LOCUS DQ365814 7704 bp DNA linear VRL 26-JUL-2016
DEFINITION Avian leukosis virus strain MQNCSU, complete genome.
ACCESSION DQ365814
VERSION DQ365814.1
KEYWORDS .
SOURCE Avian leukosis virus
ORGANISM Avian leukosis virus
Viruses; Riboviria; Pararnavirae; Artverviricota; Revtraviricetes;
Ortervirales; Retroviridae; Orthoretrovirinae; Alpharetrovirus.
REFERENCE 1 (bases 1 to 7704)
AUTHORS Chesters,P.M., Howes,K. and Nair,V.
TITLE Isolation and Characterization of an Avian Leukosis Virus from
Chicken Macropohage Cell Line MQ-NCSU
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7704)
AUTHORS Chesters,P.M., Howes,K. and Nair,V.
TITLE Direct Submission
JOURNAL Submitted (16-JAN-2006) Department of Viral Oncogenesis, Institute
for Animal Health, High Street, Compton, Newbury, Berkshire RG20
7NN, UK
FEATURES Location/Qualifiers
source 1..7704
/organism="Avian leukosis virus"
/mol_type="genomic DNA"
/strain="MQNCSU"
/db_xref="taxon:11864"
/country="USA"
/note="subgroup: A"
repeat_region 1..314
/note="5' LTR"
/rpt_type=long_terminal_repeat
repeat_region 1..213
/note="U3"
/rpt_type=direct
5'UTR 214..592
repeat_region 214..234
/note="R"
/rpt_type=direct
repeat_region 235..314
/note="U5"
/rpt_type=direct
gene 593..7105
/gene="env"
CDS join(593..610,5300..7105)
/gene="env"
/codon_start=1
/product="envelope polyprotein"
/protein_id="ABC94884.1"
/translation="MEAVIKAFLTGYPGETSKKDSKKKPPATSKKDPEKTPLLPTRVN
YILIIGVLVLCEVTGVRADVHLLEQPGNLWITWANRTGQTDFCLSTQSATSPFQTCLI
GIPSPISEGDFKGYASDTNCATSETDRLVSSADFTGGPDNSTTLTYRKVSCLLLKLNV
SMWDEPPELQLLGSQSLPNITNITQISGVTGGCVGFRPKGVPWYLGWSRQEATRFLLR
RPSFSNSSKPFTVVTADRHNLFTGSEYCGAYGYRFWNIYNCSQVGQQYRCGNARRPRP
GHPETQCTRRGGKWVNQSQKINETEPFSFTVTCTASNLGNVSGCCGKAGMILPGIWVD
STQDSFTKPKALPPAIFLICGDRAWQGIPSRPVGGPCYLGKLTMLAPNHTDILKVLAN
SSRTGIRRKRNTSHLDDTCSDEVRLWGPTARIFASILAPGVAAAQALREIERLACWSV
KQANLTTSLLGDLLDDVTSIRHAVLQNRAAIDFLLLAHGHGCEDVAGMCCFNLSDHSE
SIQKKFQLMKEHVNKIGVDSDPIGSWLRGIFGGIGEWAVHLLKGLLLGLVVILLLVVC
LPCLLQFVSNSIRKMINNSISYHTEYKKLQKACGQPESRIV"
mat_peptide 5474..6493
/gene="env"
/product="gp85 (SU) domain"
mat_peptide 6494..7102
/gene="env"
/product="gp37 (TM) domain"
gene 593..2707
/gene="gag"
CDS 593..2707
/gene="gag"
/codon_start=1
/product="gag polyprotein"
/protein_id="ABC94885.1"
/translation="MEAVIKVISSACKTYCGKTSPSKKEIGAMLSLLQKEGLLMSPSD
LYSPGSWDPITAALSQRAMVLGKSGESKTWGLVLGALKAAREEQVTSEQAKFWLGLGG
GRVSPPGPECIEKPATERRIDKGEEVGETTVQRDAKMAKMAPEETTTPKTVGTSCYHC
GTAVGCNCAAASAPPPPYVGSGLYPSLAGVGEQQGQGGDTPRGAEQPRAEPGHAGLAP
GPALTDWARIREELASTGPPVVAMPVVIKTEGPAWTPLEPKLITRLADTVRTKGLRSP
ITMAEVEALMSSPLLPHDVTNLMRVILGPAPYALWMDAWGVQLQTVIAAATRDPRHPA
NGQGRGERTNLDRLKGLADGMVGNPQGQAALLRPGELVAITASALQAFREVARLAEPA
GPWADITQGPSESFVDFANRLIKAVEGSDLPPSARAPVIIDCFRQKSQPDIQQLIRAA
PSTLTTPGEIIKYVLDRQKTAPLTDQGIAAAMSSAIQPLVMAVVNRERDGQTGSGGRA
RGLCYTCGSPGHYQAQCPKKRKSGNSRERCQLCDGMGHNAKQCRKRDGNQGQRPGRGL
