LOCUS HM582658 7483 bp DNA linear VRL 03-JUL-2013 DEFINITION Avian leukosis virus strain TW-3593, complete genome. ACCESSION HM582658 VERSION HM582658.1 KEYWORDS . SOURCE Avian leukosis virus ORGANISM Avian leukosis virus Viruses; Retro-transcribing viruses; Retroviridae; Orthoretrovirinae; Alpharetrovirus. REFERENCE 1 (bases 1 to 7483) 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 7483) 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epidemiological survey for Avian leukosis virus from Taiwan country chickens and egg-type chickens in Taiwan JOURNAL Unpublished REFERENCE 3 (bases 1 to 7483) AUTHORS Chang,S.W. and Wang,C.H. TITLE Direct Submission JOURNAL Submitted (22-JUN-2010) School of Veterinary Medicine, National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..7483 /mol_type="genomic DNA" /country="Taiwan" /collection_date="27-Dec-2008" /host="Gallus gallus (chicken)" /db_xref="taxon:11864" /strain="TW-3593" /proviral /organism="Avian leukosis virus" repeat_region 1..274 /rpt_type=long_terminal_repeat /note="5'" repeat_region 1..175 /note="U3" repeat_region 176..196 /note="R" repeat_region 197..274 /note="U5" gene 555..7043 /gene="env" CDS join(555..572,5253..7043) /codon_start=1 /protein_id="ADP21276.1" /gene="env" /translation="MEAVIKAFLTGYPGETSKKDSKEKPLATSKKDPEKTPLLPTRVN YILIIGVLVLCEVTGVRADVHLLEQPGNLWITWANRTGQTDFCLSTQSATSPFQTCLI GIPSPISEGDFKGYVSDDCTTLGTDRLVSSADITGGPDNSTTLTYRKVSCLLSKLNVP MWDEPPELQLLGSQSLPNITNIAQISGVAGGCVAFGPRSIDMLSDWSRPQLTRWLLLR RNYTEPFTVVTADRHNLFRGREYCGTYGYRFWKLYNCSQTGSRYRCGRVPVGGLPETG CTRTGGKWVNQSKEINETEPFSFTANCTASNLGNVSGCCGKTPTTLPPGAWIDSTRGG FTKPKALPPAIFLICGDRAWQGIPSRPVGGPCYLGKLTMLAPNHTDILKVLANSSRTG IRRKRSTSHLDDTCSDEVQLWGPTARIFASILAPGVAAAQALREIERLACWSVKQANL TTSLLGDLLDDVTSIRHAVLQNRAAIDFLLLAHGHGCEDVAGMCCFNLSDHSESIQKK FQLMKEHVNKIGVDSDPIGSWLRGLFEGIGEWAVHLLKGLLLGLVVILLLVVCLPCLL QFVSSSIRKMINNSISYHTEYKKLQKACRQPENGTV" /product="envelope protein" mat_peptide 5427..6431 /gene="env" /product="gp85 (SU) domain" mat_peptide 6432..7040 /gene="env" /product="gp37 (TM) domain" gene 555..2660 /gene="gag" CDS 555..2660 /codon_start=1 /protein_id="ADP21277.1" /gene="gag" /translation="MEAVIKVISSACKTHCGKTSPSKKEIGAMLSLLQKEGLLMSPSD LYSPGSWDPITAALSQRAMVLGKSGELKTWGLVLGALKAAREERVTSEQAKFWLGLGG GRVSPPGPECIEKPATERRIDKGEEVGETTVQRDAKMAPEGTATPKTVGTSCYHCGTA IGCNCATASAPPPPYVGSGLYPSLAGVGEQQGQGGDTPRGAEQPRAEPGHAGQAPGPA LTDWARIREELASTGPPVVAMPVVIKTEGPAWTPLEPKLITRLADTVRTKGLRSPITM AEVEALMSSPLLPHDVTNLMRVILGPAPYALWMDAWGVQLQTVIAAATRDPRHPANGQ GRGERTNLDRLKGLADGMAGNPEGQAALLRPGELVAITASALQAFREVARLAEPTDPW AEITQGPSESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRAAPST LTTPGEIIKYVLDRQKTAPLTDRGIAAAMSSAIQPLVMAVVNRERDGQTGSGGRARGL CYTCGSPGHYQAQCPKKRKSGNSRERCQLCDGMGHNAKQCRRRDGNQGQRPGRGLSSG PWPVSEQPAVSLAMTMEHKDRPLVRVILTNTGSHPVKQRSVYITALLDSGADITIISE EDWPTDWPVMEAANPQIHGIGGGIPMRKSRDMIEVGVINRDGSLERPLLLFPAVAMVR GSILGRDCLQGLGLRLTNL" /product="gag protein" gene <2678..5365 /gene="pol" CDS <2678..5365 /codon_start=1 /protein_id="ADP21278.1" /gene="pol" /translation="TVALHLAIPLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQL GHIEPSLSCWNTPVFVIRKASGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWP LMVLDLKDCFFSIPLAEQDREAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLV VGQVLEPLRLKHPSLCMLHYMDDLLLAASSHDGLEAAGEEVISTLERAGFTISPDKIQ REPGVQYLGYKLGSTYVAPVGLVAEPRIATLWDVQKLVGSLQWLRPALGIPPRLMGPF YEQLRGSDPNEAREWNLDMKMAWREIVQLSTTAALERWDPALPLEGAVARCEQGAIGV LGQGLSTHPRPCLWLFSTQPTKAFTAWLEVLTLLITKLRASAVRTFGKEVDILLLPAC FREDLPLPEGILLALRGFAGKIRSSDTPSIFDIARPLHVSLKVRVTDHPVPGPTVFTD ASSSTHKGVVVWREGPRWEIKEIADLGASVQQLEARAVAMALLLWPTTPTNVVTDSAF VAKMLLKMGQEGVPSTAAAFILEDALSQRSAMAAVLHVRSHSEVPGFFTEGNDVADSQ ATFQAYPLREAKDLHTALHIGPRALSKACNISMQQAREVVQTCPHCNSAPALEAGVNP RGLEPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVTQHGRVTSVAAQHHWATAIA VLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQGQAMVERANRLLKDKIR VLAEGDGFMKRIPTSKQGELLAKAMYALNHFERGENTKTPIQKHWRPTVLTEGPPVKI RIETGEWEKGWNVLVWGRGYAAVKNRDTDKVIWVPSRKVKPDISQKDEVTKKDEASPL FAGISDWIPWGDKQEGLQGETASNKQERPGEDTLAANES" /product="polymerase" repeat_region 7210..7483 /rpt_type=long_terminal_repeat /note="3'" repeat_region 7210..7384 /note="U3" repeat_region 7385..7405 /note="R" repeat_region 7406..7483 /note="U5" ORIGIN 1 tgtagtcaaa tagagccaga ggcaacttga atagtctaaa gaccaaataa ggaaaaagca 61 agacattcca tatgctcatt ggtggcaact agataaggaa ggaatgacgc aaggacatat 121 gggcgtagac gaagctatgc acgattatat aagctgttgc caccatcaaa taaacgccat 181 tttaccattc accacattgg tgtgcacctg ggtagatgga cagaccgttg agtccctaac 241 gattgcgaac acctgaatga agcagaaggc ttcatttggt gaccccgacg tgatcgttag 301 ggaatagtgg tcggccacag acggcgtggc gatcctgtcc tcatccgtct cgcttattcg 361 gggagcggac gatgacccta gtagaggggg ctgcggctta ggagggcaga agctgagtga 421 cgtcggaggg agctccacgg ccgggggcca agataaccta ccgagaactc agagagtcgt 481 tggaagacgg gaaggaagcc cgacgactga gcagttcacc ccaggcgcga ttccggtcgc 541 ccggtggatc aagcatggaa gccgtcataa aggtgatttc gtccgcgtgt aaaacccatt 601 gcgggaaaac ctctccttct aagaaggaaa taggggccat gttgtccctg ttacaaaagg 661 aagggttgct tatgtccccc tcagacttat attccccggg gtcctgggat cccattaccg 721 cggcgctctc ccagcgggca atggtacttg ggaaatcggg agagttaaaa acctggggat 781 tggttttggg ggcattgaag gcggctcgag aggaacgggt tacatctgag caagcaaagt 841 tttggttggg attaggggga