LOCUS KP284572 7581 bp DNA linear VRL 15-APR-2015 DEFINITION Avian leukosis virus subgroup J isolate PDRC-59831, complete genome. ACCESSION KP284572 VERSION KP284572.1 KEYWORDS . SOURCE Avian leukosis virus ev/J (ALV-J) ORGANISM Avian leukosis virus ev/J Viruses; Retro-transcribing viruses; Retroviridae; Orthoretrovirinae; Alpharetrovirus. REFERENCE 1 (bases 1 to 7581) AUTHORS Malhotra,S., Justice,J. IV, Lee,N., Li,Y., Zavala,G., Ruano,M., Morgan,R. and Beemon,K. TITLE Complete genome sequence of an american avian leukosis virus subgroup J isolate that causes hemangiomas and myeloid leukosis JOURNAL Genome Announc 3 (2) (2015) PUBMED 25858851 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7581) AUTHORS Malhotra,S., Justice,J. IV, Lee,N., Li,Y., Zavala,G., Ruano,M., Morgan,R. and Beemon,K. TITLE Direct Submission JOURNAL Submitted (17-DEC-2014) Biology, Johns Hopkins University, 3400 N Charles Street, Baltimore, MD 21218, USA FEATURES Location/Qualifiers source 1..7581 /mol_type="genomic DNA" /country="USA" /collection_date="30-Apr-2007" /host="Gallus gallus" /note="subgroup: J" /db_xref="taxon:1401444" /isolate="PDRC-59831" /proviral /organism="Avian leukosis virus ev/J" repeat_region 1..314 /rpt_type=long_terminal_repeat /note="5'LTR" repeat_region 1..213 /note="U3" 5'UTR 214..592 repeat_region 214..234 /note="R" repeat_region 235..314 /note="U5" gene 593..2698 /gene="gag" CDS 593..2698 /codon_start=1 /protein_id="AJG42160.1" /gene="gag" /translation="MEAVIKVISSACKTYCGKTSPSKKEIGAMLSLLQKEGLLTSPSD LYSPGSWDPITAALSQRTMILGKSGELKTWGLILGALKAAREEQVTSEQAKFWLGLGG GKVSPPGPECIEKPATERRIDKGEEARETTAQRDAMMAPEETVTPKTVGTSCYHCGTA IGCNCATASAPPPPYVGSGLYPSLAGVGEKQGQEGDTPPGAEQPRAEPGHAGQAPGPA LTDWARIREELASTGPPVVAMPVVIKTEGPTWTPLEPKLITRLADTVRTKGLRSPITM AEVEALMSSPLLPHDVTNLMRVILGPAPYALWMDAWGVQLQTVIAAATRDPRHPANGQ GRGERTNLDRLKGLADGMVGNPQGQAALLRPGELVAITASALQAFREVARLAEPAGPW ADITQGPSESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRAAPST LTTPGEIIKYVLDRQKTAPLTDQGIAAAMSSAIQPLVMAVVNRERDGQTGSGGRARGL CYTCGSPGHYQAQCPKKRKSGNSRERCQLCDGIGHNAKQCRKRDGNQGQRPGRGLSSG PWPGPEPPAVSLAMTMEHRDRPLVRVILTNTGSHPVKQRSVYITALLDSGADITIISE EDWPTDWPVVDTANPQIHGIGGGIPMRKSRDMIELGVINRDGSLERPLLLFPAVAMVR GSILGRDCLQGLGLRLTNL" /product="Gag" gene 2716..5337 /gene="pol" CDS 3025..5337 /codon_start=1 /protein_id="AJG42161.1" /gene="pol" /translation="MVLDLKDCFFSIPLAEQDREAFAFTLPSVNNQAPARRFQWKVLP QGMTCSPTICQLIVGQVLEPLRLRHPSLRMLHYMDDLLLAASSHDKLEAAGEEVISTL ERAGFTISPDKVQREPGVQYLGYKLGSTYVAPVGLVAEPRIATLWDVQKLVGSLQWLR PALGIPPRLMGPFYEQLRGTDPNEAREWNLDMKMAWREIVQLSTTAALERWDPALPLE GAVARCEQGAIGVLGQGLSTHPRPCLWLFSTQPTKAFTAWLEVLTLLIAKLRASAVRT