SSGPWPGPEPPAVSLAMTMEHKDRPLVRVILTNTGSHPVKQRSVYITALLDSGADITI
ISEEDWPTDWPVVDTANPQIHGIGGGIPMRKSRDMIELGVINRDGSLERPLLLFPAVA
MVRGSILGRDCLQGLGLRLTNL"
mat_peptide 836..1132
/gene="gag"
/product="p2"
mat_peptide 1133..1318
/gene="gag"
/product="p10"
mat_peptide 2066..2332
/gene="gag"
/product="nucleocapsid protein NCp12"
mat_peptide 2333..2704
/gene="gag"
/product="protease PR p15"
gene <2725..5412
/gene="pol"
CDS <2725..5412
/gene="pol"
/codon_start=1
/product="polymerase polyprotein"
/protein_id="ABC94886.1"
/translation="TVALHLAIPLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQL
GHIEPSLSCWNTPVFVIRKASGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPHGWP
LMVLDLKDCFFSIPLAEQDREAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLV
VGQVLEPLRLKHPSLRMLHYMDDLLLAASSHDGLEAAGEEVISTLERAGFTISPDKIQ
KEPGVQYLGYKLGSTYVAPVGLVAEPRIATLWDVQKLVGSLQWLRPALGIPPRLMGPF
YEQLRGSDPNEAREWNLDMKMAWREIVQLSTTAALERWDPALPLEGAVARCEQGAIGV
LGQELSTHPRPCLWLFSTQPTKAFTAWLEVLTLLITKLRASAVRTFGKEVDILLLPAC
FREDLPLPEGILLALRGFAGKIRSSDTPSIFDIARPLHVSLKVRVTDHPVPGPTVFTD
ASSSTHKGVVVWREGPRWEIKEIADLGASVQQLEARAVAMALLLWPTAPTNVVTDSAF
VARMLLKMGQEGVPSTAAAFILEDALSQRSAMAAVLHVRSHSEVPGFFTEGNDVADSQ
ATFQAYPLREAKDLHTTLHIGPRALSKACNISMQQAREVVQTCPHCNSAPALEAGVNP
RGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVTQHGRVTSVAAQHHWATAIA
VLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQGQAMVERANRLLKDKIR
VLAEGDGFMKRIPTSKQGELLAKAMYALNHFERGENTKTPIQKHWRPTVLTEGPPVKI
RIETGEWEKGWNVLVWGRGYAAVKNRDTDKVIWVPSRKVKPDITQQDEVTKKDEASPL
FAGISDWIPWGDKQEGLQEEAASNKQEGPGEDTLAANES"
mat_peptide 2725..5409
/gene="pol"
/product="reverse transcriptase beta subunit"
mat_peptide 2725..4440
/gene="pol"
/product="reverse transcriptase alpha subunit"
mat_peptide 4411..5409
/gene="pol"
/product="integrase IN p32"
3'UTR 7106..7605
misc_feature 7255..7395
/note="E or XSR element"
repeat_region 7391..7704
/note="3' LTR"
/rpt_type=long_terminal_repeat
repeat_region 7391..7605
/note="U3"
/rpt_type=direct
repeat_region 7606..7626
/note="R"
/rpt_type=direct
repeat_region 7627..7704
/note="U5"
/rpt_type=direct
ORIGIN
1 tgtagtctta cacaataatg ttatgtaacg atgaaacagc aatatgcctt ataaggagag
61 aaagggtacc gtgcatgatg attggtggaa gtaaggtggt acgatcgtgc cttattagga
121 aggtaacaga cgggtcttac acggattgga cgatctcctt gattccgcat agtagaaatg
181 ttgtatttaa gtagctagct tgatacaata aacgccattt taccatccac cacattggtg
241 tgcacctggg tagatggccg gaccgtcgat tccctgacga ctacgagcac ctgtatgaag
301 cagaaggctt catttggtga ccccgacgtg atcgttaggg aatagtggtc ggccacagac
361 ggcgtggcga tcctgtcctc atccgtctcg cttattcggg gagcggacga tgaccctagg
421 agagggggct gcggcttagg agggcagaag ctgagtggcg tcggagggag ctctactgca
481 gggagccaac ataccctacc gagccctcag agagtcgttg gaagacggga aggaagcccg
541 acgactgagc ggtccacccc agacgcggtt ctggtcgccc ggaggatcaa gtatggaagc
