Repbase Reports |
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| 2002, Volume 2, Issue 11 |
| November 30, 2002 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 9 |
GYPSY12_I |
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GYPSY12_I is an internal portion of the GYPSY12 endogenous retrovirus. |
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Submitted: 00- - 0 |
Accepted: 30-Nov-2002 |
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Key Words: endogenous retrovirus; LTR retrotransposon; gag; pol; GYPSY superfamily; GYPSY12_LTR; GYPSY12_I |
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Source: Drosophila melanogaster |
Organism: Drosophila melanogaster |
Taxonomy: Eukaryota; Metazoa; Arthropoda; Tracheata; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila |
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Authors: Kapitonov,V.V. and Jurka,J. |
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Title: GYPSY12, a family of Gypsy-like endogenous retroviruses in drosophila. |
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Journal: Repbase Reports 2:(11) p.9 (2002) |
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Abstract: GYPSY12_I is an internal portion of the GYPSY12 endogenous retrovirus. Its long terminal repeat is listed in Repbase as GYPSY12_LTR. GYPSY12_I is flanked by 1% divergent LTRs. Therefore, the age of GYPSY12 can be estimated as ~0.3 Myr. tRNA-derived PBS starts at position 35 (there are several GYPSY12-like subfamilies that have the same feature). GYPSY12, OSVALDO and ULYSSES retroviruses from D. buzzatii and D. virilis, respectively, form a distinctive group of GYPSY-like retroviruses. GAG and POL encoded by GYPSY12_I are slightly damaged by several mutations. We recovered both proteins conceptually, based on alignment with known proteins. GYPSY12-GAGp shares common structural motifs with GAGs encoded by HIVs. GYPSY12-POLp is composed of protease, reverse transcriptase and endonuclease. GYPSY12-GAGp (positions 805-2217): MGLDRSPTRKSPSVSNPVCKLCAAEISTQDLYVTTCHHEFYRECIGNHFKKSEICSRCKLTCRPPAEATE RVGRETRSKTKNRRNSRRGSFDISQRCGEKLAVKLKIAATVDGGPSTSASGANANEASSSAVSANAALLA MERRLLATLSEKMADLVQNAITSSMQRIMPTPSPAVVVTASEMSADHPNAYERQYLASPNPVPSPRSASS DLFDRPDKVVHILNGWKIKYSGVGVSVDNFIYRVEAVTRQTLNGNFNLLCRNISVLFEGKANDFFWRYHK FDRVATMGTERFCTALRLQFRQSRDDGDIEELIRNTKQKPNETFDSFYDTVSELVDQLEQPWTANKLVRV LRNNLRPEIRHEILNLDVRTVSELREICKRREAFLADVRRCSSYAKDTPFKREISEVCHESEDEVRSTYE AENDIESFSLVCWNCRIEGHRYQECIAERRVFCYGCGAANTYKPSCRKCSKNFKVGMSKLPVKPKTSNAA RNQSTMTDQ GYPSY12-POLp (positions 2404-5374): KKCKASLDYISSIPTGPRDPRPFLPMRLLNCLVYGLLDSGASISCIGGGVVQAAMENEKFKSLIGEAATA DGNSQRIVGLLKIEVEYGDIKKLLKLYVVPSLKQDLYLGIDFWKLYDLLPANLKIAEILSPEPNQQTVVD QHELCEGDKAKLANVINCFPSFSQEGLGKTNLVSHSIDVGTARPVKQRHFPVSPAVEKAMYAEIDRMLRL GVIGESESAWSSPIVMVTKPGKVRICLECRKVNSFTEMDAYPLPQINGILSRLPRAEYISSLDLKDAYWQ VPLDPKSRDKTAFTVPGRPLYQFKVMPFGLCNATSTMSRLMDKVVPAHLRNEVFIYLDDLLIVSSCFESH LNVLRELALQIKRAGLTLNVAKSHFCMRRVRYLGHIIGDGGIRTDPEKVSAITDFPLPKSLKSLRSFMGL CGWYRKFVANFATLSAPLTDLMTTKRKFLLTKEAIEAFSKLKECLSKAPVLCSPDFAKPFAIHCDASKSG VGAVLVQVSEEGDERPIAFVSKKLNKAQRNYTVTEQECLAAIVALKNFRAYVEGLPFKIITDHASLKWLM SNHDLNSRLARWALALQRFKFEIEHRKGSLNVVPDTLSRVNEEIVAAMDLQEDLIVDFDSEFFQSGDYVK LVETVKENTSNFSDLKVESGFLYRKAEHLTGERMHDEYAWKLWVPKELVSKILARAHDSPLAAHGGIHKT LERIRRYYFWPGLVSDVRAYISACEVCKSTKSQNFTLRPPLGKAPESQRFFQRLFIDFLGPYPRSRSGNI GIFIVLDHFSKYVFLKPVKKIDSSVVIKYLEDELFMTFGVPEVILSDNGSQFRARTFQRLIRYGVKHTLT AVHSPQANASERVNRSVIAAIRAYLRLDQKDWDEFLSRICCALRSAVHSSIGTSPYYMVFGQHMITSGST YSLIRRLNLLDDRSLKFDRHESFEIMRKQAVDQMRNKHNENEKRCNIRSRVVSFVEGQEVYREISSQAVS KPVTTPSLDRRS.
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Derived: Positions 46854 41309 Accession No AE003789 GenBank |
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Download Sequence - Format: IG, EMBL, FASTA |
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References: |
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