LOCUS HM582657 7749 bp DNA linear VRL 03-JUL-2013 DEFINITION Avian leukosis virus strain TW-3577, complete genome. ACCESSION HM582657 VERSION HM582657.1 KEYWORDS . SOURCE Avian leukosis virus ORGANISM Avian leukosis virus Viruses; Retro-transcribing viruses; Retroviridae; Orthoretrovirinae; Alpharetrovirus. REFERENCE 1 (bases 1 to 7749) AUTHORS Chang,S.W., Hsu,M.F. and Wang,C.H. TITLE Gene detection, virus isolation, and sequence analysis of avian leukosis viruses in Taiwan country chickens JOURNAL Avian Dis. 57 (2), 172-177 (2013) PUBMED 24689170 REFERENCE 2 (bases 1 to 7749) AUTHORS Chang,S.W. and Wang,C.H. TITLE Virus isolation, sequence analysis and epidemiological survey for Avian leukosis virus from Taiwan country chickens and egg-type chickens in Taiwan JOURNAL Unpublished REFERENCE 3 (bases 1 to 7749) AUTHORS Chang,S.W. and Wang,C.H. TITLE Direct Submission JOURNAL Submitted (22-JUN-2010) School of Veterinary Medicine, National Taiwan University, No 1, Sec 4, Roosevelt Rd., Taipei 10617, Taiwan FEATURES Location/Qualifiers source 1..7749 /mol_type="genomic DNA" /country="Taiwan" /collection_date="24-Oct-2008" /host="Gallus gallus (chicken)" /db_xref="taxon:11864" /strain="TW-3577" /proviral /organism="Avian leukosis virus" repeat_region 1..322 /rpt_type=long_terminal_repeat /note="5'" repeat_region 1..223 /note="U3" 5'UTR 224..621 repeat_region 224..244 /note="R" repeat_region 245..322 /note="U5" gene 622..7134 /gene="env" CDS join(622..639,5320..7134) /codon_start=1 /protein_id="ADP21273.1" /gene="env" /translation="MEAVIKAFLTGHPGKVSKKDSKKKPPATSKKDPEKTPLLPTRVN YILIIGVLVLCGVTGVRADVHLLEQPGNLWITWANRTGQTDFCLSTQSATSPFQTCLI GIPSPISEGDFKGYVSDNCTTLGTDRLVSSASITGGPDNSTTLTYRKVSCLLLKLNVS MWDEPPELQLLGSQSLPNITNITQISGVTGGCVGFRPGGIPWYLGWTRQEATRILLRQ SSLSNSTEPFTVVTADRHNLFMGSEYCGAYGYRFWEIYNCSQEQGRGQQQYRCGKARS PRPGSPETQCIRRGGKWVNQSQDINETKPFSFTVNCTASNLRNASGCCGKTGTILPGA WIDSTKGNFTKPKALPPGIFLICGDRAWQGIPSRPVGGPCYLGKLTMLAPNHTDILKI LANSSRTGIRRRRSVSHLDDTCSDEVQLWGPTARIFASILAPGVAAAQALREIERLAC WSVKQANLTTSLLGDLLDDVTSIRHAVLQNRAAIDFLLLAHGHGCEDVAGMCCFNLSD HSESIQKKFQLMKEHVNKISVDSDPIGSWLRGLFGGIGEWAVHLLKGLLLGLVVILLL VVCLPCLLQCMSSSIRKMVDNSIGYHTEYKKLQKACRQPENGAV" /product="envelope protein" mat_peptide 5494..6522 /gene="env" /product="gp85 (SU) domain" mat_peptide 6523..7131 /gene="env" /product="gp37 (TM) domain" gene 622..2727 /gene="gag" CDS 622..2727 /codon_start=1 /protein_id="ADP21274.1" /gene="gag" /translation="MEAVIKVISSACKTYCGKTSPSKKEIGTMLSLLQKEGLLMSPSD LYSPGSWDSITAALSQRAMVLGKSGELKTWGLVLGALKAAREEQVTSEQAKFWLGLGG GRVSPPGPECIEKPATERRIDKGEEVGETTVQRDAKMAPEETATPKTVGTSCYHCGTA IGCNCATASAPPPPYVGSGLYPSLAGVGEQQGQEGGTPPGAEQPRAEPGHAGRAPGPA LTDWARVREELASTGPPVVAMPVVIKTEGPAWTPLEPKLITRLADTVRTKGLRSPITM AEVEALMSSPLLPHDVTNLMRVILGPAPYALWMDAWGVQLQTVIAAATRDPRHPANGQ GRGERTNLDRLKGLADGMVGNPQGQAALLRPGELVAITASALQAFREVARLAEPAGPW ADITQGPSESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRAAPST LTTPGEIIKYVLDRQKTAPLTDRGIAAAMSSAIQPLVMAVVNRERDGQTGSGGRARGL CYTCGSPGHYQAQCPKKRKSGNSRERCQLCDGMGHNAKQCRKRDGNQGQRPGRGLSSG PWPGPEPPAVSLAMTMEHKDRPLVRVILTNTGSHPVKQRSVYITALLDSGADITIISE EDWPTDWPVVDTANPQIHGIGGGIPMRKSRDMIELGVINRDGSLERPLLLFPAVAMVR GSILGRDCLQGLGLRLTNL" /product="gag protein" gene <2745..5432 /gene="pol" CDS <2745..5432 /codon_start=1 /protein_id="ADP21275.1" /gene="pol" /translation="TVALHLAIPLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQL GHIEPSLSCWNTPVFVIRKASGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWP LMVLDLKDCFFSIPLAEQDREAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLV VGQVLEPLRLKHPSLCMLHYMDDLLLAASSHDGLEAAGEEVISTLERAGFTISPDKIQ REPGVQYLGYKLGSTYVAPVGLVAEPRIATLWDVQKLVGSLQWLRPALGIPPRLMGPF YEQLRGSDPNEAREWNLDMKLAWREIVQLSTTAALERWDPALPLEGAVARCEQGAIGV LGQGLSMHPRPCLWLFSTQPTKAFTAWLEVLTLLITKLRASAVRTFGKEVDILLLPAC FREDLPLPEGILLALKGFAGKIRNSDTPSIFDIARPLHVSLKVRVTDHPVPGPTVFTD ASSSTHKGVVVWREGPRWEIKEIADLGASVQQLEARAVAMALLLWPTTPTNVVTDSAF VAKMLLKMGQEGVPSTAAAFILEDALSQRSAMAAVLHVRSHSEVPGFFTEGNDVADSQ ATFQAYPLREAKDLHTALHIGPRALSKACNISMQQAREVVQTCPHCNSAPALEAGVNP RGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVTQHGRVTSVAAQHHWATAIA VLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQGQAMVERANRLLKDKIR VLAEGDGFMKRIPTSKQGELLAKAMYALNHFERGENTKTPIQKHWRPTVLTEGPPVKI RIETGEWEKGWNVLVWGRGYAAVKNRDTDKVIWVPSRKVKPDITQKDEVTKKDEASPL FAGISDWAPWKGEQEGLQEEAASNKQERPGEDTLAANES" /product="polymerase" 3'UTR 7135..7650 misc_feature 7175..7267 /note="DR1" misc_feature 7268..7414 /note="E or XSR element" repeat_region 7426..7749 /rpt_type=long_terminal_repeat /note="3'" repeat_region 7426..7650 /note="U3" repeat_region 7651..7671 /note="R" repeat_region 7672..7749 /note="U5" ORIGIN 1 tgtagtgtta tgcaatactc ttatgtaacg atgaaacagc aatatgcctt ataaggagaa 61 aaaggcactg tacacgtcga ttggtggaag caaggtggta tgatcgtggt atgatcatgc 121 cttattagga aggcaacaga ggggtctgac gtggattgga cgatcccctt agttccgcat 181 tgcagagata ttgtatttaa gtgcctagcc tgatacaata aacgccattt taccatccac 241 cacattggtg tgcacctggg ttgatggccg gaccgtcgat tccctgacga ttgcgaacac 301 ctgaatgaag ctgaaggctt catttggtga ccccgacgtg atagttaggg aatagtggtc 361 ggccacagac ggcgtggcga tcctgtcctc atccgtctcg cttattcggg gagcgggcga 421 tgaccctagt agagggggct gcggcttagg agggcagaag ctgagaggcg tcggagggag 481 ctctactgca gggagccaac ataccctacc gagcactcag agagtcgttg gaagacgagg 541 aggaagcccg acgactgagt ggaccgcacc aggcgcggtt ccggttgctc tgcgtgattc 601 cgatcgcccg gggaatccag catggaagcc gtcataaagg tgatttcgtc cgcgtgtaaa 661 acctattgcg ggaaaacctc tccttctaag aaggaaatag ggaccatgtt gtccctgtta 721 caaaaggaag ggttgcttat gtctccctca gacttatatt ccccggggtc