FGKEVDILLLPACFREDLPLPEGILLALKGFAGKIRSSDTPSIFDIARPLHVSLKVRV TDHPVPGPTVFTDASSSTHKGVVVWREGPRWEIKEIADLGASVQQLEARAVAMALLLW PTTPTNVVTDSAFVAKMLLKMGQEGVPSTAAAFILEDALSQRSAMAAVLHVRSHSEVP GFFTEGNDVADSQATFQAYPLREAKDLHTALHIGPRALSKACNISMQQAREVVQTCPH CNSAPALEAGVNPRGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVTQHGRVT SVAAQHHWATAIAVLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQGQAM VERANRLLKDKIRVLAEGDGFMKRIPTSKQGELLAKAMYALNHFERGENTKTPIQKHW RPTVLTEGPPVKIRIETGEWEKGWNVLVWGRGYAAVKNRDTDKVIWVPSRKVKPDITQ KDEVTKKDEASPLFAGISDRAPWEGEQEGL" /product="Pol" gene 5267..6982 /gene="env" CDS 5267..6982 /codon_start=1 /protein_id="AJG42162.1" /gene="env" /translation="MRRALSLQAFLTGHPGKASRKDSKKKPPATSKKDPEKTPLLPSR GHFFFQMILVCMVIIFVVPGVGGVHLLQQPGNVWVTWANKTGQTDFCLSLQSATSPFR TCLIGIPQYPLNTFKGYVTNVTACNNDTDIASQTACLIKALNTTLPWDPQELDILGSQ MIKNGTKRTCVTFGSVCYEGNNGSRDCHNFDGNFNGTGGAEAELRDFIAKWKSDDPLI RPYVNQSWTMVSPINTESFSISSRYCGFTSNETRYYPKNVSDWCGSKRGKWSAGYRNG TECSSNTTDCGGNCTAEWNYYAYGFTFGKQPEILWNNGTAKALPPGIFLICGDRAWQG IPRNALGGPCYLGQLTMLSPNFTTWMTYGPNITGHRRSRRSVSHLSPNCSDEIQLWSV TARIFASFFAPGVAAAQALKEIERLACWSVKQANLTSLILNAMLEDTNSIRHAVLQNR AAIDFLLLAQGHGCQDVEGMCCFNLSDHSESIHKALQAMKEHTEKIRVEDDPIGDWFT RTFGSLGGWLAKGVKTLLFALLVIVCLLAIIPCIIKCFQDCLSRIMYQFMDERIRYHR IRERL" /product="Env" 3'UTR 6983..7482 repeat_region 7268..7581 /rpt_type=long_terminal_repeat /note="3'LTR" repeat_region 7268..7482 /note="U3" repeat_region 7483..7503 /note="R" repeat_region 7504..7581 /note="U5" ORIGIN 1 tgtagtactc ttatgtaacg atgaaacagc aaaatgcctt ataaggaaga aaaggcactg 61 tgcacgtcga ttggtagaag taaggtggta tgatcgtggc atgatcatgc cttattagga 121 aggcagcaga cgggtcttac atggattgga cgaactcctt aattccgcgt tgcagagata 181 ttgtatttaa gagcctagcc tgatacaata aacgccattt tacctcccac cacattggtg 241 tgcacctggg ttgatggccg gaccgtcgat tccctgacga ttgcgagcac ctgaatgaag 301 tgaaaggctt catttggtga ccccgacgtg atagttaggg aatagtggtc ggccacagac 361 ggcgtggcga tcctgtcctc atccgtctcg cttattcggg gagcgggcga tgaccctagt 421 agagggggct gcggcttagg agggcggaag ctgagtggcg tcggagggag ctctactgca 481 gggagccaac ataccctgcc gagcactcag agggtcgttg gaagacggga aggaagcccg 541 acgactgagt ggtctgcccc agacgtgatt ttggtcgcct ggaggatcaa gtatggaagc 601 cgtcataaag gtgatttcgt ccgcgtgtaa aacctattgc gggaaaacct ctccttctaa 661 gaaggaaata ggggccatgt tgtccctgtt acaaaaggaa gggttgctta cgtctccctc 721 agacttatac tccccggggt cctgggaccc cattaccgcg gcactctccc agcggacaat 781 gatacttgga aaatcggggg agttaaaaac ctggggattg attttggggg cactgaaggc 841 ggctcgagag gaacaggtta catctgagca agcaaagttt tggttggggc tagggggagg 901 gaaggtctct cccccaggtc cggagtgtat cgaaaaaccg gcgacggagc ggcggatcga 961 caaaggggag gaagcgagag