ID HQ425636; SV 1; linear; genomic DNA; STD; VRL; 7489 BP. XX AC HQ425636; XX DT 03-FEB-2011 (Rel. 107, Created) DT 19-APR-2011 (Rel. 108, Last updated, Version 2) XX DE Avian leukemia virus isolate SCDY1, complete genome. XX KW . XX OS Avian leukemia virus OC Viruses; Retro-transcribing viruses; Retroviridae; Orthoretrovirinae; OC Alpharetrovirus. XX RN [1] RC Publication Status: Online-Only RP 1-7489 RX PUBMED; 21473793. RA Shi M., Tian M., Liu C., Zhao Y., Lin Y., Zou N., Liu P., Huang Y.; RT "Sequence analysis for the complete proviral genome of subgroup J Avian RT Leukosis virus associated with hemangioma: a special 11 bp deletion was RT observed in U3 region of 3'UTR"; RL Virol J 8(1):158-158(2011). XX RN [2] RP 1-7489 RA Shi M., Tian M.X., Huang Y.; RT ; RL Submitted (18-OCT-2010) to the INSDC. RL College of Veterinary Medicine, Sichuan Agricultural University, Xinkang RL Road 46, Ya'an, Sichuan 625014, China XX FH Key Location/Qualifiers FH FT source 1..7489 FT /organism="Avian leukemia virus" FT /host="Gallus gallus" FT /isolate="SCDY1" FT /mol_type="genomic DNA" FT /country="China" FT /isolation_source="blood plasma" FT /collection_date="23-Jul-2010" FT /proviral FT /note="subgroup: J" FT /db_xref="taxon:11946" FT LTR 1..594 FT gene 593..6988 FT /gene="env" FT CDS join(593..610,5291..6988) FT /codon_start=1 FT /gene="env" FT /product="envelope protein" FT /db_xref="GOA:E9N627" FT /db_xref="InterPro:IPR005166" FT /db_xref="InterPro:IPR018154" FT /db_xref="UniProtKB/TrEMBL:E9N627" FT /protein_id="ADV52240.1" FT /translation="MEAVIKAFLTGHPGKVSKKDSKKKPPAASKKDPEKTPLLPSRGYF FT FFQVILVCVVIISVVPGVGGVHLMQQPGNVWVTWANKTGQTDFCLSLQSATSPFRTCLI FT GIPQYPLNTFEGYVTNVTACNNTELANQTACLIRALNTTLPWDPQELDILGSQMIKNGT FT TRTCVTFGSVCYKENNRSRVCHTFDGNFNGTGGAEAELRDFIAKWKSDDPLIRPYINQS FT WTMVSPINTDSFSISSRYCGFTSNETRYYRGNLSDLSVWCKSKRGEWLEGYSNGTGCSN FT NTTGCGGNCTAEWNYYAYGFTFGNQPEVLWNNGTAKALPPGIFLICGDRAWQGIPSNAL FT GGPCYLGQLTMLSPNFTTWMTYGPNITGHRRSRRSLSHLPSDCSDEVQLGSATARIFAS FT FFAPGVAAAQALKEIERLACWSVKQANLTSLILNAMLEDMNSIRHAVLQNRAAIDFLLL FT AQGHGCQDVEGMCCFNLSDHSESIHKTLQAMKEHTEKIQVEDDPIGDWFTRTFGDLGRW FT LAKGVKTLLHALLVIVCLLAIIPCIIKCFQDCLPRTMNQFMDDRIRYHRIMEQL" FT gene 593..2698 FT /gene="gag" FT CDS 593..2698 FT /codon_start=1 FT /gene="gag" FT /product="gag polyprotein" FT /db_xref="GOA:E9N628" FT /db_xref="InterPro:IPR000721" FT /db_xref="InterPro:IPR001878" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR004028" FT /db_xref="InterPro:IPR008916" FT /db_xref="InterPro:IPR008919" FT /db_xref="InterPro:IPR009007" FT /db_xref="InterPro:IPR010999" FT /db_xref="InterPro:IPR012344" FT /db_xref="InterPro:IPR013084" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="UniProtKB/TrEMBL:E9N628" FT /protein_id="ADV52241.1" FT /translation="MEAVIKVISSACKTYCGKTSPSKKEIGAMLSLLQKEGLLASPSDL