LOCUS AB669569 7515 bp RNA linear VRL 25-JUL-2012 DEFINITION Avian leukosis virus RNA, complete genome, strain: CTS_016. ACCESSION AB669569 VERSION AB669569.1 KEYWORDS . SOURCE Avian leukosis virus ORGANISM Avian leukosis virus Viruses; Retro-transcribing viruses; Retroviridae; Orthoretrovirinae; Alpharetrovirus. REFERENCE 1 AUTHORS Ochi,A., Ochiai,K., Kobara,A., Nakamura,S., Hatai,H., Handharyani,E., Tiemann,I., Tanaka Iii,I.B., Toyoda,T., Abe,A., Seok,S.H., Sunden,Y., Torralba,N.C., Park,J.H., Hafez,H.M. and Umemura,T. TITLE Epidemiological study of fowl glioma-inducing virus in chickens in Asia and Germany JOURNAL Avian Pathol. 41 (3), 299-309 (2012) PUBMED 22702458 REMARK DOI:10.1080/03079457.2012.684373 REFERENCE 2 (bases 1 to 7515) AUTHORS Ochi,A. and Ochiai,K. TITLE Direct Submission JOURNAL Submitted (08-SEP-2011) Contact:Akihiro Ochi Hokkaido University, Graduate School of veterinary medicine; Kita 18 jyo, Nishi 9 chome, Kitaku, Sapporo, Hokkaido 0600818, Japan FEATURES Location/Qualifiers source 1..7515 /mol_type="genomic RNA" /country="Japan:Hokkaido, Chitose" /isolation_source="Japanese native chicken" /collection_date="2007" /host="Gallus gallus domesticus" /db_xref="taxon:11864" /strain="CTS_016" /organism="Avian leukosis virus" repeat_region 1..5 /rpt_type=direct /note="R" repeat_region 6..83 /rpt_type=direct /note="U5" gene order(383..400,5081..6901) /gene="env" CDS join(383..400,5081..6901) /codon_start=1 /protein_id="BAL70338.1" /gene="env" /translation="MEAVIKAFLTGHPEKVSKKDSKKKPSATSKKDPEKTPLLPTRVN YILIIGVLVLCEVTGARADVHLLEQPGNLWITWANRTGQTDFCLSTQSATSPFQTCLI GIPSPISEGDFKGYVSGNCTSLRPHRLVSSGIPDGPDNNTTLTYRKVSCLLSKLNVSL LDEPSELQLLGSQSLPNITNITQIPSVAGGCIGFTPYDSPAGVDGWDRRQVTHILLTN PRSNPFFDKDSNSSKPFTVVTADRHNLFMGSEYCGAYGYRFWEMYNCSQMGQNLSICM DVWGQGLPESWCTSTGGIWVNRSQEINETEPISWTANCSDSNLGNVSGCCGESITIFP PGAWVNSTQGSFTKPKALPPAIFLICGDRAWQGIPSRPVGGPCYLGKLTMLAPNHTDI LKILANSSRTGIRRKRSVSHLDDTCSDEVQLWGPTARIFASILAPGVAAAQALREIER LACWSVKQANLTTSLLGDLLDDVTSIRHAVLQNRAAIDFLLLAHGHGCEDVAGMCCFN LSDHSESIQKKFQLMKEHVNKIGVDSDPXGSWLRGLFGGIGEWAVHLLKGLLLGLVVI LLLVVCLPCLLQFVSSSIRKMIDSSLGYREECRKLQKASRQPAKAV" /product="envelope protein" mat_peptide 5255..6391 /gene="env" /product="glycoprotein gp85" mat_peptide 6293..6898 /gene="env" /product="glycoprotein gp37" gene 383..2488 /gene="gag" CDS 383..2488 /codon_start=1 /protein_id="BAL70339.1" /gene="gag" /translation="MEAVIKVISSACKTYCGKTSPSKKEIGAMLSLLQKEGLLMSPSD LYSPGSWDPITAALSQRAMVLGKSGELKTWGLVLGALKAAREEQVTSEQAKFWLGLGG GRVSPPGPECIEKPATERRIDKGEEAGETTAQRDVKMAPEETAAPKTVGTSCYHCGTA IGCNCATASAPPPPYVGSGLYPSLAGVGEQQGQGGDTPRGAEQPRAEPGHAGQAPGPA LTDWARVREELASTGPPVVAMPVVIKTXGPAWTPLEPKLITRLADTVRTKGLRSPITM