg caataaccgc gggcactgcg tggatgggcg ctgtgtgtgc       660
     catgaggggt acctggggga ggactgtggg gagctgcggt gccccaacga ctgccacaac       720
     cgcgggcgct gcatcaatgg gcagtgtgtg tgtgatgagg gattcattgg ggaggactgt       780
     ggagagctgc ggtgccccaa cgactgccac aaccgcgggc gctgcgtcaa tgggcagtgc       840
     gagtgccacg agggattcat cggggaggac tgcggggagc tgcggtgtcc caacgactgc       900
     aacagccatg ggcgctgtgt caatgggcag tgcgtgtgtg atgaggggta cacaggggag       960
     gactgcgggg agttgcggtg ccccaacgac tgccacaacc gcgggcgctg cgtggaggga      1020
     cgctgtgtgt gtgacaacgg cttcatgggg gaggactgcg gggagctgtc ctgtcccaat      1080
     gactgccacc agcacgggcg ctgcgtcgat gggcgctgcg tgtgccacga gggcttcact      1140
     ggggaagact gccgggaacg gtcctgcccc aatgactgca acaacgtggg ccgctgtgtc      1200
     gagggacggt gtgtctgtga ggaaggttac atggggatcg actgt                      1245
//
ID   CR1POL      repbase; DNA   ; VRT   ; 2232 BP.
XX
AC   L22152;
XX
DT   10-APR-1997 (Rel. 3, Created)
DT   10-APR-1997 (Rel. 3, Last updated, Version 1)
XX
DE   Gallus gallus reverse transcriptase gene, 3' end.
XX
KW   LINE; POL-like gene; CR1; CR1POL.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-2232
RA   Burch B.J., Davis L.D., Haas B.N.;
RT   "Chicken repeat 1 elements contain a pol-like open reading frame
RT   and belong to the non-long terminal repeat class of
RT   retrotransposons.";
RL   Proc. Natl. Acad. Sci. U.S.A 90, 8199-8203 (1993).
XX
DR   GenBank; L22152; Positions       1    2232.
XX
CC   3' part of LINE element, pol-like region.
CC   Parts of CR1POL are also listed as CR1_GG and CAM1_GG.
CC   1326-1713 CR1POL is similar to 1-379 CAM1_GG (73%);
CC   1714-2230 CR1POL is similar to 1-501 CR1_GG (73%).
XX
SQ   Sequence 2232 BP; 575 A; 484 C; 710 G; 463 T; 0 other;
     tcgagggatg tgggcctggc aaatggtggg gtcaggaccc tgaactttgg aagagagaac        60
     tttaagctgt tcaatggatc gttagccatg atcccctgga atgctgtcat taaagataaa       120
     gatgttgagg agagctggct actcttcaag gatgccctcc tgaaagcaca agaggtctcc       180
     atccctctga ataggaaagt gggcagacga gataggaaac cagcatggct cggcaaggac       240
     ctgctgggca cactgagggt gaagaaaggt gcgtacaagc tctggaaaca agggcgtgtc       300
     acctgggaag agtacaggga tgctgtccgg acttgcagac gtaggatcag gaaagccaag       360
     gcgcaggtag aactgaactt agcgagggat gtgaaaaaca ataagaagac attctacagg       420
     tacattggcc agaaaagaca gaccaaaaca ggtgtacctt ctttagtaaa cttaaaagga       480
     gaactggctt caacggatga agagaaagcg gaggtactga atgagttctt tgcctcagtc       540
     ttcactggag gccaggattc cagtctttct cacgtccctg agccctgcac ccccaagcct       600
     ccaggtgggg accagggggg taaatccccc cccacactaa gggcagagca agtccgagac       660
     cgcctcatga gactggatga gtacaagtct tcagggccgg atggtgtgca tcccagggtt       720
     ctgaaggagc tggctgaggt ggttgctgag ccactctcca tcatatttga gaagtcatgg       780
     ctgtcaggcg aggtcccaga tgactggagg aagggttacg tcactcccat ttacaagaaa       840
     gggagcaagg aggacccagg gaactacagg ccggtgagtc tcacctctgt gcctgggaag       900
     atcatggaac agatcctcct ggatgacatg ctcgatcaca tgaggaatga gcgtgtgatc       960
     cgagacagcc agcacggctt caccagggga aggtcatgct taaccaatct tgtggccttc      1020
     tatgatggag tgacggcgtt ggtggatgag gggaaggcga ccgatgtcat ttacctggac      1080
     ttgaccaagg cctttgacat ggtcccccac cacatcctta tctccaaatt ggagggatgt      1140
     ggatttgatg ggtggaccac tcattggata agaaattggt tgaaaggccg cagacagagg      1200
     gtggtgacca atggctctat gtccaggtgg aggccggtaa tgagcggagt cccccagggg      1260
     tctgtcttgg gaccggtgct ctttaacatc tttatcaatg acattgacga tggaatcgag      1320
     tgcaccctca gcaaatttgc tgacgacacc aaactgagtg gtgcggttga cacggaggaa      1380
     ggaagggatg ccattcagag ggaccttgac agacttgaaa ggtgggcccg ggtgaaccta      1440
     atgaggttca acacggcaaa gtgcagggtt ttgcacttgg gctggaggaa ccccaggcat      1500
     ctatacagac tggaaggagc agtccttgag agcagctctg cagagaagga cctgggggtc      1560
     ctgatggatg acaaacttaa catgagccag cagtgtgctc ttgcagctca gaaagcaaat      1620
     ggtatcctgg gctccatcat gagaggggtg gccagcaggg acagggaggt gattgtccct      1680
     ctctactctg ctcttgtgag gccccatctg gagtactgtg tccaggtatg gaggccccag      1740
     tacaagaaag acagagagct gttggagagg gtccagagga gggccacaaa gatgatcagg      1800
     gggctggagc acctccccta cgaggacagg ctgagggagc tgggcttatt cagcctggag      1860
     aagagaaggc tgcgcggtga cctcattgca gcctttcagt acctgaaggg agcctataaa      1920
     caggaaggga gtaaactctt tgaaagggta gataacagca ggacaagggg gaacggtttt      1980
     aagttgaaag agggaagatt taggttggat gttaggggga agttctttac caggagagtg      2040
     gtgaggtgct ggaacaggct gcccagagag gttgtggatg ctctgtccct ggaggtgttc      2100
     aaggccaggt tggatggggc cctgggcaac ctggtctagt aaatggggat gttggtggcc      2160
     ctgcccagca ggggggttgg agattcgtga tcctcgaggt cccttccaac ccaggccatt      2220
     ctgtgattct gt                                                          2232
//
ID   Hitchcock_LTR repbase; DNA   ; VRT   ; 543 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Gallus gallus Hitchcock_LTR, putative LTR.
XX
KW   LTR Retrotransposon; Interspersed Repeat; GGLTR5B; Hitchcock_LTR;
KW   putative LTR; retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Smit A.F.;
RT   "GGLTR5B retrotransposon LTR.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
RN   [2]
RP   1-543
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
CC   [2] (Consensus)
XX
CC   No internal component of this putative retrotransposon has been
CC   identified. Wicker et. al. classify it as an LTR due to the
CC   conserved termini TG/CA, and absence of SINE characteristics.
XX
SQ   Sequence 543 BP; 133 A; 104 C; 134 G; 169 T; 3 other;
     tgtcttagtt tcagctggga tggaattgtt ttcttcagag tgtctggtat gatgctatgt        60
     tttggttcta ggagaaaaaa caatgttgat aacacaccya tgtttatagt tgctgctaag       120
     cagtgttgta cagagccaag gccattctca gcgaagggcc caaggagctg ggagggaaca       180
     gaattaggac agctgactta aactggccaa agggatattc cataccatat gacatcatgt       240
     ggaaggagtt ttgaaggggg tgggagttca tctcgctctc ttccgctgct tygggggcta       300
     gctgggcatc ggtcyggggg tggtgagcaa ttgcttgtgc atcacttgtt atatacattt       360
     atatatatat atagtcataa ctattatcct tttccttttc tctatcttag taaatagttt       420
     tatctcaacc catgagttct actttttttt tttaattctc tcccccatcc cactgggaag       480
     ggggggagtg agcgaacaac tgtgtggtgc tcagccacct gctgggttaa accacaacag       540
     aca                                                                     543
//
ID   REM1_XL     repbase; DNA   ; VRT   ; 125 BP.
XX
AC   X00678;
XX
DT   10-APR-1997 (Rel. 3, Created)
DT   10-APR-1997 (Rel. 3, Last updated, Version 1)
XX
DE   Xenopus laevis REM 1 sequence (repetitive Eco RI Monomers).
XX
KW   Repetitive sequence; Inverted repeat; XLECORI; REM1_XL.
XX
OS   Xenopus laevis
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Amphibia; Batrachia; Anura; Mesobatrachia; Pipoidea; Pipidae;
OC   Xenopodinae; Xenopus; Xenopus.
XX
RN   [1]
RP   1-125
RA   Hummel S., Meyerhof W., Korge E., Knoechel W.;
RT   "Characterization of highly and moderately repetitive 500 bp Eco
RT   RI fragments from Xenopus laevis DNA.";
RL   Nucleic Acids Res 12, 4921-4938 (1984).