FT YSPGSWDPITAALSQRTMVLGKSGELKTWGLVLGALKAAREEQVTSEQAKFWLGLGGGR FT VSPPGPECIEKPATERRADKGEEAGETTAQRDAKMAPEETATPKTVGTSCYHCGTAIGC FT NCATASAPPPPYVGSGLYPSLAGVGEQQGQEGDTPPGAEQPRAEPGHASQAPGPALTDW FT ARVREELASTGPPVVAMPVVIKTEGPAWTPLEPKLITRLADTVRTKGLRSPITMAEVEA FT LMSSPLLPHDVTNLMRVILGPAPYALWMDAWGVQLQTVIAAATRDPRHPANGQGRGERT FT NLDRLKGLADGMVGNPQGQAALLRPGELVAITASALQAFREVARLAEPAGPWADITQGP FT SESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRAAPSTLTTPGEII FT KYVLDRQKTAPLTDQGIAAAMSSAIQPLVMAVVHRERDGQTGSGGRARGLCYTCGSPGH FT NQAQCPKKRKSGNSRERCQLCDGMGHNAKQCRKRDANQGQRPGRGLSSGSWPGPEPPAV FT SLAMTMEHKDRPLVRVILTNTGSHPVKQRSVYITALLDSGADITIISEEDWPTDWPVVD FT TANPQIHGIGGGIPMRKSRDMIELGVINRDGSLERPLLLFPAVAMVRGSILGRDCLQGL FT GLRLTNL" FT gene <2716..5337 FT /gene="pol" FT CDS <2716..5337 FT /codon_start=1 FT /gene="pol" FT /product="pol polyprotein" FT /db_xref="GOA:E9N629" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001037" FT /db_xref="InterPro:IPR001584" FT /db_xref="InterPro:IPR002156" FT /db_xref="InterPro:IPR003308" FT /db_xref="InterPro:IPR012337" FT /db_xref="InterPro:IPR017856" FT /db_xref="UniProtKB/TrEMBL:E9N629" FT /protein_id="ADV52242.1" FT /translation="TVALHLAIPLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQLG FT HIEPSLSCWNTPVFVIRKASGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLM FT VLDLKDCFFSIPLAEQDREAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLIVGQ FT VLEPLRLKHPSLCMLHYMDDLLLAASSHDRLEAAGEEVISTLERAGFTISPDKVQREPG FT VQYLGYKLGSTYVAPVGLVAEPRIATLWDVQKLVGSLQWLRPALGIPPRLMGPFYEQLR FT GSDPNEAREWNLDMKMAWREIVQLSTTAALERWDPALPLEGAVARCEQGAIGVLGQGLS FT THPKPCLWLFSTQPTKAFTAWLEVLTLLITKLRASAVRTFGKEVDTLLLPACFREDLPL FT PEGILLALKGFAGKIRSSDTPSIFDIARPLHVSLKVRVTDHPVPGPTVFTDASSSTHKG FT VVVWREGPRWEIKEIADLGASVQQLEARAVAMALLLWPTTPTNVVTDSAFVAKMLLKMG FT QKGVPSTAAAFILEDALSQRSAMAAVLHVRSHSEVPGFFTEGNDVADSQATFQAYPLRE FT AKDLHTALHIGPRALSKACNISMQQAREVVQTCPHCNSAPALEAGVNPRGLGPLQIWQT FT DFTLEPRMAPRSWLAVTVDTASSAIVVTQHGRVTSVAAQHHWATAIAVLGRPKAIKTDN FT GSCFTSKSTREWLARWGIAHTTGIPGNSQGQAMVERANRLLKDKIRVLAEGDGFMKRIP FT ASKQGELLAKAMYALNHFERGENTKTPIQKHWRPTILTEGPPVKIRIETGEWEKGWNVL FT VWGRGYAAVKNRDTDKVIWVPSRKVKPDITQKDEVTKKDEASPLFAGISDWAPWKSEQE FT GL" FT LTR 5338..7489 XX SQ Sequence 7489 BP; 1843 A; 1803 C; 2148 G; 1695 T; 0 other; tgtagtcata tgcaatactc ttgtgtaacg ataaaacagc aatatgcctt ataaggagtg 60 aaaaggcacc gtacacgtcg attggtggaa ctaggatggt atgatcgtgc cttatttgga 120 aggcaacaaa cgggtcttac atggattgga cgaactcctt agctccgccc cgcagagata 180 ctgtatttaa gtgcctagct cgatacaata aacgccattt tacctcccac cacattggtg 240 tgcacctggg ttgatggccg gaccgtcgat tccctgacaa ctacgagcac ctgcatgaag 300 cgaaaggctt catttggtga ccccgacgtg atagttaggg aatagtggtc ggccacggac 360 ggcgtggcga tcctgtcctc atccgtctcg cttattcggg gagcgggcga tgaccctagt 420 agagggggct gcggcttagg