agacaactgc gcagcgagat gcgatgatgg cgccggagga 1021 aacggtcaca cctaaaaccg ttggcacgtc ctgctatcat tgcggaacag ccattggctg 1081 taattgcgcc acagcctcgg ctcctcctcc tccttatgtg gggagtggtt tgtatccttc 1141 cctggcgggg gtgggagaga agcagggcca ggagggtgac acgcctccgg gggcggaaca 1201 gccaagggcg gagccagggc atgcgggtca ggcccctggg ccggccctga ctgactgggc 1261 aaggataagg gaggagcttg cgagcactgg tccgcccgtg gtggccatgc ctgtagtgat 1321 taagacagag ggacccacct ggacccctct ggagccaaaa ttgatcacaa gactggctga 1381 tacggtcagg accaagggct tacgatcccc gattactatg gcggaggtgg aagcgcttat 1441 gtcctccccg ctgctgccgc atgacgttac gaatctaatg agagttattt taggacctgc 1501 cccatatgcc ttgtggatgg acgcttgggg tgtccaacta cagacggtta tagcggcagc 1561 cactcgcgac ccccgacacc cagcgaatgg tcaagggcgg ggggaacgga ctaatttgga 1621 tcgcttaaag ggtttagctg atgggatggt gggcaacccg cagggtcagg ccgcattatt 1681 aagaccgggg gaattggttg ctattacggc atcggctctc caggcgttta gagaggttgc 1741 ccggctggcg gaacctgctg gtccatgggc ggacattacg cagggaccat ctgagtcctt 1801 tgttgatttc gccaatcggc ttataaaggc ggttgagggg tcagatctcc cgccttccgc 1861 gcgagctccg gtgatcattg actgttttag gcagaagtca cagccagata tccagcagct 1921 tatacgggca gcaccctcca cgctgaccac cccaggagag ataatcaaat atgtgctgga 1981 cagacagaag actgcccctc ttacggatca aggcatagcc gcggccatgt cgtctgctat 2041 ccagccctta gttatggcag tagtcaatag agagagggat ggacaaactg ggtcgggtgg 2101 tcgcgcccga gggctctgct acacttgtgg atccccggga cattatcagg cgcagtgccc 2161 gaaaaaacga aaatcaggaa acagccgtga gcgatgtcag ctgtgtgacg gaataggaca 2221 caacgctaaa cagtgtagga agcgggatgg caaccagggc caacgcccag gaagaggtct 2281 ctcttcgggg ccgtggcccg gccctgagcc gcctgccgtc tcgctagcga tgacaatgga 2341 acatagagat cgccccttgg ttagggtcat tctgaccaac actgggagtc atccggtcaa 2401 acagcgttcg gtgtatatca ccgcgctgtt ggactccggg gcagacatca ctattatttc 2461 ggaagaggac tggcctactg attggccggt ggtggacact gcgaacccgc agatccatgg 2521 cataggaggg ggaattccca tgcgaaaatc tcgtgacatg atagagttgg gggttattaa 2581 ccgagatggg tctttggagc gacccctgct cctcttcccc gcagtagcta tggttagagg 2641 gagcatcctg gggagagatt gtctgcaggg cctagggctc cgcttgacaa atttataggg 2701 agggccactg tttttactgt tgcgctacat ctggctattc cactcaagtg gaagccagac 2761 cacacgcccg tgtggattga ccagtggccc cttcctgagg gtaaacttgt agcgctaacg 2821 caattagtgg aaaaagagtt acagttagga catatagaac cttcacttag ttgttggaac 2881 acacctgtct ttgtgatccg gaaggcttcc gggtcttatc gcttattgca tgacttgcgc 2941 gctgttaacg ccaagcttgt tccttttggg gccgtccaac agggggcgcc agttctctct 3001 gcgctcccgc gtggctggcc cctgatggtc ctagacctca aggactgctt cttttctatt 3061 cctcttgcgg aacaagatcg cgaagctttt gcatttacgc tcccctctgt gaataaccag 3121 gcccccgctc gaagattcca atggaaggtc ttgccccaag ggatgacctg ttctcccact 