XX
DR   GenBank; X00678; Positions       1     125.
XX
SQ   Sequence 125 BP; 38 A; 26 C; 20 G; 41 T; 0 other;
     gaattctgca ctgaaatcca tttctcaaaa gagcaaacag atttttttat attcaatttt        60
     gaaatctgac atggggctag acatattgtc aatttcccag ctgccccaag tcatgtaact       120
     tgtgc                                                                   125
//
ID   POR         repbase; DNA   ; VRT   ; 307 BP.
XX
AC   .
XX
DT   10-APR-1997 (Rel. 2.03, Created)
DT   10-APR-1997 (Rel. 2.03, Last updated, Version 1)
XX
DE   Interspersed repeat POR.
XX
KW   hAT; DNA transposon; Interspersed Repeat; Non-autonomous;
KW   HAT superfamily; nonautonomous DNA transposon; POR; TIR.
XX
OS   Xenopus laevis
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Amphibia; Batrachia; Anura; Mesobatrachia; Pipoidea; Pipidae;
OC   Xenopodinae; Xenopus; Xenopus.
XX
RN   [1]
RA   Deen M.P., Terwel D., Bussemakers J.M., Roubos W.E.,
RA   Martens J.G.;
RT   "Structural analysis of the entire proopiomelanocortin gene of
RT   Xenopus laevis.";
RL   Eur. J. Biochem 201, 129-137 (1991).
XX
RN   [2]
RP   1-307
RA   Kapitonov V.V., Jurka J.;
RT   "POR.";
RL   Direct Submission to Repbase Update (APR-1997).
XX
CC   [2] (Consensus)
XX
CC   POR is a putative nonautonomous DNA transposon flanked by 15 bp
CC   TIRs [1,2] and by a 8 bp target site duplication [2],
CC   characteristic of the HAT superfamily of DNA transposons.
XX
SQ   Sequence 307 BP; 78 A; 68 C; 79 G; 69 T; 13 other;
     cagggrtccc caaccttttk wacccrtgag cmacattcag atgtaaagag ttggggagca        60
     acacaagcat gaaaaaagtt cctggggntg ccaaataagk gctgtgattg gctatttggt       120
     agcccctatg tggactggca gcctacagga ggctctgttt ggcagtrcay ctggkttttt       180
     atgcaaccaa aacttgcctc caagcctgga attcaaaaat aagcacctgc tttgaggcca       240
     ctgggagcaa catccaaggg gttggwgagc aacatgttrc tcaygagcca ctggttgggg       300
     atcactg                                                                 307
//
ID   Gypsy1-I_GA repbase; DNA   ; VRT   ; 4383 BP.
XX
AC   AC146545;
XX
DT   05-FEB-2004 (Rel. 9.01, Created)
DT   05-FEB-2004 (Rel. 9.01, Last updated, Version 1)
XX
DE   Internal portion of Gypsy1_GA retrotransposon.
XX
KW   5-bp TSD; Gypsy retrotransposon; Gypsy1-I_GA; Gypsy1-LTR_GA; LTR;
KW   RNase H; Tf1 group; chromodomain; gag; protease;
KW   reverse transcripatase.
XX
OS   Gasterosteus aculeatus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Actinopterygii; Neopterygii; Teleostei; Euteleostei; Neoteleostei;
OC   Acanthomorpha; Acanthopterygii; Percomorpha; Gasterosteiformes;
OC   Gasterosteidae; Gasterosteus.
XX
RN   [1]
RP   1-4383
RA   Kapitonov V.V., Jurka J.;
RT   "Gypsy1_GA, a self-primed Gypsy LTR retrotransposon from the fish
RT   Gasterosteus aculeatus.";
RL   Repbase Reports 4(1), 23-23 (2004).
XX
DR   Genbank; AC146545; Positions   44416   48798.
XX
CC   Gypsy1-I_GA is an internal portion of a young Gypsy1_GA LTR
CC   retrotransposon. The internal sequence is flanked by identical
CC   Gypsy1-LTR_SR long terminal repeats.
CC   Gypsy1_GA belongs to the Tf1 group of self-primed Gypsy LTR
CC   retrotransposons. Its reverse transcription is primed by a
CC   heteroduplex
CC   formed between a 11-bp portion of PBS (Gypsy1-I_GA, pos. 3-12)
CC   and
CC   the 10-bp 5' end of the Gypsy1_GA mRNA (Gypsy1-LTR_GA, pos.
CC   214-223).
CC   Gypsy1_GA encodes a 1462-aa Gypsy1_GAp polyprotein (Gypsy1-I_GA,
CC   pos.
CC   20-4381 and Gypsy1-LTR_GA, pos. 1-22) composed of the gag
CC   (pos.125-220),
CC   protease (pos.340-450), reverse transcriptase (pos.580-750),
CC   RNase H (pos.820-950), integrase (pos.1089-1241) and chromo
CC   domains
CC   (pos.1380-1442).
CC   The Gypsy1_GAp is 46% identical to the the Gypsy1_STp encoded by
CC   the frog Tf1-like element Gypsy1_ST. At the same time, Gypsy1_STp
CC   is 46% identical to the polyprotein encoded by another frog
CC   element,
CC   Gypsy2_ST element. Also, these proteins are over 40% identical to
CC   to proteins encoded by Tf1-like elements in fungi. Most likely,
CC   the fish and frog retrotransposons were transferred
CC   horizontally into the vertebrate genomes.
XX
FH   Key           Location/Qualifiers
FT   CDS           0..0
FT                 /product="Gypsy1_GAp"
FT                 /translation="MDSADSGSGLTVLPTPLLQQTEEQFNAVHLGMQGMSE
FT                 RQESLHSQVTFLTSQVQRLMDRLDTFATPITVPAPASLPAASPPVVPPRLA
FT                 RPERFSGDSGDCRPFLVQCGLHFELNAPSFQTERSKVAYVISHLSGRAERW
FT                 ATAEWSRNSRICSSVQLFTETLSKIFNTTNPGREAARALMGFRQGNRRVSD
FT                 YAIEFRTLAADSGWNEESLFDAFLYGLAEPIKDLLINRELPEDVDSLIALV
FT                 VKIDKRLQDRGRSRPEYSAPVQRGQSTSAQQSSDGAEEPMQLGRTKLSPEE
FT                 RQRRVREGRCLYCGQRGHYLSNCPVRDQAAARYTLVSHTTVSSVRPSMQAK
FT                 LITPSQTVTYPFLVDSGADENFMDWRLAKRLNLKLIPLPKQLEAHALDGRL
FT                 LCKITHRTDPIQMIISERHSEALSFYLFDSPSHPLILGFPWLSKHNPHMNW
FT                 VTGEITSWDKDCSVTCIHAVSISKISHSSDVSSTKCLELPVSRSAVVSPRT
FT                 ASSDADFPDLSRVPPCYLDLKEVFNKTRAISLPPHRPYDCAIDLLPGTSPP
FT                 RGRLYSLSSPEVKTMTEYIDSSLAAGLIRPSSSPAGAGFFFVSKKDKTLRP
FT                 CIDYRGLNEITIKNRYPLPLISSAFELLRNAKIFTKLDLRNAYHLVRIREG
FT                 DEWKTAFNTPSGHYEYLVMPFGLSNAPAVFQALVNDVLRDMLNQYVFVYLD
FT                 DILIFSPDEDTHVKHVHQVLQRLLTHQLFVKAEKCEFHVSSVAFLGFIVSQ
FT                 DNIQMDPAKVSAVTEWATPASRKHLQRFLGFANFYRRFIRNFSTIASPLHK
FT                 LTSSNIKFQWSLPAERAFQELKERFTTAPILTLPDPNLQFVVEVDASDVGV
FT                 GAILSQRSEVDRKLHPCAFLSRKLSPAERNYDVGNRELLAIKVALEEWRHW
FT                 LEGAEQPFLVLTDHKNLEYIRSAKRLNSRQARWALFFNRFNFSLSYRPGSK
FT                 NTKADALSRLFDPGSAPRSPSTILPPSCVVGAVTWAIEQRVRQANVNGQVP
FT                 DGCPPNRLFVSIPLRPQVIHWAHTSRVSCHPGIRRTLFVVKQRFWWPSMER
FT                 EVREYVTACPVCARNKSSRRPPSGLLQPLPVPHRPWSDISLDFVTGLPPSK
FT                 GNTTVLTVVDRFSKMVHFIPLPKLPSAKGTADAVLLHVFRIHGFPKDVVSD
FT                 RGPQFVSQFWKAFCSLLGATVSLSSGYHPQSNGQAERMNQELETGLRCLVS
FT                 QNPTTWSNHLIWVEYAHNTLPSASTGLSPFQCAYGYQPPLFPDLEREVNVP
FT                 SAQRFVHRCRRIWKGVREVLLRSSVRTKGAADRRRTLAPTYRTGNRVWLST
FT                 RDIPLRVESRKLAPRFIGPFPISRVINPAAVRLQLPSSMRVHPTFHVSRIK
FT                 PALESPLVPPTKPPPPPRIVDGGPVYTVKRLLAVRRRGRGRQYLVDWKGYG
FT                 PEERKWVSTKNIVDPNLILDFHRLHPDRPETSSAVPRRGGTVMSSPEY"
XX
SQ   Sequence 4383 BP; 955 A; 1215 C; 1080 G; 1133 T; 0 other;
     gtacgaactg gccacaaaga tggattcagc cgactctggt tccgggctca ctgtcctgcc        60