AEVEALMSSPLLPHDVTNLMRVILGPAPYALWMDAWGVQLQTVIAAATRDPRHPANGQ GRGERTNLDRLKGLADGMVGNPQGQAALLRPGELVAITASALQAFREVARLAEPAGPW ADITQGPSESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRAAPST LTTPGEIIKYVLDRQKTAPLTDQGIAAAMSSAIQPLVMAVVNRERDGQTGSGGRARGL CYTCGSPGHYQAQCPKKRKSGNSRERCQLCDGMGHNAKQCRKRDGNQGQRPGRGLSSG PWPGPEPPAVSLAMTMEHKDRPLVRVILTNTGSHPVKQRSVYITALLDSGADITIISE EDWPTDWPVVDTANPQIHGIGGGIPMRKSRDMIEVGVINRDGSLERPLLLFPAVAMVR GSILGRDCLQGLGLRLTNL" /product="gag protein" gene <2506..5103 /gene="pol" CDS <2506..5103 /codon_start=1 /protein_id="BAL70340.1" /gene="pol" /translation="TVALHLAIPLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQL GHIEPSLSCWNTPVFVIRKASGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWP LMVLDLKDCFFSIPLAEQDREAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLV VGQVLEPLRLKHPSLCMLHYMDDLLLAASSHDGLEAAGEEVISTLERAGFTISPDKVQ REPGVQYLGYKLGSTYVAPVGLVAEPRIATLWDVQKLVGSLQWLRPALGIPPRLMGPF YEQLRGSDPNEARGWNLDMKMAWREIVQLSTTAALERWDPALPLEGAVARCEQGAIGV LGQGLSTHPRPCLWLFSTQPTKAFTAWLEVLTLLITKLRASAVRTFGKEVDILLLPAC FREDLPLPEGILLALRGFAGKIRSSDTPSIFDIARPLHVSLKVRVTDHPVPGPTVFTD ASSSTHKGVAVWREGPRWEIKEIVDLGASVQQLEARAVAMALLLWPTTPINVVTDSAF VAKMLLKMGQEGVPSTAAAFILEDALSQRSAMAAVLHVRSHSEVPGFFTEGNDVADSQ ATFQAYPLREAKDLHTALHIGPRALSKACNIPMQQAREVVQTCPHCNSAPALEAGVNP RGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVTQHGRVTSVAAQHHWATAIA VLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQGQAMVERANRLLKDKIR VLAEGDGFMKRIPTSKQGELLAKAMYALNHFERGENTKTPIQKHWRPTVLTEGPPVKI RIETGEWEKGWNVLVWGRGYAAVKNRDTDKVIWVPSRKVKPDITQKDEVTKKDEASPL FAGISDWAP" /product="polymerase" 3'UTR 6902..7201 repeat_region 7202..7493 /rpt_type=direct /note="U3" repeat_region 7494..7515 /rpt_type=direct /note="R" ORIGIN 1 ccacattggt gtgcacctgg gttgatggcc ggaccgttga ttccctgacg actacgaaca 61 cctgtatgaa gcgaaaggct tcatttggtg accccgacgt gatcgttagg gaatagtggt 121 cggccacgga cggcgtggcg atcctgtcct catccgtctc gcttattcgg ggagcggacg 181 atgaccctgg tggagggggc tgcggcttag gagggcagaa gctgagtgac gtcggaggga 241 gccctactgc agggggctga gataccctac cgagagctca gatagtcgtt ggaagacgag 301 gaggaagccc gacgactgag tggtccgcac caggcgcggt tccggctgct ctgcgtgatt 361 ctggtcgccc ggtggatcaa gcatggaagc cgtcataaag gtgatttcgt ccgcgtgtaa 421 aacctattgc gggaaaacct ctccttctaa gaaggaaata ggggccatgt tgtccctgtt 481 acaaaaggaa gggttgctta tgtccccctc agacttatat tccccggggt cctgggatcc 541 tattaccgcg gcgctttccc agcgggctat ggtacttgga aaatccggag agttaaaaac 601 ctggggattg gttttggggg cattgaaggc ggctcgagag gaacaggtca catctgagca 661 agcaaagttc tggttgggat tagggggagg gagggtctct cccccaggtc cggagtgcat 721 tgagaaacca gcaacggagc ggcgaatcga caagggggag gaagcgggag aaacaactgc 781 gcagcgagat gtgaagatgg