Repbase Reports |
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| 2004, Volume 4, Issue 12 |
| December 31, 2004 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 319 |
Gypsy13-I_DR |
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An internal portions of the Gypsy13_DR LTR retrotransposon - a consensus sequence. |
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Submitted: 00-Dec-2004 |
Accepted: 31-Dec-2004 |
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Key Words: LTR retrotransposon; endogenous retrovirus; Gypsy superfamily; gag; reverse transcriptase; integrase; Gypsy13_DR; Gypsy13-LTR_DR; Gypsy13-I_DR |
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Source: Danio rerio |
Organism: Danio rerio |
Taxonomy: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Danio |
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| [1] |
Authors: Kapitonov,V.V. and Jurka,J. |
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Title: Gypsy13_DR, an LTR retrotransposon from zebrafish |
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Journal: Repbase Reports 4:(12) p.319 (2004) |
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Abstract: Gypsy13-I_DR is an internal portion of the Gypsy13_DR LTR retrotransposon that belongs to the Gypsy superfamily. Its long terminal repeat is deposited in Repbase as Gypsy13-LTR_DR. Gypsy13_DR is characterized by 4-bp target site duplications. The internal portion encodes two proteins: the 556-aa gag Gypsy13_DR1p (pos. 95-1755) and 1577-aa polyprotein (pos. 1756-6486, conceptual translation) composed of the protease, reverse transcriptase, and integrase domains. PBS is identical to that in Gypsy9_DR. Some internal portions are flanked by 100% identical LTRs. PBS is complementary Arg-tRNA. Gypsy13-I_DR1p: MDIIEAEGIKIPNSVIISGLTQDKSDDELFDFLKQYGSFAKTVFISDKDSEFYQSVILEYTSGQ ALHSLEPQLPYTHQLSSDPSVTYHVRALSSVFTQYKGTSVTKSYLEGLKEVAKLSGTDFEIVLS QMLSQMTAELTPTSADTEADDEDLDEPQAQVCPEESFTPAPVKISQPDDSLSQHTSAKPNKPPL LTSSEVLNPPEVQKLVIEHVVRTGEVATQGLMQQRLRVFSGKCPRPGSEVDYDTWRSSVELMLK DSTLSDLNVSRKIVDSLLPPAADVIKHLSSEAPSSAYLQLLDSAFGVVEDGDELLAKFMNTLQD AGEKPSTYLYRLQTALRVTIKRGGVSPEEADRHLLKQFCRGCWDNDLITDLQLERRRNNPPSFG QLLLMLRTEEDKHTAKVTRMKQHLGSSKPRAVMHSQRTWVSSEVEQGEVSNMVSLAAETKEIKR QIAKLQSQLASLVPAHKTQKKASQQAVVNKQDKKKSDTANQLTRTPVSQRQKDRPRPWYCFTCG EDCHIASSCTSEPNPTLVNAKRKLLREKQLLWDSQNANSNPDLN Gypsy13-I_DR2p: FKLESVLVVGQTGAELESQCPNTNHVFEKSQVSKVQSTSLPKGLIGAMSIAEVTIANEKCSCLL DTGSQVTTVPKSFYEQHLSGYPIKSIDDILEVEGANGLSVPYEGYIEMGITFPEELLGVSVEIP TVALVVPDVKAHNQSMVLIGTNTLDVLYKKYLSADPPKFQPCSYGYKVVLKTLEIRWRQNTSGV LGHVRLRSRAPKVLMAGQTVVVGGSVSNPCRIDQTILVEHSPDSSLPGGVFVKRCLLNQPENQM NSIPVVLTNETNHNITIPPRCVIAELHAVDSLQSLSKTSNSNGEGDFTLNFGDSPLPQVWKERI SKKLREIPEVFSHHDLDFGHTQKVKHSIKLHDETPFKQRARPIHPQDIEAVRRHLQDLLASGVI RESESPFSSPIVVVRKKNGDVRLCIDYRKLNIQTVRDAYALPNLEETFSALTGSKWFSVLDLKS GYYQIEVDEADKPKTAFVCPLGFWEFNRMPQGVTNAPSTFQRLMEKCMGDINLKEVLVFLDDLI VFSDTLEEHETRLLNVLFRLKEYGLKLSLEKCKFFQTSVRYLGHIVSEHGVETDPEKVQALKTW PVPKNLKELRSFLGFGGYYRRFIKDYSKIVKPLNDLTSGYPPLRKGAKKCNKGSQYHNPKESFG DRWTPSCEEAFRTLIEKLTSAPILGFADPKLPYFLHTDASTKGLGAALYQEQDGQMRAIAFASR GLSHSESRYPAHKLEFLALKWAVTEKFNDYLYGNHFTVITDSNPLTYILTTAKLDATSYRWLSA LSTFSFKLQYRAGKQNVDADSLSRRPQEPIPETAWSSKEQERIHQFVQHHHHDAADIVSAPNDV VHAICEKHLINQDAASGVALVGSLALRPDAIPDEYGEDCNLDGLPVMPYLPHEIGEKQRADSVL REVIFHLELGEKPSPTVRKEIPTFPLFLKEWNRLELRDGILYRRRQENNLLTYQLVLPEELRPL VMSSLHDDMGHLGIERTVDLIRSRFYWPKMAADVERKVKECSRCVRRKAQPQKAAPLVNFHATR PLQLVCMDFLSLEPDRSNTKDILVITDFFTKYAVAYPTPNQKAKTVAKCLWENFVTHYGFPERL HSDQGPDFESHVIRELCEVSGIKKSRTTPYHPQGNPVERFNRTLLGMLGTLEEKDKAHWKDFVK PLVHAYNCTKHEVTGFTPYELMFGRQPRLPVDLAFGLPHHGKSDVIPHSEYVKQLKSHLKESYL LASQGMLKTAEKNKTRFDKSVTHSSLEVGDRVLVRNVRLRGKHKLADKWESEVYVVVKKAGDLP VYTVHPENSESPLRTLHRDLLLPCGYLPLSNSSNPSPPKMSRPRTRQNPGFQQPEEDCSFLSPE DEDYEWYGDNHQNVEPLQFSTVYDVPQPVKGKSVSLADESAGQNLGKDGTQCKEGTQNDNLPVT PPVDNLPDDLPANDPPVYNAPVHSSVDNPSDDVLEVCETTETPGKDQPETDNSKDLPTQRESKV EEANDSENSVSCEREEQQSEQEIPSLRRSARERDKPERLTYFQLGNPLSHVVQSLFQGLSTALV NSLNSVEDLGDSPITSDIPANIVTTQPLRACKGTCIVSRGEA
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Derived: [1] (consensus) |
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Download Sequence - Format: IG, EMBL, FASTA |
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References: |
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