agggcagaag ctgagtggcg tcggagggag ctctactgca 480 gggagcccac ataccctacc gagaactcag agagtcgttg gaagacggga aggaagcccg 540 acgactgagc ggtccgcccc agacgtggtt ctggtcgccc ggaggatcaa gcatggaagc 600 cgtcataaag gtgatttcgt ccgcgtgtaa aacctattgc gggaaaacct ctccttctaa 660 gaaggaaata ggggccatgc tgtccctgct acaaaaggaa gggttgcttg cgtctccctc 720 agacttatat tccccggggt cctgggatcc cattactgcg gcgctctccc agcgaacaat 780 ggtacttgga aaatcggggg agttaaaaac ctggggattg gttttggggg cattgaaggc 840 agctcgagag gaacaggtta catctgagca ggcaaagttt tggttgggac tagggggagg 900 gagggtctct cccccaggtc cggagtgcat tgagaaacca gcaacggagc ggcgagccga 960 caagggggag gaagcgggag aaacaactgc gcagcgagat gcgaagatgg cgccggagga 1020 aacggccaca cctaagaccg ttggcacatc ctgctatcat tgcggaacag ctattggctg 1080 taattgcgcc acagcctcgg ctcctcctcc tccttatgtg gggagtggtt tgtatccttc 1140 cctggcgggg gtgggagagc agcagggcca ggagggtgac acacccccgg gggcggaaca 1200 gccaagggcg gagccagggc atgcgagcca ggcccctggg ccggccttga ctgactgggc 1260 aagggtcagg gaggagcttg cgagtactgg tccgcccgtg gtggccatgc ctgtagtaat 1320 taagacagag ggacccgcct ggacccctct ggagccaaaa ttgatcacaa gattggctga 1380 tacggtcagg accaagggct tacgatcccc gattactatg gcagaagttg aagcgcttat 1440 gtcctccccg ctgctgccgc atgacgttac gaatctaatg agagttattt taggacctgc 1500 cccatatgcc ttgtggatgg acgcttgggg tgtccaatta cagacggtta tagcggcagc 1560 cactcgcgac ccccgacacc cagcgaatgg tcaagggcgg ggggaacgga ctaatttgga 1620 tcgcttaaag ggtttagctg atggaatggt gggtaacccg cagggtcagg ccgcattatt 1680 gagaccgggg gaattggttg ctattacggc gtcggctctt caggcgttta gagaggttgc 1740 ccggctggcg gaacctgcag gtccatgggc ggacatcaca cagggaccat ctgagtcctt 1800 tgttgatttt gccaataggc ttataaaggc ggttgagggg tcagatctcc cgccttccgc 1860 gcgggctccg gtgatcattg actgctttag gcagaagtca cagccagata tccagcagct 1920 tatacgggca gcaccctcca cgctgaccac cccaggagag ataatcaaat atgtgctaga 1980 taggcagaag actgcccctc ttacggatca aggcatagcc gcggccatgt catctgctat 2040 ccagccctta gttatggcag tagtccatag agagagggat ggacaaactg ggtcgggtgg 2100 tcgtgcccga gggctctgct acacttgtgg atccccggga cataatcagg cgcagtgccc 2160 gaaaaaacga aaatcaggaa acagccgtga gcgatgtcag ttgtgtgacg ggatgggaca 2220 caacgctaaa cagtgtagga agcgggatgc caaccagggc caacgcccag gaagaggtct 2280 ctcttcgggg tcgtggcccg gccctgagcc gcctgccgtc tcgttagcaa tgacaatgga 2340 acataaagat cgccccttgg ttagggtcat tctgactaac actgggagtc acccggtcaa 2400 acagcgttcg gtgtatatca ccgcgctgtt ggactctgga gcggacatca ctattatttc 2460 ggaagaggat tggcctactg attggccggt ggtggacacc gcgaacccac agatccatgg 2520 cataggaggg ggaatcccca tgcgaaaatc tcgtgacatg atagaattgg gagttattaa 2580 ccgagacggg tctttggagc gacccctgct cctcttcccc gcagtagcta tggtcagagg 2640 gagtatccta ggaagagatt gtctgcaggg cctagggctc cgcttgacaa atttataggg 2700 agggccactg ttcttactgt tgcgctacat ctggctattc cgctcaaatg gaagccagac 2760 cacacgcctg tgtggattga ccagtggccc cttcccgagg