;ID ATCOPIA41I DNA ; ATH ; 5262 BP ;XX ;DE Internal region of ATCOPIA41 copia-like LTR-retrotransposon. ;XX ;AC AC007261 ;XX ;DT 31-AUG-2000 (Rel. 5.8, Created) ;DT 31-AUG-2000 (Rel. 5.8, Last updated, Version 1) ;XX ;KW LTR-retrotransposon; endogenous retrovirus; COPIA superfamily; ;KW internal region; pol; env; ATCOPIA41LTR; ATCOPIA41I. ;XX ;OS thale cress ;XX ;OC Arabidopsis thaliana ;OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; ;OC euphyllophytes; Spermatophyta; Magnoliophyta; eudicotyledons; ;OC Rosidae; Capparales; Brassicaceae; Arabidopsis. ;XX ;RN [1] (bases 1 to 5262) ;RA Kapitonov,V.V. and Jurka,J. ;RL Direct submission (August 2000) ;XX ;RN [2] ;RA Kapitonov,V.V. and Jurka,J. ;RT Molecular paleontology of transposable elements from ;RT Arabidopsis thaliana. ;RL Genetica 107 (1-3), 27-37 (1999) ;XX ;CC ATCOPIA41I is an internal region of the ATCOPIA41 copia-like ;CC endogenous retrovirus flanked by 4% divergent ATCOPIA41LTR ;CC LTRs; 5-bp target-site duplication. ;CC It encodes env-like protein (position 4045-4899): ;CC MFGAQSSDSLPEISRPTATECQEVKSDEALTEPNPDWALVLVKDPSPPLIIEVEDETLPSIDSVQNPKPK ;CC DPEATPSQPSVASRLRKRKSSAADPRIKRMKQGKGVTGSSSFDGIRFVSTEAEKRYAQFSQRNFIEEVEL ;CC SRKTNEAAREFIKQAGLIRTVTKFNPFTQNLVFEFWANLPTMKVDTYMVKVLVRNREYELSPGKINEMYG ;CC LPSVDARQQRMDIAGLVDEQVAEFLTGGKVSVLSKLQVSAFTPTSLELFKLCCSNSSPTSNAGYAQPDRL ;CC YITFL ;CC Gag and RT portions of the polyprotein are damaged by multiple ;CC mutations. ;XX ;DR Positions 5435 174 Accession No AC007261 GenBank (rel. 116.0) ;XX ;SQ Sequence 5262 BP; 1597 A; 967 C; 1258 G; 1440 T; 0 other; ATCOPIA41I attggtatcagagctgacacctaacacaagtggtatctgttcaacaggtgagatcttgctacagggtaat ggagaaatcacaacagtacgttacaatacaacagccattgaagttggatgctgagcattatggctactgg aaggtgtctatccgataggctatccaaagtgctaaaatggatgcgtggttcgcagtggaagaaggatgga aagctccgatggtcatggatgccaaggggttagaaataccaaaatctaagaaggattggactactgaaga gaagacagctgctaagaacaactcaacggccttgtcaatcatcttcagatcattgccaatgagtcaattc acgcatgtgcaagggagcacatcagcaaaggaagcatgtgacattctagaaacaacctttgagggaacca gtaatgtgaagaggaccagattggatattttagcgtctgaatttgaaaacttgacaatggagaatgaaga gtcgattgaggaattcagcagtcggctgagttcaatttcctagtaaactgtcgtcttgggaaaaacgtac aaggacaagaagctggtcagcagtcggaaccaaggatttggataaacttttaaccatgggcagaacgtct aatgttacgtggggtcttggatacaatggaggaaatacaaaaggtgagactcagtttgtcaaaggatcca cttcagacgataaatctcaggtcaaacccacaaccactgttcggaatctgtttcgctctaagcctaaacg agcatctcaggcttacaacttgagacaaacttacttcaaacctgagttcagaagcaagagaacaggatgc tggtactgtggaggtctgagtcactacaaagcagactgctacaactacttgaaacatgttgttcagacta ggaggaattatcaagtgggtgctcaaggacgacgagtcagacaagtgtatgtcaagaaagaacatctata gtgtcatgttactcaaacatcagcgaatgcagaactcaaggatctgatgtggtgctttgatagtggatgc tccagacacatgactggaacactagacaatcttgctggatataaggatgtgccatctaggaaagtcagat ttggagatggaggtcatgccttgatcaaaggaaagggatatacttccggacaagccttgcctcatctaac cgatgtatatcatgttgatggacttaaggcaaatctgatcagtatcagtcaactgtgtgacgatggtttg agtgttttctttacacaaacggaatgcaaagcctttgacaaacatggatttgtaaagatggaaggacacc gtgctgcaaataactgttacatgtggaatccagaagagtcatgctacactgcatcacagatcgatcaatc tacttcagaagatcaatcgctagtgtctctgctagaatctgatcatatgggtgaagccatgagttcggtt caggagtttaccatatacacaatgagctggcaggctccattcaagttcacaatcaacaaggtatgcaatt gtttagcttggtatctgaccagtctgtatggcttacttgtctcaggtggttggtgggaaggtcagctgat ctcaggaaacaagcaatctcagttccagttcctcaaacacacggttcacgtcatctcacaaccaatacag tgtggaatctcattaacactagtgtcatgaatgagattcaagggggaagagtgatcttggattcttcgtg tgttaacaattaggaagatgcaatggagtgggaactgaacttacttaagtctgtcaagctattgggatct