     gacaccatta ctgcagcaga cggaggaaca atttaatgca gttcacctcg ggatgcaggg       120
     gatgtcggag cgccaggaga gccttcacag ccaggttacc tttctgacta gtcaggtcca       180
     acggctcatg gatcgtctgg acaccttcgc cactccgatt actgttccag ccccagcttc       240
     acttcccgct gcttccccgc ctgttgtccc gccacgtctc gctcgtcccg aaaggttctc       300
     cggggactct ggcgactgtc ggccctttct ggttcagtgt gggctccact tcgagttaaa       360
     cgcgccatct ttccagacgg aacgctccaa ggtggcgtac gtaatctcgc acctctctgg       420
     cagggcagag agatgggcaa cagcggaatg gtcaagaaac tcacgcatct gctcctcggt       480
     tcagctgttc actgagacct taagcaagat cttcaatacc actaatcccg gtcgagaggc       540
     ggcaagagca ttgatgggat ttcgccaggg caatcggcgg gtctcggatt acgccattga       600
     attccgcaca ttggcagccg acagtgggtg gaatgaggag tccttgttcg acgcattctt       660
     gtatgggtta gcagagccca ttaaagatct attaatcaac cgtgagttac cagaggatgt       720
     ggattcgctc attgctttgg tggtcaagat tgataaacgg ctccaggacc gggggagatc       780
     cagaccggaa tattctgctc ctgtccagag ggggcagtcg acttcagctc agcagtcctc       840
     tgatggggcg gaggagccta tgcagctggg gcgcaccaag ctcagcccag aggagcgtca       900
     acgtcgagtg cgtgagggta gatgccttta ttgtgggcag aggggtcact acctatcaaa       960
     ctgcccagtg agggaccagg cagcggcaag atatacactg gtgagtcaca ctactgtgtc      1020
     ttctgttcga ccttctatgc aagccaagct catcacacct tctcagactg tcacttatcc      1080
     tttcttggtt gactccgggg ctgatgagaa ttttatggac tggaggttgg cgaagagatt      1140
     aaatttaaaa ttaattcccc ttccaaagca attggaggct cacgctctag atggtcggtt      1200
     actatgtaag ataacgcacc ggactgatcc cattcagatg attatttccg agagacattc      1260
     tgaagccctg agtttttacc ttttcgactc tccatcacac cctctcattt tgggttttcc      1320
     atggctctcc aaacacaacc cccacatgaa ctgggtcaca ggggagatta caagttggga      1380
     caaagactgt tctgtaacct gcattcacgc tgtgtctatc tccaagatat cccactcttc      1440
     tgatgtttct tccaccaagt gtctagaact tcctgtgtct cgatctgcag ttgtctctcc      1500
     ccgcacagct tcatcggacg ctgatttccc agatctctcc cgagtccccc catgttatct      1560
     agacctcaag gaggtcttca acaagacacg ggccatctct ttaccacctc atcgacctta      1620
     tgactgtgcc attgacctgc taccaggcac ttcacccccc agagggcgcc tctattcctt      1680
     gtcttcaccg gaggtaaaaa ctatgacaga atatattgac tcctccctgg cagcaggact      1740
     cattcggccg tcctcctctc ctgctggtgc tgggttcttc tttgtgtcca aaaaagataa      1800
     gactctccgc ccatgtattg attatcgggg attaaatgag atcacaatca agaatcgata      1860
     tcctcttccc ctcatctcct ctgcgtttga gcttttaagg aatgctaaga tcttcaccaa      1920
     actggacctg aggaacgcct atcacttggt gaggataaga gagggggatg aatggaagac      1980
     cgcctttaat actccaagtg gtcactatga gtacctagta atgccctttg ggttatcgaa      2040
     tgcgccagcg gtattccagg cgttggtcaa cgatgtactt cgtgatatgt tgaaccaata      2100
     tgtctttgtc tatttagacg atatcctcat cttctcccca gatgaggaca ctcatgtcaa      2160
     gcatgttcac caggttctcc agcgtcttct cacccaccaa ctttttgtta aagcagagaa      2220
     atgcgaattt catgtgtcct ctgtcgcttt cctagggttc atcgtctcgc aagacaacat      2280
     ccagatggat ccggcaaagg ttagcgcagt gactgagtgg gctactcccg cttctcgcaa      2340
     acatctccaa cgttttctgg gctttgctaa tttttacaga cgtttcatta ggaactttag      2400
     caccattgct tctcctttgc ataaattgac ctcctcgaac ataaaatttc agtggtcatt      2460
     accggctgag agagcctttc aggaattaaa ggagcggttt actactgccc cgatcctcac      2520
     gctcccggac cctaaccttc agtttgtggt tgaggttgat gcctcagacg taggagttgg      2580
     ggccatactc tcgcaaagat cagaagtgga cagaaagctc catccctgcg cctttctgtc      2640
     ccggaaactt tcgcccgctg agcgaaatta tgatgtgggg aatagggagt tactagccat      2700
     taaagtggct ctggaggagt ggcgccattg gctggagggt gcggaacagc cgttcttagt      2760
     tttgactgat cacaagaatc ttgagtacat caggtccgct aaacggttaa attccagaca      2820
     ggccaggtgg gctttatttt tcaatcgctt caatttttct ctgtcatatc gccctggttc      2880
     taagaacaca aaagcagatg cactatctcg tttgtttgac cctggttctg ccccgagatc      2940
     tccctctaca atcttgcctc catcctgtgt ggttggggca gttacctggg ctatcgaaca      3000
     gagggtcaga caggcaaatg tcaatggtca ggtgccggac ggatgtcctc cgaaccggtt      3060
     gtttgtgtcg attccacttc gtcctcaggt catccattgg gctcatacct ctcgggtttc      3120
     ttgccaccct gggatacggc ggaccctctt tgttgtcaaa caacgcttct ggtggccatc      3180
     catggagaga gaggtcaggg aatatgtgac tgcctgtccc gtttgtgcgc ggaacaagag      3240
     ttcacgacgt ccaccctcgg gtctcctgca gccacttcct gtgccccatc gcccctggtc      3300
     tgatatctct ctggattttg tcaccggttt gcctccttca aaaggtaaca ccactgttct      3360
     aacagttgtt gacaggttct cgaaaatggt tcattttatt cccttgccca agctgccttc      3420
     agccaaaggg acagcagatg ctgtcctgtt gcatgttttt cgaattcatg gatttccgaa      3480
     ggatgtggtg tcagaccggg gcccacagtt tgtttcacag ttctggaagg cgttctgttc      3540
     cctcctcggt gccacagtca gcctctcctc cggataccat ccccagtcaa acggtcaggc      3600
     ggagcggatg aaccaagagt tggagaccgg actacgatgc cttgtctccc aaaacccgac      3660
     tacctggagc aatcatctca tctgggttga gtatgcacac aacacattac ccagtgcatc      3720
     taccggcctt tctccatttc agtgtgccta tggctaccaa cctccactgt tccccgactt      3780
     ggagagggag gtcaatgtcc cctctgccca gaggttcgtc catcggtgcc ggaggatctg      3840
     gaagggggtt cgggaggtcc ttctaagaag ctccgtccgt acaaaggggg cggcagaccg      3900
     tcgacggacc cttgcaccca cataccgaac aggcaataga gtctggctgt ctactcgtga      3960
     cattccccta cgtgtggagt cccgcaagtt ggctccacgg tttattggtc cgttccccat      4020
     ctccagggtt atcaaccccg ctgcagtgcg actccagctg cccagttcta tgagggtgca      4080
     tcccaccttt cacgtgtccc ggatcaagcc tgcattggag agcccgttgg tcccccccac      4140
     caagccccct cctcctccca ggatcgtcga tggagggccg gtgtacacgg tcaaacgcct      4200
     cttggcagtt cgccgccgtg gtcgcggtcg ccagtacttg gtagattgga aggggtacgg      4260
     tcctgaggag aggaaatggg tgtctacaaa gaacattgtt gacccgaacc tcattctaga      4320
     cttccatcgt ctacatcctg accggccaga gacgtccagt gccgtcccta ggaggggggg      4380
     tac                                                                    4383
//
ID   Soprano_I   repbase; DNA   ; VRT   ; 2840 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Gallus gallus Soprano retrotransposon, internal domain.
XX
KW   ENS1; LTR; Soprano_I; gag domain; retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
RN   [2]
RP   1-2840
RA   Smit A.F.;
RT   "ENS1 derived retrotransposon, internal sequence.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
CC   [2] (Consensus)
XX
CC   cENS is a gene expressed in embryonic stem cells.