gggagggtct ctcccccagg tccggagtgc atcgagaaac 901 cggcaacgga gcggcgaatc gacaaggggg aggaagtggg agaaacaact gtgcagcgag 961 atgcgaagat ggcgccggag ggaacggcca cacctaaaac cgttggcaca tcctgctatc 1021 attgcggaac agctattggc tgtaattgcg ccacagcttc ggcccctcct cctccttatg 1081 tggggagtgg tttgtatcct tccctggcgg gggtgggaga gcagcagggc caagggggtg 1141 acacacctcg gggggcggaa cagccaaggg cggagccagg gcacgcgggt caggcccctg 1201 ggccggccct gactgactgg gcaaggatca gggaggagct tgcgagtaca ggtccgcccg 1261 tggtggccat gcctgtagtg attaagacag agggacccgc ctggacccct ctggagccaa 1321 aattgatcac aagactggct gatacggtca ggaccaaggg cttacgatcc ccgatcacta 1381 tggcagaagt ggaagcgctt atgtcctccc cgctgctgcc gcatgacgtc acgaatctaa 1441 tgagagttat tttaggacct gccccatacg ccttatggat ggacgcttgg ggagtccaac 1501 tacagacggt tatagcggca gccactcgcg acccccgaca cccagcgaac ggtcaagggc 1561 ggggggaacg gactaacttg gatcgtttaa agggtttggc ggatggaatg gccggcaatc 1621 cagagggtca ggctgcatta ttaagaccgg gggaactggt tgctattacg gcgtcggctc 1681 tccaggcgtt tagagaggtc gctcggttgg cggaacccac agacccgtgg gcggaaatta 1741 cgcagggacc atctgagtcc tttgtggatt ttgccaatcg tcttataaag gcggttgaag 1801 ggtcagatct cccaccttcc gcgcgggctc cggtgatcat tgactgcttt aggcagaagt 1861 cacagccaga tattcagcag cttatacggg cagcaccctc cacgctgacc accccaggag 1921 agataatcaa atatgtgcta gacaggcaga agactgcccc tcttacggat cgaggcatag 1981 ccgcggccat gtcgtctgct attcagccct tagttatggc agtagtcaat agagagaggg 2041 atggacaaac tgggtcgggt ggtcgtgccc gagggctctg ttacacttgt ggatccccgg 2101 gacattatca ggcgcagtgc ccgaaaaaac gaaagtcagg aaacagccgt gagcgatgtc 2161 agctgtgtga cgggatggga cacaacgcca aacagtgcag aaggcgggat ggcaaccagg 2221 gccaacgccc aggaagaggc ctctcttcgg ggccgtggcc cgtctctgag cagcctgccg 2281 tctcgttagc gatgacaatg gaacataaag atcgcccctt ggttagggtc attctgacta 2341 acactgggag tcacccggtc aaacagcgtt cggtgtatat caccgcgctg ttggactctg 2401 gagcggacat cactattatt tcagaggagg actggcccac cgattggcca gtgatggagg 2461 ccgcgaaccc gcagatccat gggataggag ggggaattcc catgcgaaaa tcccgggata 2521 tgatagaggt gggggttatt aaccgagacg ggtctttgga gcgacccctg ctcctcttcc 2581 ccgcagtagc tatggttaga gggagtatcc taggaagaga ttgtctgcag ggcctagggc 2641 tccgcttgac aaatttatag ggagggccac tgttcttact gttgcgctac atctggctat 2701 tccgctcaaa tggaagccag accacacgcc tgtgtggatt gaccagtggc cccttcctga 2761 aggtaaactt gtagcgctaa cgcaattagt ggaaaaagaa ttacagttag gacatataga 2821 accttcactt agttgttgga acacacctgt ctttgtgatc cggaaggctt ccgggtctta 2881 tcgcttattg catgacttgc gcgctgttaa cgccaagctt gttccttttg gggccgtcca 2941 acagggggcg ccagttctct ccgcgctccc gcgtggctgg cccctgatgg tcctagacct 3001 caaggattgc ttcttttcta ttcctcttgc ggaacaagat cgcgaagctt ttgcatttac 3061 gctcccctct