601 cgtcataaag gtgatttcgt ccgcgtgcaa aacctattgc ggaaaaacct ctccttctaa
661 gaaggaaata ggggccatgt tgtccctctt acaaaaggaa gggttgctta tgtctccctc
721 agacttatac tccccggggt cctgggatcc cattaccgcg gcgctctccc agcgagctat
781 ggtacttggg aaatcgggag agtcaaaaac ctggggattg gttttgggag cattgaaggc
841 ggctcgagag gaacaggtta catctgagca agcgaagttt tggttgggat tagggggagg
901 gagggtctct cccccaggtc cggagtgcat cgagaaacca gcaacggagc ggcgaatcga
961 caagggggag gaagtgggag aaacaactgt gcagcgagat gcgaagatgg cgaagatggc
1021 gccggaggaa acgaccacgc ctaaaaccgt tggcacatcc tgttatcatt gcggaacagc
1081 cgttggctgt aattgcgcag cagcctcggc tcctcctcct ccttatgtgg ggagtggttt
1141 gtatccttcc ctggcggggg tgggagagca gcagggccag gggggtgaca cacctcgggg
1201 ggcggaacag ccaagggcgg agccagggca cgcgggtctg gcccctgggc cggccctgac
1261 tgactgggca aggatcaggg aggagcttgc gagtacaggt ccgcccgtgg tggccatgcc
1321 tgtagtgatt aagacagagg gacccgcctg gacccctctg gagccaaaat tgatcacaag
1381 actggctgat acggtcagga ccaagggctt acgatccccg attactatgg cagaagtgga
1441 agcgcttatg tcctccccgc tgctgccgca tgacgtcacg aatctaatga gagttatttt
1501 aggacctgcc ccatatgcct tatggatgga cgcttgggga gtccaactac agacggttat
1561 agcggcagcc actcgcgacc cccgacaccc agcgaatggt caagggcggg gggaacggac
1621 taacttggat cgcttaaagg gcttggcgga tgggatggtt ggtaatccac agggtcaggc
1681 tgcattatta agaccggggg aattggtcgc tatcacggca tcggctctcc aggcgtttag
1741 agaagttgcc cggctggcgg aacctgcagg tccatgggcg gacatcacgc agggaccatc
1801 tgagtccttt gttgatttcg ccaatcggct tataaaggcg gttgaggggt cagatctccc
1861 gccttccgcg cgggctccgg tgatcattga ctgctttagg cagaagtcac agccagatat
1921 ccagcagctt atacgggcag caccttccac gctgaccacc ccaggagaga taatcaaata
1981 tgtgttagac aggcagaaga ccgcccctct tacggatcaa ggcatagctg cggccatgtc
2041 gtctgctatt cagcccttag ttatggcagt agtcaataga gagagggatg gacaaactgg
2101 gtcgggtggt cgtgcccgag ggctctgcta cacttgtgga tccccgggac attatcaggc
2161 gcagtgcccg aaaaaacgaa agtcaggaaa cagccgtgag cgatgtcagt tgtgtgacgg
2221 gatggggcac aatgctaaac agtgtaggaa gcgggatggc aaccagggtc aacgcccggg
2281 aagaggtctc tcttcggggc cgtggcccgg ccctgagccg cctgccgtct cgttagcgat
2341 gacaatggaa cataaagatc gccccttggt tagggtcatt ctgactaaca ctgggagcca
2401 tccggtcaaa cagcgttcgg tgtatatcac cgcgctgttg gactccggag cggacatcac
2461 tattatttcg gaggaggatt ggcctactga ttggccggtg gtggacaccg cgaacccaca
2521 gatccatggc ataggagggg gaattcccat gcgaaaatct cgtgacatga tagagttggg
2581 ggttattaac cgagacgggt ccttggagcg acccctgctc ctcttccccg cagtggctat
2641 ggttagaggg agtatcctgg gaagagactg tctgcagggc ctagggctgc gcttgacaaa
2701 tttataggga gggccactgt tcttactgtt gcgctacatc tggccattcc gctcaaatgg
2761 aagccggacc acacgcctgt gtggattgac cagtggcccc ttcctgaagg taaacttgta
2821 gcgctaacgc aattagtgga aaaagaatta cagttaggac atatagaacc ttcacttagt
2881 tgttggaaca cacctgtctt cgtgatccgg aaggcttccg ggtcttaccg cttattgcat
2941 gatctgcgcg ctgttaatgc caagcttgtt ccctttgggg ccgtccaaca gggggcgcca