gtaaacttgt agcgctaacg 2820 caattagtgg aaaaagaatt acagttagga cacatagaac cctcgcttag ttgttggaac 2880 acgcctgttt ttgtgatccg gaaggcttct gggtcttacc gcttattgca tgatttgcgc 2940 gctgttaacg ccaagcttgt tccttttggg gccgtccaac agggggcgcc ggttctctcc 3000 gcgctcccgc gtggctggcc cctgatggtc ctagacctca aggattgctt cttttctatt 3060 cctcttgcgg aacaagatcg cgaagctttt gcatttacgc tcccctctgt gaataaccag 3120 gcccccgctc gaagatttca atggaaggtc ttgccccaag ggatgacctg ttctcccact 3180 atctgtcagt tgatagtggg tcaggtactt gagcccttgc gactcaagca cccatctctg 3240 tgcatgttgc attatatgga tgatcttttg ctagccgcct caagtcacga caggttggaa 3300 gcggcagggg aggaggttat tagtacattg gaaagagccg ggttcaccat ttcgcctgat 3360 aaggtccaga gggagcccgg agtacaatat cttgggtaca agttaggcag tacgtatgta 3420 gcacctgtag gcctggtagc agaacccagg atagccacct tgtgggatgt tcaaaagttg 3480 gtggggtcac ttcagtggct tcgccctgca ttaggaatcc cgccacggct gatgggcccc 3540 ttttatgagc agttacgagg gtcagatccc aacgaggcga gggaatggaa tctagacatg 3600 aaaatggcct ggagagagat cgtacagctt agcaccactg ctgccttgga acgatgggac 3660 cctgccctgc ctctggaagg agcggttgct agatgtgaac agggggcaat aggggtcctg 3720 ggacagggac tgtccacaca cccaaagcca tgcttgtggt tattctccac ccaacccacc 3780 aaggcgttta ctgcttggtt agaagtgctc acccttttga ttactaagct acgtgcttcg 3840 gcagtgcgaa cctttggcaa ggaggttgat accctcctgt tgcctgcatg ctttcgggag 3900 gaccttccgc tcccggaggg gatcctgtta gcccttaagg ggtttgcagg aaaaatcagg 3960 agtagtgaca cgccatctat ttttgacatt gcgcgtccac tgcatgtttc tctgaaagtg 4020 agggttaccg accaccctgt accgggaccc actgtcttta ccgacgcctc ctcaagcacc 4080 cataaggggg tggtagtctg gagggagggc ccaaggtggg agataaaaga aatagctgat 4140 ttgggagcaa gtgtacaaca actggaagca cgcgctgtgg ccatggcact tctgctgtgg 4200 ccgacaacgc ccactaatgt agtgactgac tccgcgtttg ttgcgaaaat gttactcaag 4260 atgggacaga agggagtccc gtctacagcg gcggctttta ttttagagga tgcgttaagc 4320 caaaggtcag ccatggccgc cgttctccac gtgcggagtc attctgaagt gccagggttt 4380 ttcacagaag gaaatgacgt ggcagatagc caagccacct ttcaagcgta tcccttgaga 4440 gaggctaaag atcttcatac tgctctccat attggacccc gcgcgctatc caaagcgtgt 4500 aatatatcta tgcagcaggc tagggaggtt gttcagacct gcccgcattg taattcagcc 4560 cctgcgttgg aggccggggt aaaccctagg ggtttgggac ccctacagat atggcagaca 4620 gactttacgc ttgagcctag aatggccccc cgttcctggc tcgctgttac tgtggatacc 4680 gcctcatcgg cgatagtcgt aactcagcat ggccgtgtca catcggttgc tgcacaacat 4740 cattgggcca cggctatcgc cgttttggga agaccaaagg ccataaaaac agataacggg 4800 tcctgcttca cgtctaaatc cacgcgagag tggctcgcga gatgggggat agcacacacc 4860 accgggattc cgggtaattc ccagggtcaa gctatggtag agcgggccaa ccggctcctg 4920 aaagataaga tccgtgtgct tgcggagggg gacggcttta tgaaaagaat ccccgccagc 4980 aaacaagggg aactactagc caaggcaatg tatgccctca atcactttga gcgtggtgaa 5040 aacacaaaaa caccgataca aaaacactgg agacctacca tccttacaga aggacccccg 5100 gttaaaatac gaatagagac aggggagtgg gaaaaaggat ggaacgtgct