3181 atctgtcagt tgatagtggg tcaggtactt gagcccttgc ggctcaggca cccatctctg 3241 cgcatgttgc attatatgga tgatcttctg ctagccgcct cgagtcatga caagttggag 3301 gcggcagggg aggaggttat tagtacactg gaaagagccg ggttcaccat ttcgcctgat 3361 aaggtccaga gggagcccgg agtacaatat cttgggtaca agttaggcag tacgtatgta 3421 gcacccgtag gcctggtggc agaacccagg atagccacct tgtgggatgt tcaaaagctg 3481 gtggggtcac ttcagtggct tcgccctgca ttaggaatcc cgccacgact gatgggcccc 3541 ttttatgagc agttgcgggg gacagaccct aacgaggcga gggaatggaa tctagacatg 3601 aaaatggcct ggagagagat tgtacagctt agcaccactg ctgccttgga acgatgggac 3661 cctgccctgc ctctggaagg agcggtcgct agatgtgaac agggggcaat aggggtcctg 3721 ggacagggac tgtccacaca cccaaggcca tgcttgtggt tattctccac ccaacccacc 3781 aaggcgttta ctgcttggtt agaagtgctc acccttctga ttgctaagct acgtgcttcg 3841 gcagtgcgga cctttggcaa agaggtggat atcctcctgt tgcctgcatg ctttagggag 3901 gaccttccgc tcccggaagg gatcctgtta gcccttaagg ggtttgcagg aaaaatcagg 3961 agtagtgaca cgccatctat ttttgacatt gcgcgtccac tgcatgtttc tctgaaagtg 4021 agggttaccg accaccctgt accgggaccc actgtcttta ccgacgcctc ctcaagcacc 4081 cataaggggg tggtagtctg gagggagggc ccaaggtggg agataaaaga aatagctgat 4141 ttgggagcaa gtgtacaaca actggaagca cgcgctgtgg ccatggcact tctgctgtgg 4201 ccgacaacgc ccacgaatgt agtgactgac tccgcgtttg ttgcgaaaat gttactcaag 4261 atgggacagg agggagtccc gtctacagcg gcggctttta ttttagagga tgcgttaagc 4321 caaaggtcag ccatggccgc cgttctccac gtacggagtc attctgaagt gccagggttt 4381 ttcacggaag gtaatgacgt ggcagatagc caagccacct ttcaagcgta tcccttgaga 4441 gaagctaaag atcttcatac cgctctccat attggacccc gcgcgctatc taaggcgtgt 4501 aatatatcta tgcaacaggc tagggaggtt gttcagacct gcccgcattg taattcagcc 4561 cctgcgttgg aggccggggt aaaccctagg ggtttgggac ccctacagat atggcaaaca 4621 gactttacgc ttgagcctag aatggccccc cgttcctggc tcgctgttac tgtggatacc 4681 gcctcatcgg cgatagtcgt aactcagcat ggccgtgtca catcggttgc tgcacaacat 4741 cattgggcca cggctatcgc cgttttggga agaccaaagg ccataaaaac agataacggg 4801 tcctgcttca cgtctaaatc cacgcgagag tggctcgcga gatgggggat agcacacacc 4861 accgggattc cgggtaattc ccagggtcaa gctatggtag agcgggccaa ccggctcctg 4921 aaagataaga tccgtgtgct tgcggagggg gacggcttta tgaaaagaat ccccaccagc 4981 aaacaggggg aattactagc taaggcaatg tatgccctca atcactttga gcgtggtgaa 5041 aacacaaaaa caccgataca aaaacactgg agacctaccg ttcttacaga aggacccccg 5101 gttaaaatac gaatagagac aggggagtgg gaaaaaggat ggaacgtgct agtctgggga 5161 cgaggttatg ccgctgtgaa aaacagggac actgataagg tcatttgggt accctctcgg 5221 aaagttaaac cggacatcac ccaaaaggat gaggtgacta agaaagatga ggcgagccct 5281 ctctttgcag gcatttctga ccgggcaccc tgggaaggcg agcaggaagg actctaagaa 5341 gaagccgcca gcaacaagca agaaagaccc ggagaagaca