3001 gttctctctg cgctcccgca tggctggccc ctaatggtcc tagaccttaa ggattgcttc
3061 ttctctattc ctcttgcgga acaagatcgc gaagcttttg cattcacgct cccctctgtg
3121 aataaccagg cccccgctcg aagatttcaa tggaaggtct taccccaggg gatgacctgt
3181 tctcccacta tctgccagct ggtagtgggt caggtacttg agcccttgcg actcaagcac
3241 ccatctctgc gcatgttgca ttatatggac gatcttttgc tagccgcctc aagtcatgat
3301 gggttggaag cggcagggga ggaggttatc agtacattgg aaagagccgg gttcaccatt
3361 tcgcctgata agatccagaa ggagcccggc gttcaatatc ttgggtataa gttaggcagt
3421 acatatgtag cacccgtagg cttggtagca gaacccagga tagccactct gtgggatgtt
3481 caaaagttgg tagggtcact tcagtggctt cgcccagcgt taggaatccc gccaagactg
3541 atgggccctt tttatgagca gttacgaggg tcagatccta acgaagcgag ggaatggaat
3601 ctggacatga aaatggcctg gagagagatt gtacagctta gtaccactgc tgccctggaa
3661 cgatgggacc ctgccctgcc tctggaggga gcggtcgcca ggtgtgaaca gggggcaata
3721 ggggtcctgg gacaggaact gtccacacac ccaaggccat gtttgtggtt attctccacc
3781 caacccacca aggcgtttac tgcttggtta gaagtgctca cccttttgat tactaagcta
3841 cgcgcttcgg cagtgcgaac ctttggcaag gaggttgata tcctcctgtt gcctgcatgc
3901 tttcgggagg accttccgct cccggagggg atcctgttag cacttagggg gtttgcagga
3961 aaaatcagga gtagtgacac gccatctatt tttgacattg cgcgtccact gcatgtttct
4021 ctgaaagtga gggttaccga ccaccctgtg ccgggaccca ctgtctttac cgacgcctcc
4081 tcaagcaccc ataagggggt ggtagtctgg agggagggcc caaggtggga gataaaagaa
4141 atagctgatt tgggggcaag tgtacaacaa ctggaggcac gcgctgtggc catggcactt
4201 ctgctgtggc cgacagcgcc cactaatgta gtgactgact ctgcgtttgt tgcgagaatg
4261 ttactcaaga tgggacagga gggagtcccg tctacagcgg cggcttttat tttagaggat
4321 gcgttaagcc aaaggtcagc catggccgcc gttctccacg tgcggagtca ttctgaagtg
4381 ccagggtttt tcacagaagg aaatgatgtg gcagacagcc aagccacctt tcaagcatat
4441 cccttgagag aggctaaaga tcttcatact actctccata ttggaccccg cgcgctatcc
4501 aaagcgtgta atatatctat gcagcaggct agggaggttg ttcagacctg cccgcattgc
4561 aattcagccc ctgcgttgga ggccggggta aaccctaggg gtttgggacc cctacagata
4621 tggcagacag actttacgct tgagcctagg atggcccccc gttcctggct cgctgttact
4681 gtggataccg cctcatcagc gatagtcgta actcagcatg gccgtgtcac atcagttgct
4741 gcacaacatc attgggccac ggccatcgcc gttctgggaa gaccaaaggc cataaaaaca
4801 gataacgggt cctgcttcac gtctaaatcc acgcgagagt ggctcgcgag atgggggata
4861 gcacacacca ccgggattcc gggtaattcc cagggtcaag ctatggtaga gcgggccaac
4921 cggctcctga aagataagat ccgcgtgctc gcggaggggg acggctttat gaaaagaatc
4981 cccaccagca aacaggggga actactagcc aaggcaatgt atgccctcaa tcactttgag
5041 cgtggtgaaa acacaaaaac accgatacaa aaacactgga gacctaccgt tcttacagaa
5101 ggacccccgg ttaaaatacg aatagagaca ggggagtggg agaaaggatg gaatgtgctg
5161 gtctggggac gaggttatgc cgctgtgaaa aacagggaca ctgataaggt tatttgggta
5221 ccctctcgaa aagttaaacc ggacattacc caacaggatg aggtgactaa gaaagatgag
5281 gcgagccctc tttttgcagg catttctgac tggataccct ggggagacaa gcaagaagga