ctgggattcc 781 attaccgcgg cgctctccca gcgggctatg gtacttggga aatcgggaga gttaaaaacc 841 tggggattgg ttttgggggc attgaaagcg gcccgagagg aacaggttac atccgagcaa 901 gcaaagtttt ggttgggatt agggggaggg agggtctctc ccccaggtcc ggagtgcatc 961 gagaaaccag caacggagcg gcgaatcgac aagggggagg aagtgggaga aacaactgtg 1021 cagcgagacg cgaagatggc gccggaggaa acggccacac ctaaaaccgt tggcacatcc 1081 tgctatcatt gcggaacagc tattggctgt aattgcgcca cagcctcggc tcctcctcct 1141 ccttatgtgg ggagtggttt gtatccttcc ctggcggggg tgggagagca gcagggccag 1201 gagggtggca cgcctccggg ggcggaacag ccaagggcgg agccagggca tgcgggtcgg 1261 gctcctgggc cggccctgac tgattgggca agggtcaggg aggagcttgc gagtaccggt 1321 ccgcccgtgg tggccatgcc tgtagtgatt aagacagagg gacccgcctg gactcctctg 1381 gagccaaaat tgatcacaag actggctgat acggtcagga ccaagggctt acgatccccg 1441 atcactatgg cagaagtgga agcgcttatg tcctccccgc tgctgccgca tgacgtcacg 1501 aatctaatga gagttatttt aggacctgcc ccatatgcct tatggatgga cgcttggggg 1561 gtccaactcc agacggttat agcggcagcc actcgcgacc cccgacaccc agcgaatggt 1621 caagggcggg gggaacggac taacttggat cgcttaaagg gtttagctga cgggatggtg 1681 ggcaacccac agggtcaagc cgcgctatta agaccggggg aattggttgc tattacggcg 1741 tcggctctcc aggcgtttag agaggttgcc cggctggcgg aacctgctgg tccatgggcg 1801 gacatcacgc agggaccatc tgagtccttt gttgattttg ccaatcggct tataaaggcg 1861 gttgaggggt cggatctccc gccttccgcg cgggctccgg tgatcattga ctgctttagg 1921 cagaagtcac agccagatat ccagcagctt atacgggcag caccctccac gctgaccacc 1981 ccaggagaga taatcaaata tgtgctagac aggcagaaga ctgcccctct tacggatcga 2041 ggcatagccg cggccatgtc gtctgctatt cagcctttag ttatggcagt agtcaataga 2101 gagagggatg gacaaactgg gtcgggtggt cgtgcccgag ggctctgcta cacttgtgga 2161 tccccgggac attatcaggc gcagtgcccg aaaaaacgaa agtcaggaaa cagccgtgag 2221 cgatgtcagt tgtgtgacgg gatgggacac aacgctaaac agtgtaggaa gcgggatggc 2281 aaccagggcc aacgcccagg aagaggtctc tcttcggggc cgtggcccgg ccctgagccg 2341 cctgccgtct cgttagcgat gacaatggaa cataaagatc gccccttggt tagggtcatc 2401 ctgactaaca ctgggagtca tccggtcaaa cagcgttcgg tgtatatcac cgcgctgttg 2461 gactccggag cggacatcac tattatttcg gaggaggatt ggcctactga ttggccggtg 2521 gtggacaccg cgaacccgca gatccatggc ataggagggg gaattcccat gcgaaaatct 2581 cgtgacatga tagagttggg ggttattaac cgagacgggt ctctggagcg acccctgctc 2641 ctcttccccg cagtagctat ggtcagaggg agtattctgg ggagagattg tctgcagggc 2701 ctagggctcc gcttgacaaa tttataggga gggccactgt tcttactgtt gcgctacatc 2761 tggctattcc gctcaaatgg aagccagacc acacgcctgt gtggattgac cagtggcccc 2821 ttcctgaggg taaacttgta gcgctaacgc aattagtgga aaaagaatta cagttaggac 2881 atatagaacc ttcacttagt tgttggaaca cacctgtctt tgtgatccgg aaggcttccg 2941 ggtcttatcg cttattgcat gacttgcgcg ctgttaacgc caagcttgtt ccttttgggg 3001 ccgtccaaca gggggcgcca gttctttccg cgctcccgcg tggctggccc ctgatggtcc 3061 tagacctcaa ggattgcttc ttttctattc ctcttgcgga