ggtctgggga 5160 cgaggttatg ccgctgtgaa aaacagggac actgataagg ttatttgggt accctctcga 5220 aaagttaaac cggacatcac ccaaaaggat gaggtgacta agaaagatga ggcgagccct 5280 ctttttgcag gcatttctga ctgggcaccc tggaaaagtg agcaagaagg actctaagaa 5340 gaagccgcca gcagcaagca agaaagaccc ggagaagaca cccttgctgc catcgagagg 5400 ttacttcttc tttcaagtaa tacttgtgtg cgtggttatt atttccgtcg tcccaggggt 5460 ggggggagtt catctgatgc aacaaccagg aaacgtgtgg gtcacctggg caaacaagac 5520 aggccaaaca gatttttgcc ttagtctgca gtcagcgacc tcaccattcc gcacctgctt 5580 gataggcatt ccacagtatc ctctgaacac ctttgagggg tatgtcacta atgttactgc 5640 ttgcaacaac accgagttag ccaaccaaac agcatgcttg atacgggctc taaatacaac 5700 cctcccttgg gacccccaag aattggatat tttagggtcc cagatgatca agaacggaac 5760 aacacgtacg tgtgttacct ttggttcggt gtgctataaa gagaacaatc gcagtagagt 5820 ctgtcacact tttgatggga attttaatgg gactggtggg gcggaagcag aattgcgtga 5880 cttcatagca aaatggaaaa gtgatgaccc tcttataagg ccctatatca accaatcatg 5940 gacgatggta agtccaataa acacagacag tttttcaata agtagtagat attgtggatt 6000 caccagtaac gagactcgtt attatagagg gaacctttct gacctttctg tttggtgtaa 6060 atcaaaaagg ggagaatggt tagaagggta cagcaatggg acaggatgct ccaacaacac 6120 gacaggttgt ggtggtaatt gcacagcgga atggaattat tatgcatacg ggtttacctt 6180 cgggaatcag ccagaggtgt tgtggaacaa tgggactgct aaggcactcc ctccaggtat 6240 tttcttgatc tgtggggaca gggcttggca aggtatcccg agtaatgcct tgggagggcc 6300 ctgttatcta ggacaattga ctatgctctc tcctaacttt accacctgga tgacgtatgg 6360 gccgaacatt acgggtcacc gccgtagcag gcgctcgctg agtcatctcc cgtctgactg 6420 cagtgacgag gtacaactag ggagtgcgac agcccggata tttgcttctt tctttgctcc 6480 tggtgtagcc gcagcacagg ccttaaagga gattgaacgc ttggcatgtt ggtcggtcaa 6540 gcaagcgaat ttaacatcat taatattgaa tgcgatgctg gaggacatga acagcatccg 6600 gcacgcggtg ttgcagaatc gagcagccat cgatttctta ctcctggcgc aaggacacgg 6660 gtgtcaagac gtggaaggga tgtgctgctt caatctcagc gatcacagtg agtccattca 6720 caagacgctc caagccatga aggaacatac agagaagata caggtggaag atgatcccat 6780 aggggattgg tttacgcgca cgtttggtga tctaggaagg tggctcgcga aaggtgttaa 6840 gacgctgctg catgccttgc ttgttatagt ctgtctatta gctatcattc catgtataat 6900 caagtgcttc caggattgtc taccgagaac aatgaatcag tttatggacg accgcataag 6960 atatcataga attatggagc agctgtaggt tccgaacgcg atgtgacggg aggctgccac 7020 gggtaggtca tgaagcttgc gaatcgggct gtaacggggc aaggcttgac tgaggggaca 7080 gcggcatgta taggcggaga gcggggcttc ggttgtacgc ggttaggagt cccctcagga 7140 tatagtggtt acgctttcgc ataagggggg ggaaatgtag tcatatgcaa tactcttgtg 7200 taacgataaa acagcaatat gccttataag gagtgaaaag gcaccgtaca cgtcgattgg 7260 tggaactagg atggtatgat cgtgccttat ttggaaggca acaaacgggt cttacatgga 7320 ttggacgaac tccttagctc cgccccgcag agatactgta tttaagtgcc tagctcgata 7380 caataaacgc cattttacct cccaccacat tggtgtgcac ctgggttgat ggccggaccg 7440 tcgattccct gacaactacg agcacctgca tgaagcgaaa ggcttcatt 7489 //