XX
SQ   Sequence 2840 BP; 768 A; 563 C; 676 G; 831 T; 2 other;
     ttttttatgg cgtagtcgaa gcaggatacc cgccgtgaga gtgttgtcct tccagataat        60
     agtctgaaac tttctgcgtg tacctcctgg agttgcaaga agcgatactt tttgataact       120
     tagacgtgag cacctctcca ggaagatcgc ttcatactct gaaactttac tatttatgtg       180
     tgtacctctc gaggatgtat gaattttgtc taattgcatt tatttaatac gtgtgtgcct       240
     cctcgggaag atctctctgc attttgtggt ttaaggaacc cctctacgtg tgcgcctctt       300
     ggggaagtaa gatacacgtt ttttgactta aaaaacgtgt gcgcctctcc aagaagttta       360
     ctcactttgc tgaaaattgt ttatgtatgc acctctcgag gacgtatgaa tcttgtctaa       420
     ttgcatttaa tacgtgtgtg cctcctcggg aagacctctc tgcattttgt gacttaagga       480
     tcttgcaact taagtgtgaa atttgaacct ctttcgtgcg tgcctcttgg agaagtgagg       540
     aagtgataca cgttttttga cttaaaaaac gtgtgcgcct ctccaagaag tttattcact       600
     ttgttgaanc ctagaaagtg ttgttttagc ttaaaattaa ctgcgggttt tgaaaccgaa       660
     gtgtgccttg ctttggtgtg gtgtttgcag ttttttgtgt ggcttcgcag ggaagttagg       720
     agcgatttta agttggttta gcctctttgt ccttgtgctt tcctcaacaa agggaggcgc       780
     gatcggaaca tttacatttc tttaggtgtg gtgtgcctcc gtgggagagg cgataaggag       840
     ttatttgtac ttttgaatag gagtacctcc tcctctctca gtgtatatct ttctgcgtat       900
     ttagaaatga gcaacagtat ggccagtatg aaaagtgaag atgtattatt tgatctttta       960
     gaaaagcatg gtgctcggcc ttctgtatca ggggtggatt gggcacgaca gaactggtat      1020
     aatttgcaaa gtgtttcaga ccgtattcgt gttttacaaa atgaggctcg tactcgggcc      1080
     ggaaaaggga aatcttttat ttgtgcagta ctcggtgctg ctttaaaagc agctgtggag      1140
     ttccgagagg aaaagaactc tacggaaacc cagactattc aagcattaca ggaatcggtt      1200
     aaagtgacgc aagaattggt aaaatctctg cgaagccaaa taacgagtct tgaggatcaa      1260
     ttagaaagag aaaaacataa ttcggttctg ttgcaaacag cttttaagga gctgataacg      1320
     tgtaaggaca ccggtgacac tgttgcccac agtgcacctc aagaaaaagt ttatcctcaa      1380
     gggaaattac aagaggtgaa ggaaaggcta gataaattag aggcctctcc agcccacatt      1440
     cgtcctttga taaaaactga atatactttc gataacagtg aggatctaga tcctcaaatg      1500
     aatgttaagg aaattccctt ttcggccact gaactggcca aactgaaaaa ggatttcagc      1560
     cgctccccaa aggagtctga aacagagtac gtctggagag ttagtctcac tggcggagac      1620
     cagatcctac taacagagaa agaagctgaa ggttattggg gaccaggagt atttttaacc      1680
     actggcaata atcgtgctcc ctggtcctta acacagaggg ctgcctattg ggcagggggt      1740
     ctcaaccctt tagaaagggg ggaccctctt gctattaccg gaactatcga ccagttagtg      1800
     gagaatgttc agaaagctgc ttgtctccaa atgatgtatg atagaaagtt gcagccacat      1860
     catgaatcac ccatgatgtt acctgttaat ccggagagac tgacacctct aattagggga      1920
     cttcctgaat cgttaaaacc tataggtata caactccaag gaaagataca agccatgtct      1980
     cagggagaga gaacctgggc agcgttggag ggatctgtag cccctaacca ccagtcagga      2040
     cccaaagtgt ggacttgggg agaggttgcc caagaattaa ttaactatgg aagaaaatat      2100
     gggccggtgg tttctacctc cagtaaattt gagccaagag gagtaaggct tgcagtagcc      2160
     agccttgcct ccaggccacc tagcccaaaa cttattggaa ccaaaaaggt ttcatcccca      2220
     gtaaaaacgg ggacacgatg cattgatcat aaacgcaatg gactttggac tctgggctgg      2280
     agaaagggta ttccacgaga tttgatgaat ggattaccca cagtcagatt agagaaatta      2340
     gttaactgct ggccagaaca aaagctcaag gggagctgat gccttcgccc cccccctccc      2400
     aggtgagcgg gaggtgggtg ggggggtgaa gggtggatgt ttattaggaa gctcacgact      2460
     aaaggaaaca atttgttaat tacttgttta tttattatta gtggttattg tcaaatgtac      2520
     ggttgtctct tttctctctt ctattcatta tgtaatattc atgttaccac tcctgaagaa      2580
     tcacggggtg gtgtctgtgg caagttgcat tgtgtactgt tgcaactctt atgtttgtac      2640
     cttgtatgat tccatgtttt atacaagatg ttgtatcccc tatttacttt gtaaccaaac      2700
     ctgaaaaatg tttgtaatga ttgtatgaaa catttgattc cacaacncct ccctccttta      2760
     cccttgtgct tgctatcttc ttctcaccac catggatgcc cagtgtccca tttttaagca      2820
     acctttgagt cacggggtgg                                                  2840
//
ID   SINE_HE1    repbase; DNA   ; VRT   ; 364 BP.
XX
AC   .
XX
DT   29-OCT-2001 (Rel. 4, Created)
DT   29-OCT-2001 (Rel. 4, Last updated, Version 1)
XX
DE   Heterodontus japonicus HE1 SINE - a consensus.
XX
KW   SINE_HE1.
XX
OS   Heterodontus japonicus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata;
OC   Chondrichthyes; Elasmobranchii; Galeomorphii; Heterodontoidea;
OC   Heterodontiformes; Heterodontidae; Heterodontus.
XX
RN   [1]
RP   1-364
RA   Ogiwara I., Miya M., Ohshima K., Okada N.;
RT   "Retropositional parasitism of SINEs on LINEs: identification of
RT   SINEs and LINEs in elasmobranchs.";
RL   Mol. Biol. Evol 16(9), 1238-1250 (1999).
XX
CC   [1] (Consensus)
XX
SQ   Sequence 364 BP; 83 A; 70 C; 112 G; 93 T; 6 other;
     gagggcggca cagtggcgca gtggttagca ccgcagcctc acagctccag cgacccgggt        60
     tcaattctgg gtactgcctg tgtggagttt gcaagttctc cctgtgtctg cgtgggtttc       120
     ctccgggtgc tccggtttcc tcccacawgc caaaagactt gcaggttgat aggtaaattg       180
     gccattataa nattgycact agtataggta ggtggtaggg aaatataggg acaggtgggg       240
     aatgtggtag saatatggga ttagtgtagg attagtataa atgggtggtt gatggtcggc       300
     acagactcgg tgggccgaag ggcctgnttc agtgctgtat ctctaaacta aactaaacta       360
     awat                                                                    364
//
ID   Soprano_I   repbase; DNA   ; VRT   ; 2840 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   01-JUL-2005 (Rel. 9.08, Last updated, Version 2)
XX
DE   Gallus gallus Soprano retrotransposon, internal domain.
XX
KW   ENS1; LTR; Soprano_I; gag domain; retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-2840
RA   Smit A.F.;
RT   "ENS1 derived retrotransposon, internal sequence.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
RN   [2]
RP   1-2840
RA   Wicker T., Robertson J.S., Schulze S.R., Feltus F.A., Magrini V.,
RA   Morrison J.A., Mardis E.R., Wilson R.K., Peterson D.G.,
RA   Paterson A.H., Ivarie R.;
RT   "The repetitive landscape of the chicken genome.";
RL   Genome Res 15(1), 126-136 (2005).
XX
CC   [1] (Consensus)
XX
CC   cENS is a gene expressed in embryonic stem cells.