acaagatcgc gaagcttttg 3121 catttacgct cccctctgtg aataaccagg cccccgctcg aagattccaa tggaaggtct 3181 tgccccaagg gatgacctgt tctcccacta tctgtcagtt ggtagtgggt caggtacttg 3241 agcccttgcg actcaagcac ccatctctgt gcatgttaca ttatatggat gatcttttgc 3301 tagccgcctc aagtcatgat gggttggaag cggcagggga ggaggttatc agtacactgg 3361 aaagagccgg attcaccatt tcgcctgata agatccagag ggagcccgga gtacaatatc 3421 ttgggtacaa gttaggcagt acgtatgtag cacccgtagg cctggtagca gaacccagga 3481 tagccacctt gtgggatgtt caaaagctgg tggggtcact tcagtggctt cgccctgcat 3541 taggaatccc gccacgactg atgggcccct tttatgagca gttgcgaggg tcagacccta 3601 acgaggcgag ggaatggaat ctagacatga aattggcctg gagagagatt gtacagctta 3661 gcaccactgc tgccttggaa cgatgggacc ctgccctgcc tctggaagga gcggtcgcta 3721 gatgtgaaca gggggcaata ggggtcctgg gacagggact gtccatgcac ccaaggccat 3781 gtttgtggtt attctccacc caacccacca aggcgtttac tgcttggtta gaagtgctca 3841 cccttttgat tactaagcta cgtgcttcgg cagtgcgaac ctttggcaag gaggttgata 3901 tcctcctgtt gcctgcatgc tttcgggagg accttccgct cccggagggg atcctgttag 3961 cccttaaggg gtttgcagga aaaatcagga atagtgacac gccatctatt tttgacattg 4021 cgcgtccact acatgtttct ctgaaagtga gggttaccga ccaccctgtg ccgggaccca 4081 ctgtttttac cgacgcctcc tcaagcaccc ataagggggt ggtagtctgg agggagggcc 4141 caaggtggga gataaaagaa atagctgatt tgggagcaag tgtacaacaa ctggaagcac 4201 gcgctgtggc catggcactt ctgctgtggc cgacaacgcc cactaatgtg gtgactgact 4261 ccgcgtttgt tgcgaaaatg ttactcaaga tgggacagga gggagtcccg tctacagcgg 4321 cggcttttat tttagaggat gcgttaagcc aaaggtcagc catggccgcc gttctccacg 4381 tgcggagtca ttctgaagtg ccagggtttt tcacagaagg aaatgacgtg gcagatagcc 4441 aagccacctt tcaagcgtat cccttgagag aggctaaaga tcttcatacc gctctccata 4501 ttggaccccg cgcgctatcc aaagcgtgta atatatctat gcagcaggct agggaggttg 4561 ttcagacctg cccgcattgt aattcagccc ctgcgttgga ggccggggta aaccctaggg 4621 gtttgggacc cctacagata tggcagacag actttacgct tgagcctaga atggcccccc 4681 gttcctggct cgctgttact gtggataccg cctcatcagc gatagttgta actcagcatg 4741 gccgtgtcac atcggttgct gcgcaacatc attgggccac ggctatcgcc gttttgggaa 4801 gaccaaaggc cataaaaaca gataacgggt cctgcttcac gtctaaatct acgcgggagt 4861 ggctcgcgag atgggggata gcacacacca ccgggattcc gggtaattcc cagggtcaag 4921 ctatggtaga gcgggccaac cggctcctga aagataagat ccgtgtgctc gcggaggggg 4981 acggctttat gaaaagaatc cccaccagca aacaggggga actactagcc aaggcaatgt 5041 atgccctcaa tcactttgag cgtggtgaaa acacaaaaac accgatacaa aaacactgga 5101 gacctaccgt tcttacggaa ggacccccgg ttaaaatacg aatagagaca ggggagtggg 5161 aaaaaggatg gaacgtgctg gtctggggac gaggttatgc cgctgtgaaa aacagagaca 5221 ctgataaggt tatttgggta ccctctcgaa aagttaaacc ggacatcacc caaaaggatg 5281 aggtgactaa gaaagatgag gcgagccctc tttttgcagg catttctgac tgggcaccct 5341 ggaaaggtga gcaagaagga ctccaagaag aagccgccag caacaagcaa gaaagacccg 5401 gagaagacac ccttgctgcc aacgagagtt