cccttgctgc catcgagagg 5401 tcacttcttc tttcaaatga tacttgtgtg catggttatt attttcgttg tcccaggggt 5461 gggaggggtt catctgttgc aacaaccagg aaacgtgtgg gtcacctggg caaataagac 5521 gggccaaacg gatttttgcc ttagtctaca gtcagcgacc tcaccattcc gcacctgctt 5581 gataggcatt ccacagtatc ctctgaacac ctttaaggga tatgtcacta atgttactgc 5641 ttgcaataac gataccgata tagccagcca aacagcatgc ttgataaagg ctctaaatac 5701 aaccctccct tgggaccccc aggaattaga tattttaggg tcccagatga tcaagaacgg 5761 aacaaaacgt acgtgtgtta cctttggttc ggtgtgctat gaagggaaca atggcagtag 5821 agactgtcac aattttgatg ggaattttaa tgggactggt ggggcagaag cagaattgcg 5881 tgacttcata gcaaaatgga aaagtgatga ccctcttata aggccctatg tcaaccaatc 5941 atggacgatg gtaagtccaa taaacacaga gagtttttca ataagtagta gatattgtgg 6001 attcaccagt aacgagactc gttactatcc aaagaacgtt tctgattggt gtggttcaaa 6061 aaggggaaaa tggtcagcgg ggtacaggaa tgggacagaa tgttccagca acacgacgga 6121 ttgcggtggt aattgcacgg cggaatggaa ttattatgca tatgggttta cctttgggaa 6181 acagccagag atattgtgga ataatgggac tgctaaggca ctcccaccag gtattttctt 6241 gatttgtggg gacagggctt ggcaaggcat cccgcgtaat gccttgggag ggccctgtta 6301 tctaggacaa ttgactatgc tctctcctaa ctttaccacc tggatgacgt atgggccgaa 6361 cattacgggt caccgccgta gcaggcgctc ggtgagtcat ctctcgccta actgcagtga 6421 tgagatacag ctatggagtg tgacagcccg gatatttgct tctttctttg ctcctggtgt 6481 agcagcagca caggccttaa aggagatcga acgcttggca tgttggtcgg ttaagcaagc 6541 gaatttaaca tcattaatat tgaatgcgat gctggaggat acgaacagca tccggcacgc 6601 ggtgttgcag aatcgggcag ccatcgattt cttactcctg gcgcagggac acgggtgtca 6661 agacgtggaa gggatgtgtt gcttcaatct cagcgatcat agtgagtcca ttcacaaggc 6721 gctccaagcc atgaaggaac atacagagaa gatacgggtg gaagatgatc ccatagggga 6781 ttggtttacg cgcacatttg gtagtcttgg agggtggctc gcgaagggtg ttaagacgct 6841 actgttcgca ttgcttgtca tagtctgtct attagctatc attccatgta taatcaagtg 6901 ctttcaagat tgtctatcaa gaataatgta tcagtttatg gatgaacgca taagatatca 6961 tagaattagg gagcggctgt aggttccaaa cgcgaagtgg cggggggctg gtaggggtat 7021 agaacttgca aatcgggctg taacggggca aggcttgact gaggggactg tagcatgtat 7081 aggcgctgtg cggggcttcg gttgtacgcg gataggaatc ccctcaggac aattctgctt 7141 gaaatacgat ggcaccttcc ctgttgcctc tgtggattag gactggaggc agctcggatg 7201 atctgatggc caaatagagc aagctagata ggtaactgcg aaatacgctt ttgcataggg 7261 agggggaaat gtagtactct tatgtaacga tgaaacagca aaatgcctta taaggaagaa 7321 aaggcactgt gcacgtcgat tggtagaagt aaggtggtat gatcgtggca tgatcatgcc 7381 ttattaggaa ggcagcagac gggtcttaca tggattggac gaactcctta attccgcgtt 7441 gcagagatat tgtatttaag agcctagcct gatacaataa acgccatttt acctcccacc 7501 acattggtgt gcacctgggt tgatggccgg accgtcgatt ccctgacgat tgcgagcacc 7561 tgaatgaagt gaaaggcttc a //