gtgaataacc aggcccccgc tcgaagattc caatggaagg tcttgcccca 3121 agggatgacc tgttctccca ctatctgtca gttggtagtg ggtcaggtac ttgagccctt 3181 gcgactcaag cacccatctc tgtgcatgtt gcattatatg gatgatcttt tgctagccgc 3241 ctcaagtcat gatgggttgg aagcggcagg ggaggaggtt atcagtacat tggaaagagc 3301 cgggttcacc atttcgcctg ataagatcca gagggagccc ggagtacaat atcttgggta 3361 caagttaggc agtacgtatg tagcacccgt aggcctggta gcagaaccca ggatagccac 3421 cttgtgggat gttcaaaagc tggtggggtc actccaatgg cttcgcccag cgttaggaat 3481 cccgccacga ctgatgggcc ccttttatga gcagttacga gggtcagatc ctaacgaggc 3541 gagggaatgg aatctagaca tgaaaatggc ctggagagag atcgtacagc ttagcaccac 3601 tgctgccctg gaacgatggg accctgccct gcctctggaa ggagcggtcg ctagatgtga 3661 acagggggca ataggggtcc tgggacaggg actgtccacg cacccaaggc catgtttgtg 3721 gttattctcc actcaaccca ccaaggcgtt tactgcttgg ttagaagtgc tcaccctttt 3781 gattactaaa ctacgcgctt cggcagtgcg aacctttggc aaggaggttg atatcctcct 3841 gttgcctgca tgctttcggg aggaccttcc gctcccggag gggatcctgt tagcccttag 3901 ggggtttgca ggaaaaatca ggagtagtga cacgccatct atttttgaca ttgcgcgtcc 3961 actgcatgtt tctctgaaag tgagggttac cgaccaccct gtaccgggac ccactgtctt 4021 caccgacgcc tcctcaagca cccataaggg ggtggtagtc tggagggagg gcccaaggtg 4081 ggagataaaa gaaatagctg atttgggggc aagtgtacaa caactggaag cacgcgctgt 4141 ggccatggca cttctgctgt ggccgacaac gcccactaat gtagtgactg actccgcgtt 4201 tgttgcgaaa atgctactca agatgggaca ggagggagtc ccgtctacag cggcggcttt 4261 tattttagag gatgcgttaa gccaaaggtc agccatggcc gccgttctcc acgtgcggag 4321 tcattctgaa gtgccagggt ttttcacaga aggaaatgac gtggcagata gccaagccac 4381 ctttcaagcg tatcccttga gagaggctaa agatcttcat actgctctcc atattggacc 4441 ccgcgcgcta tccaaagcgt gtaatatatc tatgcagcag gctagggagg ttgttcagac 4501 ctgcccgcat tgtaattcag cccctgcgtt ggaggccggg gtaaacccta ggggtttgga 4561 acccctacag atatggcaga cagactttac gcttgagcct agaatggccc cccgttcctg 4621 gctcgctgtt actgtggata ccgcctcatc ggcgatagtc gtaactcagc atggccgtgt 4681 cacatcggtt gctgcacaac atcattgggc cacggctatc gccgttttgg gaagaccaaa 4741 ggccataaaa acagataacg ggtcctgctt cacgtctaaa tccacgcgag agtggctcgc 4801 gagatggggg atagcacaca ccaccgggat tccgggtaat tcccagggtc aagctatggt 4861 agagcgggcc aaccggctcc tgaaagataa gatccgtgtg cttgcggagg gggacggctt 4921 tatgaaaaga atccccacca gcaaacaggg ggaactacta gccaaggcaa tgtatgccct 4981 caatcacttt gagcgtggtg aaaacacaaa aacaccgata caaaaacact ggagacctac 5041 tgttcttaca gaaggacccc cggttaaaat acgaatagag acaggggagt gggaaaaagg 5101 atggaacgtg ctggtctggg gacgaggtta tgccgctgtg aaaaacaggg acactgataa 5161 ggttatttgg gtaccctctc gaaaagttaa accggacatc tcccaaaagg atgaggtgac 5221 taagaaagat gaggcgagcc ctctttttgc aggcatttct gactggatac cctggggaga 