aattatattc tcattattgg tgtcctggtc 5461 ttgtgtgggg ttacgggggt aagagctgat gttcacttac tcgagcagcc agggaacctt 5521 tggattacat gggccaaccg tacaggccaa acggatttct gcctctctac gcagtcagcc 5581 acctcccctt ttcagacatg tttgataggt atcccgtccc ctatttccga aggtgatttt 5641 aagggatacg tctctgataa ttgcaccacc ttgggaactg accggttagt ctcgtcagcc 5701 agcattaccg gcggccctga caacagcacc actctcactt atcgaaaggt ttcatgcttg 5761 ctgttaaagc tgaatgtctc tatgtgggat gagccaccgg aactacagct gctaggctcc 5821 cagtctctcc ctaacattac taatattact caaatttctg gtgtaactgg aggatgcgta 5881 ggcttcagac caggagggat cccctggtat ctaggatgga ctagacagga agccacgcgg 5941 atcctcctta gacaatcctc cctttctaat tccacggaac catttacggt agtgacagcg 6001 gatagacaca atctttttat ggggagtgag tactgtggtg catatggtta cagattttgg 6061 gaaatatata actgctcaca agagcagggc cggggccaac agcaataccg ctgtggcaag 6121 gcacgcagcc cccgcccggg ttctcctgaa acccagtgca taaggagagg aggtaaatgg 6181 gttaatcaat cacaagatat taatgaaacg aagccgttca gttttacggt gaactgcaca 6241 gctagtaatt tacgtaatgc cagtgggtgc tgcggaaaaa caggcacgat cctcccaggg 6301 gcatggatcg acagcacaaa aggtaatttc accaaaccaa aagcgctacc acctggaatt 6361 ttcctcattt gtggggatcg cgcatggcaa gggattccca gtcgtccggt agggggcccc 6421 tgctatttag gcaagcttac catgctagca cctaaccata cagatattct caaaattctt 6481 gctaattcat cacggacagg tattagacgc agacgaagcg tctcacacct ggatgataca 6541 tgctcagatg aagtacagct ttggggtcct acagcaagaa tctttgcatc tatcttagcc 6601 ccgggggtag cagctgcgca agccttaaga gaaatcgaga gactagcctg ttggtccgtt 6661 aaacaggcta acttgacaac atcgctcctc ggggacttat tggatgatgt cacgagtatt 6721 cgacacgcgg tcctgcagaa ccgagcggct attgacttct tgcttctagc tcacggccat 6781 ggctgtgagg acgttgccgg aatgtgttgt ttcaatctga gtgatcacag tgagtctata 6841 cagaagaagt tccagctgat gaaggaacat gtcaataaga tcagcgtaga cagcgaccca 6901 atcggaagtt ggctgcgagg actattcggg ggaatagggg aatgggccgt tcatttacta 6961 aaagggctgc ttttagggct tgtagttatc ttattgctag tagtatgcct gccttgcctt 7021 ttgcagtgta tgtccagtag catccgaaag atggttgata attcaatcgg ctatcacacg 7081 gaatacaaga agttgcaaaa ggcttgtagg cagcccgaaa atggggcagt gtaaagcagt 7141 acatgagtag gggtaggaaa cttgcgaatc gggctgtaac ggggcaaggc ttgactgagg 7201 ggactgcagc atgtataggc gctgggcggg gcttcggttg tacgcggata ggaatcccct 7261 caggacaatt ctgcttggaa tatgatggca ccttccctgt tttgccctta gactattcaa 7321 gttgcctctg tggattagga ctagaggcgg ctcggatggt ctgatggcca aatagagcaa 7381 gctagatagg taactgtgaa atacgctttt gcatggggag ggggaaatgt agtgttatgc 7441 aatactctta tgtaacgatg aaacagcaat atgccttata aggagaaaaa ggcactgtac 7501 acgtcgattg gtggaagcaa ggtggtatga tcgtggtatg atcatgcctt attaggaagg 7561 caacagaggg gtctgacgtg gattggacga tccccttagt tccgcattgc agagatattg 7621 tatttaagtg cctagcctga tacaataaac gccattttac catccaccac attggtgtgc 7681 acctgggttg atggccggac cgtcgattcc ctgacgattg cgaacacctg aatgaagctg 7741 aaggcttca //