XX
SQ   Sequence 2840 BP; 768 A; 563 C; 676 G; 831 T; 2 other;
     ttttttatgg cgtagtcgaa gcaggatacc cgccgtgaga gtgttgtcct tccagataat        60
     agtctgaaac tttctgcgtg tacctcctgg agttgcaaga agcgatactt tttgataact       120
     tagacgtgag cacctctcca ggaagatcgc ttcatactct gaaactttac tatttatgtg       180
     tgtacctctc gaggatgtat gaattttgtc taattgcatt tatttaatac gtgtgtgcct       240
     cctcgggaag atctctctgc attttgtggt ttaaggaacc cctctacgtg tgcgcctctt       300
     ggggaagtaa gatacacgtt ttttgactta aaaaacgtgt gcgcctctcc aagaagttta       360
     ctcactttgc tgaaaattgt ttatgtatgc acctctcgag gacgtatgaa tcttgtctaa       420
     ttgcatttaa tacgtgtgtg cctcctcggg aagacctctc tgcattttgt gacttaagga       480
     tcttgcaact taagtgtgaa atttgaacct ctttcgtgcg tgcctcttgg agaagtgagg       540
     aagtgataca cgttttttga cttaaaaaac gtgtgcgcct ctccaagaag tttattcact       600
     ttgttgaanc ctagaaagtg ttgttttagc ttaaaattaa ctgcgggttt tgaaaccgaa       660
     gtgtgccttg ctttggtgtg gtgtttgcag ttttttgtgt ggcttcgcag ggaagttagg       720
     agcgatttta agttggttta gcctctttgt ccttgtgctt tcctcaacaa agggaggcgc       780
     gatcggaaca tttacatttc tttaggtgtg gtgtgcctcc gtgggagagg cgataaggag       840
     ttatttgtac ttttgaatag gagtacctcc tcctctctca gtgtatatct ttctgcgtat       900
     ttagaaatga gcaacagtat ggccagtatg aaaagtgaag atgtattatt tgatctttta       960
     gaaaagcatg gtgctcggcc ttctgtatca ggggtggatt gggcacgaca gaactggtat      1020
     aatttgcaaa gtgtttcaga ccgtattcgt gttttacaaa atgaggctcg tactcgggcc      1080
     ggaaaaggga aatcttttat ttgtgcagta ctcggtgctg ctttaaaagc agctgtggag      1140
     ttccgagagg aaaagaactc tacggaaacc cagactattc aagcattaca ggaatcggtt      1200
     aaagtgacgc aagaattggt aaaatctctg cgaagccaaa taacgagtct tgaggatcaa      1260
     ttagaaagag aaaaacataa ttcggttctg ttgcaaacag cttttaagga gctgataacg      1320
     tgtaaggaca ccggtgacac tgttgcccac agtgcacctc aagaaaaagt ttatcctcaa      1380
     gggaaattac aagaggtgaa ggaaaggcta gataaattag aggcctctcc agcccacatt      1440
     cgtcctttga taaaaactga atatactttc gataacagtg aggatctaga tcctcaaatg      1500
     aatgttaagg aaattccctt ttcggccact gaactggcca aactgaaaaa ggatttcagc      1560
     cgctccccaa aggagtctga aacagagtac gtctggagag ttagtctcac tggcggagac      1620
     cagatcctac taacagagaa agaagctgaa ggttattggg gaccaggagt atttttaacc      1680
     actggcaata atcgtgctcc ctggtcctta acacagaggg ctgcctattg ggcagggggt      1740
     ctcaaccctt tagaaagggg ggaccctctt gctattaccg gaactatcga ccagttagtg      1800
     gagaatgttc agaaagctgc ttgtctccaa atgatgtatg atagaaagtt gcagccacat      1860
     catgaatcac ccatgatgtt acctgttaat ccggagagac tgacacctct aattagggga      1920
     cttcctgaat cgttaaaacc tataggtata caactccaag gaaagataca agccatgtct      1980
     cagggagaga gaacctgggc agcgttggag ggatctgtag cccctaacca ccagtcagga      2040
     cccaaagtgt ggacttgggg agaggttgcc caagaattaa ttaactatgg aagaaaatat      2100
     gggccggtgg tttctacctc cagtaaattt gagccaagag gagtaaggct tgcagtagcc      2160
     agccttgcct ccaggccacc tagcccaaaa cttattggaa ccaaaaaggt ttcatcccca      2220
     gtaaaaacgg ggacacgatg cattgatcat aaacgcaatg gactttggac tctgggctgg      2280
     agaaagggta ttccacgaga tttgatgaat ggattaccca cagtcagatt agagaaatta      2340
     gttaactgct ggccagaaca aaagctcaag gggagctgat gccttcgccc cccccctccc      2400
     aggtgagcgg gaggtgggtg ggggggtgaa gggtggatgt ttattaggaa gctcacgact      2460
     aaaggaaaca atttgttaat tacttgttta tttattatta gtggttattg tcaaatgtac      2520
     ggttgtctct tttctctctt ctattcatta tgtaatattc atgttaccac tcctgaagaa      2580
     tcacggggtg gtgtctgtgg caagttgcat tgtgtactgt tgcaactctt atgtttgtac      2640
     cttgtatgat tccatgtttt atacaagatg ttgtatcccc tatttacttt gtaaccaaac      2700
     ctgaaaaatg tttgtaatga ttgtatgaaa catttgattc cacaacncct ccctccttta      2760
     cccttgtgct tgctatcttc ttctcaccac catggatgcc cagtgtccca tttttaagca      2820
     acctttgagt cacggggtgg                                                  2840
//
ID   Galluhop    repbase; DNA   ; VRT   ; 1298 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Galluhop Mariner-like DNA transposon.
XX
KW   Mariner; DNA transposon; Interspersed Repeat; Galluhop;
KW   Mariner1_GG; class 2; transposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-1298
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
CC   [1] (Consensus)
XX
CC   Putative autonomous mother element for Galluhop. There are an
CC   estimated 13,729 autonomous/nonautonomous Galluhop elements in
CC   the Chicken genome. 92% similar to Mariner1_GG.
CC   transposase:
CC   MVSDMEVCMKQRCGTEFLHVEKMAPTDIHQYLLNIYGDQTVDVSTVRQWVVHFSSGDSVKDKPR
CC   SGWPCTAVTPQNEECLDQLIHANQQIMTRELCIELNALEMMVATLEYHKVCARWVPQMLTQEQK
CC   EQHMQVCQDLLNQYEAEGDSFLDHIITGDETWCHHYELESKQQSMEWQHVNSPLKKMFKIQPLM
CC   GKVMCTVFWDRKXVILLDLRNMTSDYYITTLTKLKAQTSRVRPEKKTTFLLQHNNTRPHTSLKT
CC   MEHTANLGWTVLPHPPYSLDLAPSDFHLFRPMKDGLHGQHFPSNNAIIAAVKQWVTSAGADFYE
CC   ASMQALIHCLQKCVANGGDYVEK.
XX
SQ   Sequence 1298 BP; 380 A; 265 C; 314 G; 337 T; 2 other;
     cgagggctgc tccaaaagta atgccttatt ttatatgttg gcccacgtgt cagagggatg        60
     ttagtggtat ggcagtagag gttgaacctt cccaccaata ttcyattcat tttgttgccg       120
     tgtgacagat ggcagcagag gggcagtctg acaaaatggt gtctgacatg gaagtgtgta       180
     tgaagcaaag gtgtggaact gaattcctcc atgtggaaaa aatggcaccc actgacattc       240
     atcaatactt gctgaacatt tatggagacc aaacagtgga tgtgagcaca gtgaggcagt       300
     gggtggtgca tttcagcagt ggtgacagca atgtgaaaga caagccacgt tccggatggc       360
     catgcacagc tgtcacacca caaaatgaag agtgtcttga tcagctcatc catgcaaatc       420
     agcagattat gaccagggaa ctgtgtatag agctgaatgc attggaaatg atggtggcaa       480
     cattggaata tcacaaagtt tgtgctaggt gggtcccaca aatgctcaca caggaacaga       540
     aagaacaaca tatgcaagtt tgtcaggacc tattgaacca atatgaggct gaaggtgaca       600
     gtttcctaga tcacatcatt accggtgatg agacgtggtg tcaccactat gagctggagt       660
     caaaacagca gtccatggag tggcaacatg tgaattcccc actaaagaaa atgttcaaga       720
     tacagccctt aatgggtaaa gtgatgtgca ctgtcttttg ggataggaaa rgggtgatcc       780
     ttctggattt acgaaacatg acttctgact actacattac aacactgact aagctgaagg       840
     ctcaaacttc cagagtcagg ccagagaaga agacaacctt tctcttgcaa cataataaca       900
     ccaggcccca taccagtttg aagaccatgg agcacactgc caatcttggc tggactgtcc       960
     taccacaccc accatatagt ctggatttgg ccccttctga cttccatctg tttaggccaa      1020
     tgaaagatgg actgcatggg caacattttc ctagcaacaa tgccatcata gcagctgtga      1080
     aacagtgggt cacctccgct ggtgcagatt tttatgaggc aagcatgcag gctcttattc      1140
     attgcctgca aaaatgtgta gctaatggtg gtgactatgt tgaaaagtag tgttttgtag      1200
     ctgagaattt gctctatcaa atagtgttat tgtgctcttt gtatctgttg tagtttctat      1260
     ggaaataaat aggaggcatt actttcagag caccctat                              1298
//
ID   Galluhop    repbase; DNA   ; VRT   ; 1298 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   01-JUL-2005 (Rel. 9.08, Last updated, Version 2)
XX
DE   Galluhop Mariner-like DNA transposon.
XX
KW   Mariner; DNA transposon; Interspersed Repeat; Galluhop;
KW   Mariner1_GG; class 2; transposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-1298
RA   Wicker T., Robertson J.S., Schulze S.R., Feltus F.A., Magrini V.,
RA   Morrison J.A., Mardis E.R., Wilson R.K., Peterson D.G.,
RA   Paterson A.H., Ivarie R.;
RT   "The repetitive landscape of the chicken genome.";
RL   Genome Res 15(1), 126-136 (2005).