cgccggagga aacggccgca cctaaaaccg ttggcacatc 841 ctgctatcat tgcggaacag ctattggctg taattgcgcc acagcctcgg ctcctcctcc 901 tccttatgtg gggagtggtt tgtatccttc cctggcgggg gtgggagagc agcagggcca 961 ggggggtgac acacctcggg gggcggaaca gccaagggcg gagccagggc acgcgggtca 1021 ggcccctggg ccggccctga ctgactgggc aagggtcagg gaggagcttg cgagtactgg 1081 tccgcccgtg gtggccatgc ctgtagtgat taagacggan ggacccgcct ggacccctct 1141 ggagccaaaa ctgatcacaa gactggctga tacggtcagg accaagggct tacgatcccc 1201 gattactatg gcggaagtgg aagcgcttat gtcctccccg ctgctgccgc atgacgtcac 1261 gaatctaatg agagttattt taggacctgc cccatatgcc ttatggatgg acgcttgggg 1321 agtccaacta cagacggtta tagcggcagc cactcgcgac ccccgacacc cagcgaatgg 1381 tcaagggcgg ggggaacgga ctaacttgga tcgcttaaag ggtctagctg atgggatggt 1441 gggcaaccca cagggtcagg ccgcattatt aagaccaggg gaattggttg ctattacggc 1501 gtcggctctc caggcgttta gagaggttgc ccggctggcg gagcctgcag gtccatgggc 1561 ggacatcacg cagggaccat ctgagtcctt tgttgatttt gccaaccggc ttataaaggc 1621 ggttgagggg tcagatctcc cgccttccgc gcgggctccg gtgatcattg actgctttag 1681 gcaaaagtcg cagccagata ttcagcagct tatacgggca gcaccctcca cgctgaccac 1741 cccaggagag ataatcaaat atgtgctaga caggcagaag actgcccctc ttacggatca 1801 aggcattgct gcggccatgt cgtctgctat tcagccctta gttatggcag tagtcaatag 1861 agagagggat ggacaaactg ggtcgggtgg tcgtgcccga gggctctgct acacttgtgg 1921 atccccggga cattatcagg cgcagtgccc gaaaaaacga aagtcaggaa acagccgtga 1981 gcgatgtcag ttgtgtgacg ggatgggaca caacgctaaa cagtgtagga agcgggatgg 2041 caaccagggc caacgcccag gaagaggtct ctcttcgggg ccgtggcccg gccctgagcc 2101 gcctgccgtc tcgttagcga tgacaatgga acataaagat cgccccttgg ttagggtcat 2161 tctgactaac actgggagtc atccggtcaa acagcgttcg gtgtatatca ccgcgctgtt 2221 ggactctgga gcggacatca ctattatttc agaggaggat tggcccactg attggccggt 2281 ggtggacacc gcgaacccac agatccatgg gataggaggg ggaattccca tgcgaaaatc 2341 ccgggatatg atagaggtgg gggttattaa ccgagacggg tctttggagc gacccctgct 2401 cctcttcccc gcagtagcta tggttagagg gagtatccta ggaagagatt gtctgcaggg 2461 cctagggctc cgcttgacaa atttataggg aaggccactg ttcttactgt tgcgctacat 2521 ctggctattc cgctcaaatg gaagccagac cacacgcctg tgtggattga ccagtggccc 2581 ctccctgaag gcaaacttgt agcgctaacg caattagtag aaaaagaatt acagttagga 2641 catatagagc cctcacttag ttgttggaac acgcctgtct ttgtgatccg gaaggcttcc 2701 gggtcgtatc gcttattgca tgatttgcgc gctgttaacg ccaagcttgt tccttttggg 2761 gccgtccaac agggggcgcc agtcctctcc gcgctcccgc gtggctggcc cctgatggtc 2821 ctagacctca aggattgctt tttttctatt cctcttgcgg aacaagatcg cgaagctttt 2881 gcatttacgc tcccctctgt gaataaccag gcccccgctc gaagattcca atggaaggtc 2941 ttgccccaag ggatgacctg ttctcccact atctgtcagt tggtagtggg tcaggtactt 3001 gagcccttgc gactcaagca cccatcactg tgcatgttgc