LOCUS AB669897 7406 bp RNA linear VRL 25-JUL-2012 DEFINITION Avian leukosis virus RNA, complete genome, strain: Km_5943. ACCESSION AB669897 VERSION AB669897.1 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 7406) AUTHORS Ochi,A. and Ochiai,K. TITLE Direct Submission JOURNAL Submitted (09-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..7406 /mol_type="genomic RNA" /country="Japan:Kumamoto" /isolation_source="Japanese native chicken" /collection_date="2010" /host="Gallus gallus domesticus" /db_xref="taxon:11864" /strain="Km_5943" /organism="Avian leukosis virus" repeat_region 1..21 /rpt_type=direct /note="R" repeat_region 22..99 /rpt_type=direct /note="U5" gene order(372..389,5070..6860) /gene="env" CDS join(372..389,5070..6860) /codon_start=1 /protein_id="BAL70352.1" /gene="env" /translation="MEAVIKAFLTGHPGKVSKKDSRKKPPAASKKDPEKTPLLPTRVN YILIIGVLVLCEVTGVRADVHLLEQPGNLWITWANRTGQTDFCLSTQSATSPFQTCLI GIPSPISEGDFKGYVSDNCTTLGTDRLVSSASITGGPDNSTTLTYRKVSCLLLKLNVS LLDEPPELQLVGSQSLPNITNITQISGVAGGCVAFGPRSIDTLSDWSRPQLTRWLLLR RNYTEPFTVVTADRHNLFRGIEYCGTYGYRFWKLYNCAQTGSRFRCGRVPVGGLPETG CTRTGGIWVNQSKEINETKPFSFTANCTASNLGNVSGCCGKTPTTLPPGAWIDSTQGS FTKPKALPPGIFLICGDRAWQGIPSRPVGGPCYLGKLTMLAPNHTEILKVLANSSRTG IRRRRSTSHLDDTCSDEVQLWGPTARIFASILAPGVAAAQALREIERLACWSVKQANL TTSLLGDLLDDVTSIRHAILQNRAAIDFLLLAHGHGCEDVAGMCCFNLSDHSESIQKK FQLMKEHVNKIGVDSDPIGSWLRGLFGGIGEWAVHLLKGLLLGLVVILLLVVCLPCLL QIVSSSIRKMVNNSIGYHTEYKKLQRACRQPENGAV" /product="envelope protein" gene 372..2477 /gene="gag" CDS 372..2477 /codon_start=1 /protein_id="BAL70353.1" /gene="gag" /translation="MEAVIKVISSACKTYCGKTSPSKKEIGAMLSLLQKEGLLMSPSD LYSPGSWDPITAALSQRAMVLGKSGELKTWGLVLGALKAAREEQVTSEQAKFWLGLGG GRVSPPGPECIEKPATERRIGKGEEARETTVQRDAKMAPEETATPNTVGTSCYHCGTA IGCNCATASAPPPPYVGSGLYPSLAGVGEQQGQGGDTPRGAEQPRAEPGHAGLAPGPA LTDWARIREELTSTGPPVVAMPVVIKTEGPAWTPLEPKLITRLADTVRTKGLRSPITM AEVEALMSSPLLPHDVTNLMRVILGPAPYALWMDAWGAQLQTVIAAATRDPRHPANGQ GRGERTNLDRLKGLADGMVGNPDGQAALLRPGELVAITASALQAFREVARLAEPTVPW ADITQGPSESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRAAPST LTTPGEIIKYVLDRQRTAPLTDQGIAAAMSSAIQPLVMAVVNREKDGQTGSGGRARGL CYTCGSPGHYQAQCPKKRKSGNSRERCQLCDGMGHNAKQCRKRDGNQGQRPGRGFSSG PWPGPEPPAVSLAMTMEHKDRPLVRVILTNTGSHPVKQRSVYITALLDSGADITIISE EDWPTDWPVVDTANPQIHGIGGGIPMRKSRDMIEVGVINRDGSLERPLLLFPAVAMVR GSILGRDCLQGLGLRLTNL" /product="gag protein" gene <2495..5182 /gene="pol" CDS <2495..5182 /codon_start=1 /protein_id="BAL70354.1" /gene="pol" /translation="TVALHLAIPLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQL GHIEPSLSCWNTPVFVIRKASGSYRLLXDLRAVNAKLVPFGAVQQGAPVLSALPRGWP LMVLDLKDCFFSIPLAEQDREAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLV VGQVLEPLRLKHPSLRMLHYMDDLLLAASSHDGLEEAGEEVISTLERAGFTISPDKVQ REPGVQYLGYKLGSTYVAPVGLVAEPRIATLWDVQKLVGSLQWLRPALGIPPRLMGPF YEQLRGSDPNEAREWNLDMKMAWREIVQLSTTAALERWDPALPLEGAVARCEQGAIGV LGQGLSTHPRPCLWLFSTQPTKAFTAWLEVLTLLITKLRASAVRTFGKEVDILLLPAC FREDLPLPEGILLALRGFAGKIRSSDTPSIFDIARPLHISLKVRVTDHPVPGPTVFTD ASSSTHKGVVVWREGPRWEIKEIADLGASVQQLEARAVAMALLLWPTTPTNVVTDSAF VAKMLLKMGQEGVPSTAAAFILEDSLSQRSAMAAVLHVRSHSEVPGFFTEGNDVADSQ ATFQAYPLREAKDLHTALHIGPRALSKACNISMQQAREVVQTCPHCNSAPALEAGVNP RGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVTQHGRVTSVAAQHHWATAIA VLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQGQAMVERANRLLKDKIR VLAEGDGFMKRIPTSKQGELLAKAMYALNHFERGENTKTPIQKHWRPTVLTEGPPVKI RIETGEWEKGWNVLVWGRGYAAVKNRDTDKVIWVPSRKVKPDITQKDEVTKKDEASPL FAGISDWAPWKGEQEGLQEEAASSEQERPGEDTLAANES" /product="polymerase" 3'UTR 6861..7157 repeat_region 7158..7385 /rpt_type=direct /note="U3" repeat_region 7386..7406 /rpt_type=direct /note="R" ORIGIN 1 gccattttac cacccaccac attggtgtgc acctgggtag atggacagac cattgagtcc 61 ctaacgattg cgaacacctg gatgaagcag aaggcttcat ttggtgaccc cgacgtgata 121 gttagggaat agtggtcggc cacaggcggc gtggcgagcc tgtctccatc cgtctcgtca 181 accgggaggc gagttcgatg accctgatag agggggctgc ggcttaggga ggcagaagct 241 gagcatcgtc ggtaggagct ccagggcccg gagcggataa tccctgccga gaactcagag 301 ggtcgccgga ggacggggag tgagcccggc gaccacccca ggcacgtctt tggccggcct 361 gcggatcaag catggaagcc gtcataaagg tgatttcgtc cgcgtgtaaa acctattgcg 421 ggaaaacctc tccttctaag aaggagatag gggccatgtt gtccctgtta caaaaggaag 481 ggctgcttat gtctccctca gacttatact ccccggggtc ctgggatccc attaccgcgg 541 cgctctctca gcgagctatg gtacttggga aatcgggaga gttaaaaacc tggggattgg 601 ttttgggggc attgaaggcg gctcgagagg aacaggttac atctgagcaa gcaaagtttt 661 ggttagggct agggggaggg agggtctctc ccccagggcc ggagtgcatc gagaaaccag 721 caacggagcg gcggatcggc aaaggggagg aagcgagaga gacaactgtg cagcgagatg 781 cgaagatggc gccggaggaa acggccacac ctaacaccgt tggcacatcc tgctatcatt 841 gcggaacagc tattggctgt aattgcgcca cagcctcggc tcctcctcct ccttatgtgg 901 ggagtggttt gtatccttcc ctggcggggg tgggagagca gcagggccag gggggtgaca 961 caccccgggg ggcggaacag ccaagggcgg agccagggca cgcgggtctg gcccctgggc 1021 cggccctgac tgactgggca aggatcaggg aggagcttac gagtacaggt ccgcccgtgg 1081 tggccatgcc tgtagtgatt aagacagagg gacccgcctg gacccctctg gagccaaaat 1141 tgatcacaag actggctgat acggtcagga