XX
CC   [1] (Consensus)
XX
CC   Putative autonomous mother element for Galluhop. There are an
CC   estimated 13,729 autonomous/nonautonomous Galluhop elements in
CC   the Chicken genome. 92% similar to Mariner1_GG.
CC   transposase:
CC   MVSDMEVCMKQRCGTEFLHVEKMAPTDIHQYLLNIYGDQTVDVSTVRQWVVHFSSGDSVKDKPR
CC   SGWPCTAVTPQNEECLDQLIHANQQIMTRELCIELNALEMMVATLEYHKVCARWVPQMLTQEQK
CC   EQHMQVCQDLLNQYEAEGDSFLDHIITGDETWCHHYELESKQQSMEWQHVNSPLKKMFKIQPLM
CC   GKVMCTVFWDRKXVILLDLRNMTSDYYITTLTKLKAQTSRVRPEKKTTFLLQHNNTRPHTSLKT
CC   MEHTANLGWTVLPHPPYSLDLAPSDFHLFRPMKDGLHGQHFPSNNAIIAAVKQWVTSAGADFYE
CC   ASMQALIHCLQKCVANGGDYVEK.
XX
SQ   Sequence 1298 BP; 380 A; 265 C; 314 G; 337 T; 2 other;
     cgagggctgc tccaaaagta atgccttatt ttatatgttg gcccacgtgt cagagggatg        60
     ttagtggtat ggcagtagag gttgaacctt cccaccaata ttcyattcat tttgttgccg       120
     tgtgacagat ggcagcagag gggcagtctg acaaaatggt gtctgacatg gaagtgtgta       180
     tgaagcaaag gtgtggaact gaattcctcc atgtggaaaa aatggcaccc actgacattc       240
     atcaatactt gctgaacatt tatggagacc aaacagtgga tgtgagcaca gtgaggcagt       300
     gggtggtgca tttcagcagt ggtgacagca atgtgaaaga caagccacgt tccggatggc       360
     catgcacagc tgtcacacca caaaatgaag agtgtcttga tcagctcatc catgcaaatc       420
     agcagattat gaccagggaa ctgtgtatag agctgaatgc attggaaatg atggtggcaa       480
     cattggaata tcacaaagtt tgtgctaggt gggtcccaca aatgctcaca caggaacaga       540
     aagaacaaca tatgcaagtt tgtcaggacc tattgaacca atatgaggct gaaggtgaca       600
     gtttcctaga tcacatcatt accggtgatg agacgtggtg tcaccactat gagctggagt       660
     caaaacagca gtccatggag tggcaacatg tgaattcccc actaaagaaa atgttcaaga       720
     tacagccctt aatgggtaaa gtgatgtgca ctgtcttttg ggataggaaa rgggtgatcc       780
     ttctggattt acgaaacatg acttctgact actacattac aacactgact aagctgaagg       840
     ctcaaacttc cagagtcagg ccagagaaga agacaacctt tctcttgcaa cataataaca       900
     ccaggcccca taccagtttg aagaccatgg agcacactgc caatcttggc tggactgtcc       960
     taccacaccc accatatagt ctggatttgg ccccttctga cttccatctg tttaggccaa      1020
     tgaaagatgg actgcatggg caacattttc ctagcaacaa tgccatcata gcagctgtga      1080
     aacagtgggt cacctccgct ggtgcagatt tttatgaggc aagcatgcag gctcttattc      1140
     attgcctgca aaaatgtgta gctaatggtg gtgactatgt tgaaaagtag tgttttgtag      1200
     ctgagaattt gctctatcaa atagtgttat tgtgctcttt gtatctgttg tagtttctat      1260
     ggaaataaat aggaggcatt actttcagag caccctat                              1298
//
ID   TC1L_SS     repbase; DNA   ; VRT   ; 1555 BP.
XX
AC   L12206;
XX
DT   20-JUL-1999 (Rel. 3, Created)
DT   20-JUL-1999 (Rel. 3, Last updated, Version 1)
XX
DE   Tc1-like DNA transposon (inactive).
XX
KW   transposase; transposon; Pseudogene; TC1L_SS.
XX
OS   Salmo salar
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Actinopterygii; Neopterygii; Teleostei; Euteleostei;
OC   Protacanthopterygii; Salmoniformes; Salmonidae; Salmo.
XX
RN   [1]
RP   1-1555
RA   Radice R.A., Bugaj B., Fitch H.D., Emmons W.S.;
RT   "Ancient origin of the Tc1 transposon family.";
RL   Unpublished (1993).
XX
DR   GenBank; L12206; Positions    1545    3099.
XX
CC   Similar to SSNHEI, and distantly to TC1_XL, TZF28 and TXZ19.
XX
SQ   Sequence 1555 BP; 523 A; 297 C; 334 G; 401 T; 0 other;
     aactatagtt tttggcaagt cggtttggac atctactttg tgcatgacac aagtaatttt        60
     tttcaacaat tgtttacaga cagattattt cacttacaat tcactgtatc acaattccag       120
     tgggtcagaa gtttacatgt actaagttga atgtgcattt aaacagcttg gacaattcca       180
     gaaaatgatg tcatggcttt agaagcctct gataggctaa ttgacataat ttgagtcaat       240
     tggaggtgta cctgtggatg tatgtcaagg cctaccttca aactcagtgc ctctttgatt       300
     gacatcatgg gaaaatcaaa agaaatcagc caagacctca gaaaaaaaat tgtagacctc       360
     cacaagtttg gttcatcctt gggagcaaat tccaaacacc tgaaagtacc acgttcatct       420
     gtacaaacaa tagtacgcaa gtataaacac catgggacct cgcagccatc ataccgctca       480
     ggaagacgcg ttctgtctcc tagagatgaa cgtagtttgg tgtgaaaagt gcaaatcaat       540
     cccagaacaa cagcaaagga tcttgtgaag attctggagg aaacaggtac aaaagtatct       600
     ttatccacag taaaaaggtc ctatatcgac ataacctgag aggccgctca gcaaggaaga       660
     agctactgct ccaaaaccca cataaaaaag ccagactacg gtttgcaact gcacatgggg       720
     acaaagattg tactttttgg agaaatgtcc tctggtctga tgaaacaaaa atagaactgt       780
     ttggccataa tgaccattgt tatgtttgga ggaaaaaggg ggagacttgc aagccgaaga       840
     acaccatcct aaacatgaag cacgggggtg gcagcatcct gttgtggggg tgctttgctg       900
     caggagggac tggtgcactt cacaaaatag atggcatcat gaggaagaaa aatgatgtgg       960
     atatattgaa gcaacatctc aagacatcag tcaggaagtt aaagcttggt cgcaaatggg      1020
     tcttccaaat ggacaatgac cccaagtata cttccaaaga tgtggcaaaa tggcttaagg      1080
     acaacaaagt caaggtattg gagtggccat cacaaagccc tgacctcaat cctatagaac      1140
     atttgtgggc agaactgaaa aagcgtgtgc gagccaggag gcctacaaac ctgattcagt      1200
     tacaccagct ctgtcaggag gaatgggcca aaattcaccc aacttattgt gggaagcttg      1260
     tggaaggcta cctgaaacgt ttgacccaag ttaaacaatt taaaggcaat tctaccaatt      1320
     actagttgag tgtatgtaaa cttcttaccc accgggaatg tgatgaaaga aataaaagct      1380
     gaaataaata attctctcta ctattattct gacatttcac attcttaaaa taaagtggtg      1440
     atcctaactg acctaaaaca gggaattttt actaggatta aatgtcagga attgtgaaaa      1500
     actgagttta aatgtatttg gctaaggtgt atgtaaactt ccactttcaa atgta           1555
//
ID   CR1_GG      repbase; DNA   ; VRT   ; 555 BP.
XX
AC   M17963;
XX
DT   22-DEC-1995 (Rel. 2, Created)
DT   26-MAR-1997 (Rel. 3, Last updated, Version 2)
XX
DE   Chicken CR1 repetitive sequence.
XX
KW   CR1 repetitive sequence; GGCR1; CR1_GG.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-555
RA   Scott J.M., Tsai J.M., O'Malley W.B.;
RT   "Deoxyribonuclease I sensitivity of the ovomucoid-ovoinhibitor
RT   gene complex in oviduct nuclei and relative location of CR1
RT   repetitive sequences.";
RL   Biochemistry 26, 6831-6840 (1987).
XX
DR   GenBank; M17963; Positions       1     555.
XX
SQ   Sequence 555 BP; 139 A; 114 C; 179 G; 123 T; 0 other;
     tattgcatcc aggcctgggg cccagcatga gaaagatgtg gaactgttgg agtgggtcca        60
     taggaggcca tgaagacaat cacagggctg gagcacctct cttatgacga aaggctgagg       120
     gagctgggct tgttcagcat caagaaggga aagctgagag gacacctcat tggagtcttc       180
     cagtacttga agggagcttg caagcaggaa ggggaacaaa cttctacatg gtctgaacag       240
     agatagacaa gggggagtgg ctttaagcta aaaagaggga agatttgggt gagatgttgg       300
     gaagaaatac tttactcaga ggttggtgtg acactggcac tgctgcccag agctgtgggt       360
     gccccatccc tgtacatgag ctgaaggcca gattggatgg ggctctgtgc agcctgatct       420
     ggtgggggca gccagcccat ggcaggggtt ggggtagatg ggttgtatgg cccttttcaa       480
     cccaaaccat tcaatgattc tatgattctc agataagcct gcctgcccat atctgagctc       540
     acggtgctcg ctggg                                                        555
//
ID   INV_GG      repbase; DNA   ; VRT   ; 2119 BP.
