Repbase Reports |
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| 2004, Volume 4, Issue 11 |
| November 30, 2004 |
| Copyright © 2001-2016 - Genetic Information Research Institute |
| ISSN# 1534-830X |
| Page 285 |
ATLANTYS-I_OS |
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Internal domain of rice ATLANTYS_OS gypsy-like endogenous retrovirus - a consensus. |
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Submitted: 00-Oct-2004 |
Accepted: 30-Nov-2004 |
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Key Words: gag; pol; ATLANTYS superfamily; Gypsy-like endogenous retrovirus; SZ-19LTR; ATLANTYS-LTR_OS; ATLANTYS-I_OS |
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Source: Oryza sativa |
Organism: Oryza sativa |
Taxonomy: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; Ehrhartoideae; Oryzeae; Oryza |
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| [1] |
Authors: Gentles,A. and Jurka,J. |
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Title: ATLANTYS_OS, a rice Gypsy-like LTR retrotransposon |
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Journal: Repbase Reports 4:(11) p.285 (2004) |
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Abstract: ATLANTYS_OS is a Gypsy-type LTR retrotransposon from Oryza sativa. It has ~1500 bp LTRs, and a 5 bp target site duplication. There are approximately 30 full-length elements in the rice genome, with average similarity to the consensus of 90%; along with numerous fragments. ATLANTYS_OS is related (59% similarity) to the Arabidopsis thaliana elements ATLANTYS1 and ATLANTYS2. ATLANTYS_OS has weak similarity also to RETROSOR1 and RIRE2 from rice. A characteristic feature of these retroelements is that the normal env encoding domain is replaced by an ORF for a protein of unknown function on the opposite strand. The corresponding LTR is ATLANTYS-LTR_OS. gag-pol: MEFKVRVHGVQGDGAQGLQGGNLNQNSDAAQDFFNNFQDRVDYAVHHALINQSGVLVNTLSNMM KSIADGSIAEHQAAGPVYLQGGVFPNYRPLITDVQPSIQAVPPVAPSAQPTAPASTPLPAPSAL APGQLVNPRLLMREQPQHSGQVVNRLTQDQVAAMFLPPQPTVDPIQQQPIQQTPPIQQVVQPIQ QQVVQPVQQTPPRQQPLQPIQQTPLRQQIYGQFEPMQQQSQGAAQQRPWADVIADVMREQFGLK PKETGSLYRQPYPEWFERVPLPNRFKVPDFSKFSGQDAIKQRHDEPVHEYIQRFREMRNKCFSL SLTDAQLADLAFQGMIAPIREKFSSEDFDSLSHLIQKVTLHEHRSAEARKXSKKVNHVCPYMYG SDDDEDDSEIAAAEWVRSKKVIPCQWVKSSGKEEKYDFDITKADKIFDLLLREKQIQLPAGHTI PSAEELGKKRYCKWHNSGSHSTNDCKVFRQQIQVAIEGGKIKFDDSKKPMKVDGNPFPVNMVHT AGQTADRGRARGFQVNSAKIINKYQRKYDKQQEKHYEEDDDGFDPHWGSEFGIDQADVDEVEEE SAKLVLSPEQAVFEKPEGTENRHLKPLYINGYVNGKPMSKMMVDGGXAVNLMPYATFRKLGRNA EDLIKTNMVLKDFGGNPSETKGVLNVELTVGSKTIPTTFFVIDGKGSYSLLLGRDWIHANCCIP STMHQCLIQWQGDKIEIVPADSQLKMENPSYYFEGVVEGSNVYTKDTVDDLDDKQGQGFMSADD LEEIDIGPGDRPRPTFISKNLSPEFRTKLIELLKEFRDCFAWEYYEMPGLSRSIVEHRLPIKPG VRPHQQPPRRCKADMLEPVXAEIKRLYDAGFIRPCRYAEWVSSIVPVIKKNGKVRVCIDFRDLN KATPKDEYPMPVADQLVDAASGNKILSFMDGNAGYNQIFMAEEDIHKTAFRCPGAIGLFEWVVM TFGLKSAGATYQRAMNYIYHDLIGWLVEVYIDDVVVKSKEIEDHIADLRKVFERTRKYGLKMNP TKCAFGVSAGQFLGFLVHERGIEVTQRSVNAIKKIQPPENKTELQEMIGKINFVRRFISNLSGR GACFEFAYTIKPYATNNQAEYEAVLKGLQLLKEVEADAIEIMGDSLLGIFGRQCWRIVSDIIRG VKIVRSLEQFSERRRRL ATLANTYS-I_OS2p: MKVVNRPSVTEAEFPRLEPIVEDDGEERTHRRCMSYGEYASTPTDAGAKLSAELLKDWFCSFYE GFQKDARVWPHQGTSRCRQEKENQIIGCEYLGSSSKEKDQVKKTKPTDDLPALDPSIEQALDEE EIEDDVDQAAAEPPPPPSPPVQQSSSDQTPSAVGSHHIEEEEQPAAPAIPPHVHKQVYKEELGS IHDKPSDKTTMLRPTEYAIAEDNQKFSA
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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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