ccaagggctt acgatccccg atcactatgg 1201 cagaagtgga agcgctcatg tcctccccgc tgctgccgca tgacgtcacg aatctaatga 1261 gagttatttt aggacccgcc ccatatgcct tatggatgga cgcttgggga gcccaactac 1321 agacggttat agcggcagcc actcgcgacc cccggcaccc ggcgaatggc caagggcggg 1381 gggaacggac caatttagat cgtttaaagg gattggcgga tggaatggtt ggcaatccag 1441 atggtcaggc tgccctatta agaccggggg aactggttgc cattacagcg tcggctctcc 1501 aggcgtttag agaggtcgct cggttggcgg aacccacggt cccgtgggcg gacatcacgc 1561 aaggaccatc tgagtccttt gtcgattttg ccaatcgact cataaaggcg gttgaggggt 1621 cagatctccc accttccgcg cgggctccgg tgatcattga ctgctttagg cagaagtcac 1681 agccagatat ccagcagctt atacgggcag caccctccac gctgaccacc ccaggagaga 1741 taatcaaata tgtgctagac aggcagagga ctgcccctct tacggatcaa ggcatagccg 1801 cggccatgtc gtctgctatt cagcccttag ttatggcagt agtcaataga gagaaggatg 1861 gacaaactgg gtcgggtggt cgtgcccgag ggctctgcta cacttgtgga tccccgggac 1921 attatcaggc gcagtgcccg aaaaaacgaa agtcaggaaa cagccgtgag cgatgtcagc 1981 tgtgtgacgg gatgggacac aacgctaaac agtgtaggaa gcgggatggc aaccagggcc 2041 aacgcccagg aagaggtttc tcttcggggc cgtggcccgg ccctgagccg cctgccgtct 2101 cgttagcgat gacaatggaa cataaagatc gccccttggt tagggtcatt ctgactaaca 2161 ctgggagtca tccagtcaaa caacgctcgg tgtatatcac cgcgctgttg gactccggag 2221 cggatatcac tattatttcg gaggaggatt ggcctacaga ttggccggtg gtggacaccg 2281 cgaacccaca gatccatggg ataggagggg gaatccccat gcgaaaatct cgtgacatga 2341 tagaggtggg ggttattaac cgagacgggt ctttggagcg acccctgctc ctcttccccg 2401 cagtagctat ggttagaggg agtatcctag gaagagattg tctgcagggc ctagggctcc 2461 gcttgacaaa tttataggga gggccactgt tcttactgtt gcgctacatc tggctattcc 2521 gctcaaatgg aagccagacc acacgcctgt gtggattgac cagtggcccc tccctgaagg 2581 taaacttgtg gcgctaacgc aattagtgga aaaagaatta cagttaggac atatagaacc 2641 ttcacttagt tgctggaaca crcctgtctt tgtgatccgg aaggcttccg ggtcttatcg 2701 cttattgcaw gacttgcgcg ctgttaacgc caagcttgtt cctttcgggg ccgtccaaca 2761 gggggcgcca gttctctccg cgctcccgcg tggttggccc ctgatggtcc tagacctcaa 2821 ggattgcttc ttttctattc ctcttgcgga acaagatcgc gaagcttttg catttacgct 2881 cccctctgtg aataaccagg cccccgctcg aagattccaa tggaaggtct tgccccaggg 2941 gatgacctgt tctcccacta tctgtcagtt ggtagtgggt caggtacttg agcccttgcg 3001 actcaagcac ccatctctgc gcatgttgca ttatatggat gatcttttgc tagccgcctc 3061 aagtcatgat gggttggaag aggcagggga ggaggttatt agtacattgg aaagagccgg 3121 gttcaccatt tcgcctgata aggtccagag ggagcccgga gtacaatacc ttgggtacaa 3181 gttaggcagt acgtatgtag cccccgtagg cctggtagca gaacccagga tagccacctt 3241 gtgggatgtt