XX
AC   X02218;
XX
DT   22-DEC-1995 (Rel. 2, Created)
DT   26-MAR-1997 (Rel. 3, Last updated, Version 2)
XX
DE   Chicken inverted repeat.
XX
KW   Inverted repeat; GGINV; INV_GG.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RP   1-2119
RA   Wang W.S., Robins J.A., D'Andrea R., Wells R.J.;
RT   "Inverted duplication of histone genes in chicken and disposition
RT   of regulatory sequences.";
RL   Nucleic Acids Res 13, 1369-1387 (1985).
XX
DR   GenBank; X02218; Positions     639    2757.
XX
CC   This is a protein.
XX
SQ   Sequence 2119 BP; 345 A; 770 C; 657 G; 347 T; 0 other;
     ggccccgccc tccagggagg aggaggcagt ggcgctcccg cccccgcctg ggccccgccc        60
     ctggtttcaa tcaggtccga ccatacgcca taacacccgc gcgcgccccg ccacatcctc       120
     actggtgtcg gacgactcag gctctcggca tgtctggcag aggcaagggc gggaaggggc       180
     tcggcaaggg cggcgccaag cgccaccgca aggtgctgcg cgacaatatc cagggcatca       240
     ccaagccggc catccgccgc ctggcgcggc gcggcggcgt caagcgcatc tcggggctca       300
     tctacgagga gacgcgcggc gtgctcaagg tcttcctgga gaacgtcatc cgcgacgccg       360
     tcacctacac cgagcacgcc aagaggaaga cggtcacggc catggacgtg gtctacgcgc       420
     tcaagcgcca gggacgcacc ctctacggct tcggcggtta aactcgtctc cgattccggc       480
     cacccgaact cgtttttagc aacccaaagg ctcttttcag agccgcccac ttggttccaa       540
     caaagagctg tgtcacctcg cctgatgtga cggggctttt tcacttaata gttaggctct       600
     tttatctccc ccagccgtat tttcagctct tcgctttccg tgtccggact gcagagctgt       660
     gtagcacagc tctagcgcct cgcggcgtcc ctccgttccc tcgcaagcgg ctcgctgcct       720
     ccgcttcccc gcagcaggct ctcaccgggc agctttcggg ctccgctcgc tccagggcgc       780
     gctcttgact tctattcccg ttgctagcga ccgggtcagg cacgtgcgac acagtgccca       840
     ggcgcgaatc cagcccctcc cttcggcacc gcgtccggaa aggccaggag aagggggccg       900
     gccccattac tcacagaccg ggggaagggc gaaggagaag caggttctgc cctgacagga       960
     accccccgag gtggggggag aaatggggaa gaggcggcta ttccgcttcc gcccgcccgc      1020
     aggccgcgca cgccgggctg cgcggcaaga ggcggacacc acaacggacc ccgcggtgtc      1080
     cgctcctttt ccccccaact gggcgtttcg cccgccctta cgaaaggcgc gcgcggggcg      1140
     cccacgcggg acgcggatgc gcggctgccg ctcgagaggg ggacggggag cggcttcagc      1200
     gcagcgtttc gggttgcagt caggacaggg cagcgacgcc caggggaaaa ctcggggctt      1260
     cccgaacgaa cacagcgcct ctccggcgga gctgcgaggg ccgcacggac ggaaaacccc      1320
     ccagtgccgc cgtgcgccca gcagtacgga acctcccgca acaacacacc acacaagcac      1380
     tcgtcgagtc accgcattcc gagctctttc tcgagactgt gggtggctct gaaaagagcc      1440
     tttgggtttc acttcgctgc tcggcgcgct tcctcggggc cggcctactt agccttggcc      1500
     ttgtggctgt cggtcttctt gggcagcagc acggcctgga tgttgggcag caccccaccc      1560
     tgcgcgatgg tcaccttgcc cagcagcttg ttgagctcct cgtcgttgcg gatggccagc      1620
     tgcaggtggc gggggatgat gcgcgtcttc ttgttgtcgc gggccgcgtt gcccgccagc      1680
     tccaggatct cggccgtcag gtactccagc acggccgcca ggtacaccgg ggcgccggcg      1740
     cccacccgct ccgcgtagtt gcccttgcgc agcagccggt gcacgcggcc cacggggaac      1800
     tgcagcccgg cccgcgacga gcgcgacttg gccttggcgc gcgccttccc gccctgcttc      1860
     ccgcgccccg acatcgccga tcagtcgctc agaagctcaa ctgccaactc aacagaaatc      1920
     aaaacacgca acagctgccc gcgctcgccc gcgcgccttt atatcccttc cccgttgcgc      1980
     gcccgccggc tcctgatagg cggacgtgtc ctcacgggga acgagcgccc aatggcgtag      2040
     cgaatctcgg cccgaccaat agcgacgggc gcccttcccc gccccgcccc tctctctgct      2100
     cacagcaatg gcggggcgg                                                   2119
//
ID   GRTE9       repbase; DNA   ; VRT   ; 238 BP.
XX
AC   X51725;
XX
DT   22-DEC-1995 (Rel. 1.11, Created)
DT   22-DEC-1995 (Rel. 1.11, Last updated, Version 1)
XX
DE   Geoclemys reevessi repetitive element.
XX
KW   GRTE9; Repetitive element.
XX
OS   Mauremys reevesii
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Testudines; Cryptodira; Testudinoidea; Bataguridae; Mauremys.
XX
RN   [1]
RP   1-238
RA   Okada N.;
RT   "GRTE9.";
RL   Direct Submission to Genbank (30-JAN-1990)Okada N., Institute of
RL   Biological Sciences , University of Tsukuba, 1-1-1 Ten-nodai,
RL   Tsukuba 305, Japan..
XX
RN   [2]
RP   1-238
RA   Endoh H., Nagahashi S., Okada N.;
RT   "A highly repetitive and transcribable sequence in the tortoise
RT   genome is probably a retroposon.";
RL   Eur. J. Biochem 189, 25-31 (1990).
XX
DR   GenBank; X51725; Positions       1     238.
XX
SQ   Sequence 238 BP; 56 A; 46 C; 70 G; 66 T; 0 other;
     gatcttacaa ggtctgaaag ggagggatag ctcagtggtt tgagcattgg cctgctaaac        60
     ccagggttgt gagttcaatc cttcaggagg ccacttaggg atctggggca aaaaattggt       120
     cctgctagtg aaggcagggg gctggactcg atgacctttc aaggtccttt ccagttctag       180
     gagattggta tatctccaat tattacctat tactatgtgc ataggctgtc gagctggg         238
//
ID   Birddawg_I  repbase; DNA   ; VRT   ; 5334 BP.
XX
AC   .
XX
DT   14-SEP-2004 (Rel. 9.08, Created)
DT   14-SEP-2004 (Rel. 9.08, Last updated, Version 1)
XX
DE   Birddawg (GGERVL18) retrotransposon, internal sequence.
XX
KW   Gypsy; LTR Retrotransposon; Interspersed Repeat; Birddawg_I;
KW   GGERVL18; LTR; retrotransposon.
XX
OS   Gallus gallus
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Archosauria; Aves; Neognathae; Galliformes; Phasianidae;
OC   Phasianinae; Gallus.
XX
RN   [1]
RA   Wicker T., Robertson S.J.;
RT   "The Repetitive Landscape of the Chicken Genome.";
RL   Genome Research (2004)In press.
XX
RN   [2]
RP   1-5334
RA   Smit A.F.;
RT   "GGERVL18 retrotransposon, internal sequence.";
RL   Direct Submission to Repbase Update (SEP-2004).
XX
CC   [2] (Consensus)
XX
CC   Contains gag and pol ORFs. 70% similar to DNA sequence of
CC   primate HERVL18. gag of Birddawg, and gag of HERVL18 are 70%
CC   similar on protein level. Around 7400 copies in chicken genome
CC   (Wicker et al).