attatatgga tgatcttttg 3061 ctagccgcct caagtcatga tgggttggaa gcggcagggg aggaggttat cagtacattg 3121 gaaagagccg ggttcactat ttcacctgat aaggtccaga gggagcccgg agtacaatat 3181 cttgggtaca agttaggcag tacgtatgta gcacccgtag gcttggtagc agaacccagg 3241 atagccacct tgtgggatgt tcaaaagctg gtggggtcac ttcagtggct tcgccctgca 3301 ttaggaatcc cgccacgact gatgggcccc ttttatgagc agttacgagg gtcagaccct 3361 aacgaggcga ggggatggaa tctagacatg aaaatggcct ggagagagat cgtacagctt 3421 agcaccactg ctgccttgga acgatgggac cctgccctgc ctctggaagg agcggtcgct 3481 agatgtgaac aaggggcaat aggggtcctg ggacagggac tgtccacaca cccaaggcca 3541 tgtttgtggt tattctccac ccaacccacc aaggcgttta ctgcttggtt agaagtgctc 3601 acccttttga ttactaagct acgcgcttcg gcagtgcgaa cctttggcaa ggaggttgat 3661 atcctcctgt tgcctgcatg ctttcgggag gaccttccgc tcccggaggg gatcctgtta 3721 gcccttaggg ggtttgcagg aaaaatcagg agtagtgaca cgccatctat ttttgacatt 3781 gcgcgtccac tgcatgtttc tctgaaagtg agggttaccg accaccctgt accgggaccc 3841 actgtcttta cngacgcctc ctcaagcacc cataaggggg tggcagtctg gagggagggc 3901 ccaaggtggg agataaaaga aatagttgat ttgggggcaa gtgtacaaca actggaagca 3961 cgcgctgtgg ccatggcact tctgctgtgg ccgacaacgc ccattaatgt agtgactgac 4021 tccgcgtttg ttgcgaaaat gttactcaag atgggacagg agggagtccc gtctacagcg 4081 gcggctttta ttttagagga tgcgttaagc caaaggtcag ccatggccgc cgttctccac 4141 gtgcggagtc attctgaagt gccagggttt ttcacagaag gaaatgacgt ggcagatagc 4201 caagccacct ttcaagcgta tcccttgaga gaggctaaag atctccatac tgctctccat 4261 attggacctc gcgcgctatc caaagcgtgt aatataccta tgcagcaggc tagggaggtt 4321 gttcagacct gcccgcattg taattcagcc cctgcgttgg aggccggggt aaaccctagg 4381 ggtctgggac ccctacagat atggcagaca gactttacgc ttgagcctag aatggccccc 4441 cgttcctggc tcgctgttac tgtggatacc gcctcatcag cgatagtcgt aactcagcat 4501 ggccgtgtca catcggttgc tgcacaacat cattgggcca cggctatcgc cgttttggga 4561 agaccaaagg ccataaaaac agataacggg tcntgcttca cgtctaaatc cacgcgagag 4621 tggctcgcga gatgggggat agcacacacc accgggattc cgggtaattc ccagggtcaa 4681 gctatggtag agcgggccaa ccggctcctg aaagataaga tccgtgtgct tgcggagggg 4741 gacggcttta tgaaaagaat ccccaccagc aaacaggggg aactactagc caaggcaatg 4801 tatgccctca atcactttga gcgtggtgaa aacacgaaaa caccgataca aaaacactgg 4861 agacctaccg ttcttacaga aggacccccg gttaaaatac gaatagagac aggggagtgg 4921 gaaaaaggat ggaacgtgct ggtctgggga cgaggttatg cagctgtgaa aaacagggat 4981 actgataagg ttatttgggt accctctcga aaggttaaac cggacatcac ccaaaaggat 5041 gaggtgacta agaaagatga ggcgagccct ctttttgcag gcatttctga ctgggcaccc 5101 tgagaaggtg agcaagaagg actccaagaa gaagccgtca gcaacaagca agaaagaccc 5161 ggagaagaca cccttgctgc caacgagagt taattatatt ctcattattg gtgtcctggt 5221 cttgtgtgag gttacggggg caagagctga tgtccactta ctcgagcagc cagggaacct 