caaaagctgg tggggtcact tcaatggctt cgcccagcgt taggaatccc 3301 gccacgactg atgggcccct tttatgagca gttacgaggg tcagatccta acgaggcgag 3361 ggaatggaac ctagacatga agatggcttg gagagagatc gtacagctca gcaccactgc 3421 tgccttggaa cgatgggacc ctgccctgcc tctggaagga gcggtcgcta gatgtgaaca 3481 gggggcaata ggggtcctgg gacagggact gtccacacac ccaaggccat gtttgtggtt 3541 attctccacc caacccacca aagcgtttac tgcttggtta gaagtgctca cccttttgat 3601 tactaaacta cgcgcttcgg cagtgcgaac ctttggcaag gaggttgata tcctcctgtt 3661 gcctgcatgc tttcgggagg accttccgct cccggagggg atcctgttag cccttagggg 3721 gtttgcagga aaaatcagga gtagtgacac gccatctatt tttgacattg cgcgtccact 3781 gcatatttct ctgaaagtga gggttaccga ccaccctgta ccgggaccca ctgtctttac 3841 cgacgcctcc tcaagcaccc ataagggggt ggtagtctgg agggagggcc caaggtggga 3901 gataaaagaa atagctgatt tgggggcaag tgtacaacaa ctggaagcac gcgctgtggc 3961 catggcactt ctgctgtggc cgacaacacc cactaatgtg gtgactgact ccgcgtttgt 4021 tgcgaaaatg ttactcaaga tgggacagga gggagtcccg tctacagcgg cggcctttat 4081 tttagaggat tcgttaagcc aaaggtcagc catggccgcc gttctccacg tgcggagtca 4141 ttctgaagtg ccagggtttt tcacagaagg gaatgacgtg gcagatagcc aagccacctt 4201 tcaagcgtac ccattgagag aggctaaaga tcttcatacc gctctccata ttggaccccg 4261 cgcgctatcc aaagcgtgta acatatctat gcagcaggct agggaggttg ttcagacctg 4321 cccgcattgt aattcagccc ctgcgttgga ggccggggta aaccctaggg gtttgggacc 4381 cctacagata tggcagacag actttacgct tgagcctaga atggcccccc gttcctggct 4441 cgctgttact gtggataccg cctcatcagc gatagttgta actcagcatg gccgtgtcac 4501 atcggttgct gcacaacatc attgggccac ggctatcgcc gttttgggaa gaccaaaggc 4561 cataaaaaca gataacgggt cctgcttcac gtctaaatcc acgcgagagt ggctcgcgag 4621 atgggggata gcacacacca ccgggattcc gggtaattcc cagggtcaag ctatggtcga 4681 gcgggccaac cggctcctga aagataagat ccgtgtgctt gcggaggggg acggctttat 4741 gaaaagaatc cccaccagca aacaggggga actactagcc aaggcaatgt atgccctcaa 4801 tcactttgag cgtggtgaaa acacaaaaac accgatacaa aaacactgga gacctaccgt 4861 tcttacagaa ggacccccgg ttaaaatacg aatagagaca ggggagtggg aaaaaggatg 4921 gaacgtgctg gtctggggac gaggttatgc cgctgtgaaa aacagggaca ctgataaggt 4981 tatttgggta ccctctcgaa aagttaaacc ggatatcacc caaaaggatg aggtgactaa 5041 gaaagatgag gcgagccctc tttttgcagg catttctgac tgggcaccct ggaaaggtga 5101 gcaagaagga ctccaggaag aagccgccag cagcgagcaa gaaagacccg gagaagacac 5161 ccttgctgcc aacgagagtt aattatattc tcattattgg tgtcctggtc ttgtgtgagg 5221 ttacgggggt aagagctgat gttcacttgc ttgagcagcc agggaacctt tggattacat 5281 gggccaaccg tacaggccaa acggatttct gcctctctac acagtcagcc