gatatctgcaatcagatcattgatgaagccggtgttgcaatccgtcttagacatctgctgttggctcagg gctatattcggatggaagacgagtcaaagattgatacacatcttgcttgatgtgaatctatcaggtttct gctaggatgtgtgtgtgcaacacagttctatgtttatcagatggtactccagaaagggatcttgagtagt gaaccccagagggaatggtttgagagtcacccaagagcattcggtgttccgggacatccatactcggctc atagattgaaaacagttgtctactgcttaaagcagcttccggagaaaatgtgttgtatggctcgacaaat caaacacttgtacaagcttttgttgaacttattaccagagagtttgaagtaagtatgtacggagttctga ggtacatgcagggcatacagattaagcaaactgatgagggcatatctatgtcgcagaatatatacgcaag aacaatgattgagaagttcaaactggatgcacaagagattgtcacaacaccgatgaagatctcgacaaga cttactgcagatgagagaggaggagatgtaaatgttagtatgtatcaggggatgatcgagagtcttcagt acttgactgtgagtagaccagatatctgtcatgcagtgaatgtgtgtgctcagtatcaagtcaaccccaa gatgtcgcacttgtcagctgtaagaagaattctcaagtatgtgaatggtataccaactttcgagctgtac tacaccaaggacactgacaatagactgaagggatattgtgctgcggattgggcttgatctttggatgaca tacggggatcacttagaggatgctattttgttggaaacaacatggtgtcttggaagagcatgaagcagaa cagtcagcttctatcaactgctgaagcagagctaagttctttggagagttcgagttctcaacttgtacga ctgaaacagctcatagaggagtgtggtatgatctctgattttccagtactgtattgcaataatcatagtg ctatacattgtttccaagaacctgctaggaagtctcgtacaatgcacatagatcataaacataactatat tcatgaattggttaaggagaaactaatagcaattgaacatgtgggtactaaagctcaactagctgatgtg tttatcaaacctctgatgtctaacaaattatgtactctacgaatgttcattggaatgtttgaactataat tgtgtttgagttgtgctgatctagaatagggacctgaagcaagaacaagtcatggaaatccaaagatgca tagaggatcagcacttagcaaagtcatgtggaaaatagttgcatgtcatgccggttcaaatcagacgtaa aaagttgtcgtctaacaggaggttaaagagctgagaagatcaacaaactgaatgaacttggtacacaaaa aaaaaaaaaaatgtgtatcaagttcaccaggttcgaatatcaagcaattgagaagtcaagtgatattgct gatataacaaaataagggagtaattcaaaagaattcatatcatcacgcccctgtttagtcaaactatctt caaaggacattccagctgcctgttacacgttgatctgattcatgagagctaaaggcatgacagtgtgaaa gactagccactgaataatgagctgattcatcaacgatctgattggttatgacagtttcatgcggaagtcg tgaacacctgattggcacaaagcacattttcaagtactaggaagaggtaaactttgaaatcagtgttgga aagcttttaccctcatgtgtcaattagctgtttaggtcactaaactagttcaggctataaaatgttcaat gttgctctgaatgtgtttgaaatttaatcacgtgtttgattgaaaattctcttggcaaagaagcacttat gtgtttgttaagtgtttcagaatattaaaacagtttgggcccaagcctgtttcaagcccacagaatttca aggaggagtgctcgagtattggagggaaaaagaggagttagggtttgaggagtcaaatcaatttcttatt tggaagtcgagaaggcaatcccctgtgttcaacgcaatttcgagtgagatcgagcatgaaatcacttctc tccggtctgcaacgcctggttcaatagaaagccgagtccgcatcttctgcagacatgttcggtgcacaat ctagtgattcgttgccagagatttcacggccgactgcaacagaatgtcaagaggtgaaatccgatgaagc actcactgaacccaaccctgattgggctctagttctcgtcaaagacccatcgcctccactcatcatcgag gttgaggatgagactctgccttcaatcgacagtgttcagaaccctaaaccgaaggatcctgaggctaccc cctcgcaaccctctgttgcatctcgattgcgcaagaggaagtcatctgctgcggatccacgcatcaaaag gatgaagcagggaaagggagttaccggttcatcttccttcgatggaattcgatttgtctctacggaggct gaaaagaggtatgctcaattctctcaacgaaatttcattgaggaagtagaactgtctaggaagacaaatg aggcagctagggagtttataaagcaggcaggactgattcgaacggttactaagttcaacccgttcactca gaatctagtgtttgagttctgggctaatctgcccactatgaaggtagacacgtatatggtcaaagtcttg gtgcgcaatcgggagtatgagctctcacctgggaagatcaacgagatgtatggtctcccttctgttgatg ctagacagcagcggatggatatcgctggtctggttgatgaacaagtggctgaatttctcactggtgggaa agtcagtgttctgagcaagcttcaggtgagtgcctttacacctacgagtttggaactgtttaaactctgc tgctcaaattcgtctcccacatccaacgctgggtatgctcagcctgatcgattgtatattacatttcttt gattgagtatttgatttttgactaagttctgtgctcaagcagggggagataaggccccttcggactccgt tgatgctgggggagattaagttgtgggggagctgtgttgtttaagtttttaattgttataagcttcattg tatttcagaccaaaacagtttcttttgtgtttttgtttaaaccgatgattatatcatcgtaaacatgggt ctgtaatatttttaacacaatgtttactttcagactaatcatttatgctagatgatgtttctagagtatg tgtgttatgtctccgatttgagtttcaggttatatcaataaaggagtgcttgagtatcaaactcagtcaa aaagggggagat1