Repbase Reports

2005, Volume 5, Issue 1
January 31, 2005
Copyright © 2001-2016 - Genetic Information Research Institute
ISSN# 1534-830X
Page 27

Gypsy-27-I_DR

An internal portion of the Gypsy-27_DR LTR retrotransposon - a consensus sequence.

Submitted:
00-Jan-2005
Accepted:
31-Jan-2005
Key Words:
LTR retrotransposon; endogenous retrovirus; Gypsy superfamily; gag; reverse transcriptase; integrase; Gypsy-27_DR; Gypsy-27-LTR_DR; Gypsy-27-I_DR
Source:
Danio rerio
Organism:
Danio rerio
Taxonomy:
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Danio
[1] Authors:
Kapitonov,V.V. and Jurka,J.
Title:
Gypsy-27_DR, a family of LTR retrotransposons from zebrafish
Journal:
Repbase Reports 5:(1) p.27 (2005)
Abstract:
Gypsy-27-I_DR is an internal portion of the Gypsy-27_DR LTR retrotransposon that belongs to the Gypsy superfamily. Its long terminal repeat is deposited in Repbase as Gypsy-27-LTR_DR. Gypsy-27_DR is characterized by 4-bp target site duplications. The internal portion encodes one polyprotein: the 1632-aa Gypsy-27_DR1p (pos. 71-4966) composed of the gag, protease, reverse transcriptase, and integrase domains. The consensus sequence was built from 5 copies less than 1% diverged from the consensus sequence. Gypsy-27_DR1p: MEAENFLINFPDAAEGSCEGPSHNSPVTPQIDRSLLDEDTGMEQPFIGAPILSSESRTDDLAVL VQAIDSLKSVFVDTVDRQKKWLQDSTELCTHEVPKKTLTVVEKAHSEFLDVLSDRMKEFTKHTI EAIQWNSKQTHNEFKAMFDEANSSMFSSFKRALEESRVGEKTLQEEVCSLRKELLAMQTSLDSF MQQRISLDTKVDEKVLVSGSQVCSNTSSHVDSSESISQPALSNLTCGRIPPIKMVFPTFGGVND ESDPVIYLERCNDFLALRPMSNSEILATMRSVLHASARDWWETVRFKINSWESFQKAFLAVFLP EDYQDVLEEKVRNRLQGTNESVRDFAFSFQALFKRWKKEATDTEVLKALLKAMNPCYASQLRGR AQTVEELVRLGTQLERDYDHQIKYNQLQLPKSSFLDQHLSKKSKGVEVKSNLPPEQSLTSLLCW RCHENHSPGSCSKFKAVLSGKQTGGQFQGTKEFQPQNQQRGMLSAYDTQRFVKKDVSSGRKLDK RDGIKILRQLVIPMMVRNCSGKALVDTGATYTLLNVDLWNKIKEPNERLDVWHEGPLYLANGDA TVPLGQKVLDFYLQDLHFQVPTVVLPAQNLVYSMVLGLDFIALTGLQLNIKDQLYSFSDDPQGR VFPFQPPITPGDSWKCCKPPGNYNPSASLYSAIPPVQFVCTANECVDKSDVGESGSVLMELLQS KIKESNLSERESHVLFTLLYDHPEVCTPNLGRTHLVQHKIAVSTDVVVAQKPYRLPIHKKEIVK EQIDDMLNQDIIQPSHSPWASPIVLVPKKDGGQRFCVDYRKLNAVSESDAFPLPTVNEILESLS GSGIFSTLDLNSGYWQVSMHPDSMAKTAFVSPFGLYEFKVLPFGLKNAPATFQRLMNRVLADYL GQCCLVYLDDIVVYSANFHQHVLDLQKVLRCLQRAGLTLKLPKCHFCLTEIKFLGHIVTTDGVK ADPAKTEAIQNFPVPTNLKELQRFLGMSGWYHRYVQNFSDIAEPLNALKKKGVRFQWTAECQVA FDCLKRHLSSPPVLGHPNHAHTFVVYTDASSTGLGAVLAQRPSTFGASEEVLAYASRTLTSAEK NYSTTERECLAVVWAVERWRHYLEGKSFIVVTDHASLLWVFNTTKTNSRLIRWALRLQEFEFIL EYRKGKLNSAPDALSRIDVPDSCPMVASYVPKQSTESMVSLFPLCDEDIWIAQQQDVEIQRIYQ SLAEGKQSDEGSGSEFVILEDKVYRKVSNPTKGTHFQIYVPQTLREILLEAYHSNPLSGHFGRY KTQKRLMQVAFWPNMWRDVSDFVKNCTSCQQNKPECRKPAGKLQQTEVKEPWEMLGVDLMGPLP RSTLGNTQLLVVVDYYSHWVEMFPLRKATAGVIAQTLRKEVLTRWGVPKFLLSDRGPQFTSEIL KDLCSRWGVVQKLTTAYHPQTNFTERVNQVIKVMISSYVFGEHNRWDHYLPELRYAINSAVQES TGYSPAELLLHRNLRGPFELVLEPHQTGLRVLKDLQEVVKRNVRRAKEKQKRLYDARRRDVHFT RNDRVWMRAHPLSKASQAFAAKFAARWIGPYRIVEKLGPVNYRIVREDNGEDLRTVHVCNLKPA FPSAGELDRRERERVLKIFVEESEDEEFLGFE
Derived:
[1] (consensus)
Download Sequence - Format:
IG, EMBL, FASTA
References:

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