XX
SQ   Sequence 5334 BP; 1494 A; 1272 C; 1361 G; 1170 T; 37 other;
     cttggcgagg caggccaaat atactaaaat atatatatat gtntgtgtct tttctntgga        60
     atntctataa atgggtcagg ggggagaaca ttacccccct agacaaaatg atccctgggc       120
     agatcccagg atttctggga tccccctatt atgaactagc aaccatnatt gaaaaatggg       180
     gtcccctgcg ngttatggga aatatctccc cattccgcat ggcggactat tttcanggnc       240
     taagcaaaga tatactaatt acaaaagaac ggcagttagc tgcctctacg gtggcatggc       300
     cactgttaaa tgctttaaac caggctgaaa tgagggccaa taccttagaa aatgaaaacc       360
     agctattgng agaccgcact gagaaattag agcaagaact tagtatattg acggggaaaa       420
     aaacaacttt gcattttccg ataggncagg tccgtaatat ttcaatagat aatgaccaga       480
     ttcctgaatc aacggacctg gttgatcagg aaaataaaaa ttctaaatcg gatctngang       540
     ctccgcttgc gacggatccc ttggagatcc gtcctattat aactcaaaaa acaaaaaaga       600
     tacaagatag accagcaggg gtgccccctg atcagtggcc ccctgcccaa actcacttac       660
     atgtaacggc ccgnccatac acggcaacng aattaatgga cctggtacaa cggttccggc       720
     agaagccnag ggaaagtgta ccaacttggc tattaagatt atgggactcg ggggcagaaa       780
     gtgtcgtggt taacgggcca gaaatatcta aattggccac catgactgtg caccctgccc       840
     ttaggcagag attatacgcn ggcgtccaat ataccaatga aaaccattct ataatagatt       900
     ggttgatggc ggcatgccgt atggtatggc cnaataaatc agatatacca ttacatacag       960
     gnttgtggtc ctccatggag gaccttcaaa attacattcg tgaactgggc ataagagaag      1020
     caatatatga agacncattt ganagcccag atatggtnag attttcagcg ggnatgagag      1080
     acttgatctt gcagcaggcc ccttcccatc tatatgggac cttagtttct atactgaacc      1140
     ccctggtggc ctcagagtcn gtggtccaac aggctgccca actagtggct gatctggggg      1200
     agacagagcg cctgcggacc aggcgcaata ttcgaacant ggaagaagca gaggtcctnc      1260
     cagtaactaa aactaggagg ccagccgtac gaactcctca atcgggaccc atacgggtnt      1320
     cccgaaagca aatgtttaat gacctaatcc gggctggggt ccaatttgcn aaaattgatc      1380
     gccagcccaa tcatgtcctc ctccagctnt ggaaacagct gaaggacaat caaaaatttc      1440
     aaaattaccc caaaaaacct agggtaagaa ttatngacag antaccaacg acaacatgga      1500
     acttagaaga ttttatagtc cctagtagga aaaagaagcc tcctcaggtg tctcgggcca      1560
     caatgcccga gccaccngag gcaaaagact tagccatagc acagtttatg gcgtgacaag      1620
     ggatgctagt ccccctaggg cctccagatg ggaccggagg ccctatgtag aattgacgat      1680
     tttttggtcc cgaaagaata ttcagagagt tatggcattg gttgacacag gngcggaaac      1740
     atcaataatt tatggagatc cgactaaatt cgatggcgat agagtgatga ttggtggntt      1800
     tgggggacag accattccgg tcacccaaac gtggttgaaa ctgggggttg ggcgtctccc      1860
     accccgggag tataaggtgt ctattgcccc agtccaagag tacatcctgg gcatagatat      1920
     tttatggggt ctggctctcc agacgactgt gggagagttc agacttcgac aaaggtgcat      1980
     tagtgtccgg gcggtgcagg caatattgag aggccatgcg aagcatgagc ctatttgcct      2040
     gccgaaaccg cgccggatta ctaatgtnag acagtataga ctcccgggtg ggcaagatga      2100
     aatatcaaga acggtgcagg aattagaaaa agtnggcatt ataagacctg cacatagccc      2160
     atataattcc cccatatggc cagtgcgaaa gtcggatgga acatggagaa tgacggtgga      2220
     ttatagagaa ttaaataagg tcacgccgcc tattcatgca gccgtaccca atattgcctc      2280
     cctaatggac acattgagta gggagataaa aacctaccat tgtgtcctag atttggcaaa      2340
     tgcgttcttc agtattccaa ttgctgaaga atcgcaagat cagtttgcgt ttacatgggg      2400
     aggcaggcag tggacctttc aggtcctgcc acaggggtac gtgcattcgc caacatattg      2460
     ccataatcta gtggcgcgtg acctggctaa ttggagaaaa cctgataatg ttaacttgta      2520
     tcattatatt gatgatctcc tgttgacatc tgactcactg gaggcggtag gacaggcagc      2580
     agattcatta actacctatc tgcaggaaag aggatgggct ataaatcctc agaaggtgca      2640
     aggtccgggc ctgtccgtaa aattcctggg ggtagtttgg tcaggaaaga ccaaagtact      2700
     acccagtgct gtaatagata aggttcaggc attcccagtc cctacaacac caaagcagct      2760
     gcaggagttt ttaggtatat tgggatactg gcgctccttt atacctcatt tagcgcagct      2820
     gctgaggcca ctgtacagac tcacgaaaaa ggggcagcta tgggactggg ggagaacgga      2880
     acaggacgct ttccaacagg caaaactggc agttaaacaa gcccaggcat tgggtatatt      2940
     tgatcctacc ctcccagccg agttggacgt tcatgtcact caggatggct ttggctgggg      3000
     cctgtggcaa cgccagagtt ctgttcggac ccccattgga ttctggtctc aggtctggca      3060
     cggagcagaa gaaagatata gtatgattga aaaacagtta ttggctgcct actccgcatt      3120
     acaggcggta gagccgataa cccaaacggc tgaaatcata gttaagacca ccctgccgat      3180
     tcaggggtgg gtgaaagatc tgacccacct tcctaagacg ggggtggccc aagcacaaac      3240
     ggtggcacga tgggtcgcct atctcagcca gaggagtagt ctgtcttcat caccactaaa      3300
     agaagaactt cagaagatcc taggcccagt gacgtatcac agtgatgcac caaaagaaac      3360
     attggtcgct ccaccagaga agagtcccgt tcaggagggg aaatatccta ttcctgaaga      3420
     tgcctggtac acagatgggt ccagcaaggg caacccgagc aagtggagag cgatagcata      3480
     ccatccctcc accgagacaa tctggtttga cgagggggat ggtcagagca gccaatgggc      3540
     agaactgcga gccgtgtgga tggttataac caaggaaccc ggtgacggta tcctgaacat      3600
     ctgcacagat agttgggctg tgtaccgggg gctcactctt tggattgcac agtgggccac      3660
     ccaggaatgg actatccacg cccgaccaat ctggggcaaa gatatgtggt tagacatatg      3720
     gaatgcagtt aaacacagga ctgtacgtgt ctaccacgtt tctggtcacc aacccctaca      3780
     gtcaccggga aatgatgaag ccgacacact ggcccgagtt cgatggattg agaattcacc      3840
     atctgagaac atcgcccgct ggttacatca gaagctacgg catgctggac aaaagacaat      3900
     gtgggcagct gctaaagcat gggggctgcc catacagcta tctgacatcg cccaggcatg      3960
     ccgagactgc gacgcttgct ccaagatgag accgagatcg ttgcccgaaa caacagccca      4020
     tcttgctaga ggacacaatc ctctccagcg atggcaggtt gattacattg ggcccctccc      4080
     tcggtctgag ggggcgagat atgccctgac ctgcgtcgac actgcaagtg ggctactgca      4140
     ggcctatcca gtaccgaaag caaaccaggc atataccatc aaggcactta ccaaactgat      4200
     gtctgcctac gggacacctc aagtcatcga gagcgaccaa gggactcatt ttactggtgc      4260
     aatgatacaa cgctgggcag aagaaaacaa cattgaatgg cgattccacc tgccatataa      4320
     tccgacgggg gcaggcctca ttgaacgtta taacggtatt cttaaggctg ccctgaagac      4380
     agactcccag tccctgcagg ggtggacaaa gagactctat gaaaccctgc gggacctgaa      4440
     tgaaagacct ngagacggca gacccagtgc cctgaaaatg ctacagacaa catgggcctc      4500
     cccgcttagg atccaaatta cgggcactga taatcaggta agaccccaga ttggcaatga      4560
     aaataatctt ctgctccctg cccctgagaa tctagancca ggtacccata gaataaaatg      4620
     gccttggaag gtgcaggtag gaccaaagtg gtgtggccta cttgcacctt gggggagatt      4680
     attggaggtg ggaggctcgg tagtccctcc ggtaataggt acatggccta cggacattgt      4740
     ggtcaacact ccggtcttca ttgctaaagg gacccccatc atgtccctgt ggcagatcag      4800
     gacaccccct ttggtgcctg atatagttat gcagccgcag acatctggcc agaaggtatg      4860
     gtacaggcgg ccggggcatg ccccagtaca agccgaagtg ttgacccagg atagaaatac      4920
     ggcctgtatc ttgccctgga gggcagacct tcccctcctg gtacccctga aacatctgta      4980
     ttactccccg tgagtctttg agcctctagg atcaccggaa ggaacgaaat gccatcaaag      5040
     cgttccagtg ttgctgtgag atcacgtgcg acacccggtg atggtctaca tgggactgat      5100
     ggagcatagg atggacctgc accncacgac tacatgcctc cagtaacacc atcgagcact      5160
     ggcccatgaa agaacatgaa ctttcaccat accgatcatc actcgtctta aattgtgtca      5220
     acatacatcg cgacgggaaa ttgtataagc gtcgcgatgt gtcggatctc tgtattaggg      5280
     aagactcacc ctttagttaa ctcaatcatt ggttcatgcc gtgaaggggt ggag            5334
//