acctcccctt 5341 ttcaaacatg tttgataggt atcccgtccc ctatttccga aggtgatttt aagggatacg 5401 tctctgataa ttgcaccacc ttgggaactg accggttagt ctcgtcagcc agcattactg 5461 gcggccctga caacagcacc accctcactt atcgaaaggt ttcgtgcttg ctgttaaagc 5521 tgaatgtctc tctgttggat gagccaccgg aactacagtt ggtaggttcc cagtctctcc 5581 ctaacattac taacattact cagatctctg gcgtagccgg gggatgcgta gctttcggcc 5641 cccggagcat tgacacgctt tcagattggt ccaggccgca actcacgagg tggctcctcc 5701 tccgccgcaa ctacacagaa ccgtttacgg tggtgacagc ggatagacac aatcttttta 5761 gggggattga gtactgcggt acatatggtt acagattttg gaagctatac aattgtgcac 5821 agacaggttc tcgcttccgc tgtgggcgcg tgcctgtcgg gggcctccct gagaccgggt 5881 gcacacgcac aggaggaata tgggttaatc aatcaaagga aattaacgag acaaagccgt 5941 tcagttttac tgcgaactgt acagctagta atttgggtaa tgtcagcgga tgttgtggga 6001 aaacacccac gactctccca ccaggggcgt ggatcgacag cacacaaggt agtttcacta 6061 aaccaaaagc gctaccaccc ggaattttcc tcatttgtgg ggatcgcgca tggcaaggaa 6121 ttcccagtcg tccggtaggg ggcccctgct atttaggcaa gcttaccatg ttagcaccca 6181 accatacaga aattctcaag gtgcttgcca attcatcgcg gacaggtata agacgtagac 6241 gaagcacctc acacctggat gatacatgct cagatgaagt gcagctttgg ggtcctacag 6301 caagaatctt tgcatctatc ttagccccgg gggtagcagc tgcacaagcc ttaagagaaa 6361 tcgagagact agcctgttgg tccgttaaac aggctaactt gacaacatca ctcctcgggg 6421 acttattgga tgatgtcacg agtattcgac acgcgatcct gcagaaccga gcggctattg 6481 acttcttgct tctagctcac ggccatggct gtgaggacgt tgccggaatg tgttgtttca 6541 atctgagcga tcacagtgag tctatacaga agaagttcca gctaatgaag gaacatgtca 6601 ataagatcgg cgtggacagc gacccaatcg gaagttggct gcgaggatta ttcggaggaa 6661 taggagaatg ggccgttcat ttgctgaaag gactgctttt ggggcttgta gttattttgt 6721 tgctagtagt gtgcctgcct tgccttttgc aaattgtatc cagtagcatc cggaagatgg 6781 ttaataattc aatcggctat catacggaat acaagaagtt gcaaagggct tgtaggcagc 6841 ccgaaaatgg ggcagtgtaa agcagtacat gggaaggggt atgaaacttg cgaatcgggc 6901 tgtaacgggg caaggcttga ctgaggggac tgcaacatgt ataggcgctg agcggggctt 6961 cggttgtacg cggataggaa tcccctcagg acaattctgc ttggaatatg atggcatctt 7021 ccctgttttg cccttagact attcaagttg cctctgtgga ttagggctag aggcagctcg 7081 gatggtctga tggccaaata aggcaggcaa gataggtatt tgtaactgcg aaatacggtt 7141 atgcataggg agggggaaat gtagccttac acaatagcct tacgcaatag tgtaatgtaa 7201 cgatgaagta gccacatacc atataaggag aagaaaggca ccacacatgt cgattggtgg 7261 acgtaagatg gtatgatcgt gccttattag gaatataaca gacgggtctc accgggattg 7321 gatagaccac ttagttccgc atagtagaga tgttgtactt aagtgcctgg cttgatctaa 7381 taaacgccat tttaccaccc accaca //