5281 caagcaagaa ggactccaag gagaaaccgc tagcaacaag caagaaagac ccggagaaga 5341 cacccttgct gccaacgaga gttaattata ttctcattat tggtgtcctg gtcttgtgtg 5401 aggttacggg ggtaagagct gatgtccact tactcgagca gccagggaac ctttggatta 5461 catgggccaa ccgtacaggc caaacggatt tctgcctctc tacacagtca gccacctccc 5521 cttttcaaac atgtttgata ggtatcccgt cccctatttc cgaaggtgat tttaagggat 5581 acgtctctga tgattgcacc accttgggaa ctgaccggtt agtctcgtca gccgacatta 5641 ccggcggccc tgacaacagc accaccctca cttatcgaaa ggtttcatgc ttgctgtcaa 5701 agctgaatgt ccctatgtgg gatgagccac cggaactaca gctgctcggt tcccagtctc 5761 tccctaacat tactaatatt gctcagatct ctggcgtagc cgggggatgc gtagctttcg 5821 gcccccggag cattgacatg ctttcagatt ggtccaggcc gcaactcacg aggtggctcc 5881 tcctccgccg caactacaca gaaccgttta cggtggtgac agcggataga cacaatcttt 5941 ttagggggag ggagtactgc ggtacatatg gttacagatt ctggaaactg tataattgct 6001 cacagacagg ttctaggtac cgctgtggac gcgtgcctgt cgggggcctc cctgagaccg 6061 ggtgcacacg cacaggaggt aaatgggtta atcagtcaaa ggaaattaat gagacggagc 6121 cgttcagttt tactgcgaac tgtacagcta gtaatttggg taatgtcagc ggatgttgtg 6181 ggaaaacgcc cacgactctc ccaccagggg cgtggattga cagcacacgg ggcggtttca 6241 ctaaaccaaa agcactacca cccgcaattt tcctcatttg tggggatcgc gcatggcaag 6301 gaattcccag tcgtccggta gggggcccct gctatttagg caagcttacc atgttagcac 6361 ccaaccatac agatattctc aaggtgcttg ccaattcatc gcggacaggt ataagacgta 6421 aacgaagcac ctcacacctg gatgatacat gctcagatga agtgcagctt tggggtccta 6481 cagcaagaat ctttgcatct atcttagccc cgggggtagc agctgcgcaa gccttaagag 6541 aaatcgagag actagcctgt tggtccgtta aacaggctaa cttgacaaca tcactcctcg 6601 gggacttatt ggatgatgtc acgagtattc gacacgcggt cctgcagaac cgagcggcta 6661 ttgacttctt gcttctagct cacggccatg gctgtgagga cgttgccgga atgtgttgtt 6721 tcaatctgag tgatcacagt gagtctatac agaagaagtt ccagctaatg aaggaacatg 6781 tcaataagat cggcgtggac agcgacccaa tcggaagttg gctgcgagga ttattcgagg 6841 gaatagggga atgggccgtt catttgctga aaggactgct tttggggctt gtagttatct 6901 tgttgctagt agtgtgcctg ccttgccttt tgcaatttgt gtccagtagc atccgaaaga 6961 tgattaataa ttcaatcagc tatcacacgg aatataagaa gttgcaaaag gcttgtaggc 7021 agcccgaaaa tggaacagtg taaagcagta cgtgggtggt ggtatgaaac ttgcgaatcg 7081 ggctgtaacg gggcaaggct tgactgaggg gaccatagta tgtataggcg aaaggcgggg 7141 cttcggttgt acgcggttag gagtcccctc aggatatagt agttgcgctt ttgcataggg 7201 agggggaaat gtagtcaaat agagccagag gcaacttgaa tagtctaaag accaaataag 7261 gaaaaagcaa gacattccat atgctcattg gtggcaacta gataaggaag gaatgacgca 7321 aggacatatg ggcgtagacg aagctatgca cgattatata agctgttgcc accatcaaat 7381 aaacgccatt ttaccattca ccacattggt gtgcacctgg gtagatggac agaccgttga 7441 gtccctaacg attgcgaaca cctgaatgaa gcagaaggct tca //