5281 ttggattaca tgggccaacc gtacaggcca aacggatttc tgcctctcta cacagtcagc 5341 cacctcccct tttcagacat gtttgatagg tatcccgtcc cctatttccg aaggtgattt 5401 taagggatac gtctctggta actgcacctc cttgagacct caccggctag tctcgtcagg 5461 cattcctgac ggccctgata acaacacaac cctcacctac cggaaggttt catgcttgct 5521 gtcaaaactg aatgtttccc tgttggacga gccatcagaa ctacaactgt taggttccca 5581 gtctctcccc aatataacta atattactca gatccctagt gtggctgggg gatgcatcgg 5641 cttcacccca tacgacagtc cggcgggtgt tgacggatgg gatcggagac aagttacaca 5701 catcctcttg actaacccaa ggagcaatcc tttctttgat aaggactcta actcctcgaa 5761 accgtttaca gtagtgacag cggataggca caatctcttt atggggagtg aatattgtgg 5821 tgcatatggc tacagatttt gggagatgta caattgctca cagatgggac agaatttgtc 5881 catttgtatg gatgtgtggg gccaaggcct ccccgaaagt tggtgtacaa gcacaggagg 5941 tatatgggtt aatcgatcac aggaaattaa tgaaacagag ccgatcagtt ggactgctaa 6001 ctgttcagat agtaatttgg gtaacgttag tggatgttgc ggggaatcaa tcacgatttt 6061 cccaccaggg gcgtgggtca acagcacaca aggtagtttc actaaaccaa aagcgctacc 6121 acccgcaatt ttcctcattt gtggggatcg cgcatggcaa ggaattccca gtcgtccggt 6181 agggggcccc tgctatttag gcaagcttac catgttagca cccaaccata cagatattct 6241 caaaatactt gctaattcat cgcggacagg tataagacgt aaacgaagcg tctcacatct 6301 ggatgataca tgctcagatg aggtgcagct ttggggtcct acagcaagaa tctttgcatc 6361 tatcttagcc ccaggggtag cagctgcgca agccttaaga gaaattgaga gactagcctg 6421 ttggtccgtt aaacaggcta acttgactac atcactcctc ggggatttat tggatgacgt 6481 cacgagtatt cgacacgcgg tcctgcagaa ccgagcggct attgacttct tgcttctagc 6541 tcacggccat ggttgtgagg acgttgccgg aatgtgttgt ttcaatctga gtgatcacag 6601 cgaatctata cagaagaagt tccagctaat gaaagaacat gtcaataaga tcggcgtgga 6661 cagcgaccca ntcggaagtt ggctgcgagg attattcgga ggaataggag aatgggccgt 6721 ncacttacta aaaggactgc ttttggggct tgtagttatc ttattgctag tagtgtgcct 6781 gccttgcctt ttgcagtttg tatctagtag tattcgaaag atgattgata gttcactcgg 6841 ctaccgcgag gaatgcagga aattacaaaa agccagtaga cagcctgcaa aggcagtgta 6901 ggcgggctct tgtattccgt gtgatagctg gttggaccgt taatcgatcg gctggcatac 6961 ggaatatagg aggtcgctga gtagtgcgca agcgaaactt aatagggcaa ggcttgacca 7021 gcagttgcat gaagaaatct gcttagggtt aggcgttttg cgttgcttcg cgatgtacgg 7081 gctaggttta cgcgtaactg agggggccat gatatgtata ggcgccaagc ggggcttcgg 7141 ttgtacgcgg ataggggccc cctcagaaaa tagtagttgc gcctttgcat agggaggggg 7201 aaatgtagtc gtaatcatag gttaacatat atataaccaa ataagggaat cgcctgatgc 7261 accaaataag gtattatatg atcccattgg tggtgaggga gcgacctgag gacatatggg 7321 cggtaataga actgtctgtc cttgcgtcat tccttcctca tcggatcatg tacgcggcag 7381 aatatgattg gataacagga tggcaccatt catcgtggcg catgctgatt ggtgtgacta 7441 aggagttatg taacccataa gtatacttaa gcttgtagtt gctaacaata aagtgccatt 7501 ttacctccca ccaca //