5341 ctccaagaag aagccgccag caacaagcaa gaaggacccg gagaagacac ccttgctgcc
5401 aacgagagtt aactatattc tcatcattgg tgtcctggtc ctgtgtgagg ttacgggggt
5461 aagagctgat gttcacttac tcgagcagcc ggggaacctt tggattacat gggccaaccg
5521 tacaggccaa acggatttct gcctttctac acagtcagcc acctcccctt ttcaaacatg
5581 tttgataggt atcccgtccc ctatttctga gggtgatttt aagggatatg cttctgatac
5641 aaattgcgcc acctcggaaa ctgaccggtt agtctcgtca gctgacttta ctggcggtcc
5701 tgacaacagc accaccctca cttatcggaa ggtctcatgc ttattattaa agctcaatgt
5761 ttctatgtgg gatgagccac ctgaactaca gctgttaggt tcccagtctc tccctaacat
5821 tactaatatt actcagatct ccggtgtaac cgggggatgc gtaggcttca ggccaaaagg
5881 ggttccttgg tatctgggtt ggtctagaca ggaagccacg cggtttctcc ttagacgccc
5941 ctctttctct aactcctcga aaccgtttac agtggtgaca gcggataggc acaatctttt
6001 cacggggagt gagtactgcg gtgcatatgg ctacagattt tggaacatat ataactgctc
6061 acaggtgggg cagcagtacc gctgtggcaa tgcacgccgc ccccgcccgg gtcatcctga
6121 aacccagtgt acaaggagag gaggcaaatg ggttaatcaa tcacagaaaa ttaatgagac
6181 agagccgttc agctttacgg taacctgtac agctagtaat ttgggtaatg tcagtgggtg
6241 ttgcggaaaa gcaggcatga ttctcccggg aatctgggtc gacagcacac aagatagttt
6301 caccaaacca aaagcgctac cacccgcaat tttcctcatt tgtggggatc gcgcatggca
6361 aggaattccc agtcgtccgg tagggggccc ctgctattta ggcaagctta ccatgttagc
6421 acctaaccat acagatattc tcaaggtgct tgccaattca tcgcggacag gtataagacg
6481 taaacgaaac acctcacacc tggatgatac atgctcagat gaagtacggc tttggggtcc
6541 tacagcaaga atctttgcat ctatcttagc cccgggggta gcagctgcac aagccttaag
6601 agaaatcgag agactagcct gttggtccgt taaacaggct aacttaacta catcactcct
6661 cggggactta ttggatgatg tcacgagtat tcgtcacgcg gtcctgcaga accgagcggc
6721 tattgacttc ttgctcctag ctcacggcca tggctgtgag gacgttgccg gaatgtgttg
6781 tttcaatctg agtgatcaca gtgagtctat acagaagaag ttccagctaa tgaaggaaca
6841 tgtcaataag atcggcgtag acagcgaccc aatcggaagt tggctgcgag ggatattcgg
6901 aggaatagga gagtgggccg ttcatttgct gaaaggactg cttttggggc ttgtagttat
6961 tttgttgtta gtagtgtgcc tgccgtgcct tttgcaattt gtgtccaata gcatccgaaa
7021 gatgattaat aattccatca gctaccacac ggaatataag aagctgcaaa aggcctgtgg
7081 gcagcctgaa agcagaatag tataaggcag tacatgggtg gtgatatagc gcttgcgagt
7141 cgggctgtaa cggggcatgg cttaactaag gggactatgg catgtatagg cgtaaagcgg
7201 ggcttcggtt gtacgcggtt aggagtcccc ctaggatata gtaggcacgc ttttgcataa
7261 cttccttgtt ttgcccttag actattcaag ttgcctctgt ggattagggc tggagacagc
7321 tcggatggtc tgatggccag ataaggtggg caagaaaact atgaaatacg cttttgcata
7381 gggaggggga aatgtagtct tacacaataa tgttatgtaa cgatgaaaca gcaatatgcc
7441 ttataaggag agaaagggta ccgtgcatga tgattggtgg aagtaaggtg gtacgatcgt
7501 gccttattag gaaggtaaca gacgggtctt acacggattg gacgatctcc ttgattccgc
7561 atagtagaaa tgttgtattt aagtagctag cttgatacaa taaacgccat tttaccatcc
7621 accacattgg tgtgcacctg ggtagatggc cggaccgtcg attccctgac gactacgagc
7681 acctgtatga agcagaaggc ttca
//
