Typing tool
|
Complete norovirus genomes
JX459904 | GII.4 New Orleans | ||
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GII.P4 New Orleans |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS JX459904 7559 bp RNA linear VRL 10-MAY-2013 DEFINITION Norovirus Hu/GII.4/Doonside/NSW536I/2011/AU, complete genome. ACCESSION JX459904 VERSION JX459904.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/Doonside/NSW536I/2011/AU ORGANISM Norovirus Hu/GII.4/Doonside/NSW536I/2011/AU Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7559) AUTHORS Eden,J.S., Tanaka,M.M., Boni,M.F., Rawlinson,W.D. and White,P.A. TITLE Recombination within the Pandemic Norovirus GII.4 Lineage JOURNAL J. Virol. 87 (11), 6270-6282 (2013) PUBMED 23536665 REFERENCE 2 (bases 1 to 7559) AUTHORS Eden,J.-S. and White,P.A. TITLE Direct Submission JOURNAL Submitted (06-AUG-2012) School of Biotechnology and Biomolecular Sciences, University of New South Wales, Anzac Parade, Sydney, NSW 2052, Australia FEATURES Location/Qualifiers source 1..7559 /organism="Norovirus Hu/GII.4/Doonside/NSW536I/2011/AU" /mol_type="genomic RNA" /strain="Hu/GII.4/Doonside/NSW536I/2011/AU" /host="Homo sapiens" /db_xref="taxon:1241968" /country="Australia" /collection_date="Aug-2011" /note="genotype: GII.4" 5'UTR 1..4 CDS 5..5104 /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="AFV08782.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM PELKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHIRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5085..6707 /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="AFV08783.1" /translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHISGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFVTNQNTKFTPVGVIQDG STTPRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKTGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6707..7513 /note="minor structural protein" /codon_start=1 /product="VP2" /protein_id="AFV08784.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSSLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFFETDAARGAIN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPTRGPSSTSS NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRSLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" 3'UTR 7514..7559 ORIGIN 1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaagtg atggagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc 181 acctactcca gaactggtta aaaatattcc ccctccccca cccaacggag aggatgaaat 241 agtggtttct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag 301 gcagccggaa gaatccaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag 361 agacgctaag gagccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca 421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccgc cagctgccat 481 cagcctcgct aaggttgagc tagcaccact ctccttgtac tggagacctg tgtacactcc 541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagaaacgt tcccctacac 601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctaa atgactcgtg 661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa 721 taggaaaccc cttcccacta tggatgattc caaaataaag aaggtagcta acatatttct 781 gtgtgctctg tcctcgctat tcaccagacc cataaaagat ataataggga agataaggcc 841 tcttaacatc ctcaacatct tagcctcatg tgattggacc tttgcgggca tagtggagtc 901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct 1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg 1081 gaaaatgttg tcatctgctg cgtccacctt gagagcttgt aaagatcttg gtgcatatgg 1141 gctagagatc ctaaagttag tcatgaaatg gttcttcccg aagaaggagg aggcaaatga 1201 gctggctata gtgaggtcca tcgaggatgc tgttctggat ctcgaggcaa ttgaaaacaa 1261 tcatatgacc accttgctca aagataaaga cagtctggca acctacatga gaacacttga 1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg 1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa 1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat 1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga 1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct 1681 gcaagaactc gctgacactt gccccctcac tctgaactgt gacaggattg aaaataaagg 1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtgt atgcagaagc 1861 ccctgaagtc gaaaaggcca agcgtgactt cccaggccag cctgacatgt ggaagaacgc 1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa 1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat 2041 tgcccgggca tcagggctac ttcatgagag gttagatgaa tttgaactgc agggcccagc 2101 tctcaccacc ttcaatttcg accgcaataa agtgcttgcc tttagacagc ttgctgctga 2161 aaataaatat ggattgatgg acacaatgag agttgggaaa cagctcaagg atgtcagaac 2221 catgccagag ctcaaacaag cactcaagaa tgtctcaatc aagaagtgtc aaatagtgta 2281 tagtggttgc acctacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacagaat 2341 ccaaagcgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtg 2401 cgccagaatc agatactatg tcaagtgtgt ccaggaagcc ctgtattcca tcatccaaat 2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg 2521 gtccaagcca caagtggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc 2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gcaagaaagg 2641 gaagaacaag actggccgtg gcaagaagca cacagcattt tcaagcaaag gcctcagtga 2701 tgaagagtac gatgaataca agaggattag agaagaaagg aatggcaagt actctataga 2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag 2881 gaaacaacgc aaggaggaaa gggtctctct cggtctggtc acaggctctg aaattaggaa 2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt 3001 ggactacaat gagaaactca gttttgaggc cccaccaagc atttggtcga gaatagtcaa 3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt 3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa 3181 gtcaggcgag ttctgtcgct tgagattccc taaaccaatc aggactgatg tgacgggcat 3241 gatcttagaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggtccac 3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg 3361 gcgcactgtt gggggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga 3421 cctgggtact acaccaggtg attgtggctg cccctatatc tacaagagag gtaatgacta 3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac 3541 ccaggggagt gaaggagagg ctacacttga gggtggtgac aacaagggga catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag 3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga 3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaaaccatt 3781 cacagagccc aggggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat 3841 cattaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg 3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacatacgga aaaacgactg 3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat 4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt 4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggacttggc 4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcgcactg 4201 tgtcacactt cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga 4261 gaggcattcc aggtacacgt accactatga tgctgattac tctcgatggg attcaacaca 4321 acagagagcc gtgctggcag cagctctaga aatcatggtt aaattctccc cagaaccaca 4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc 4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tgtctcctga 4561 taccatacag gctaattccc tcttctcttt ttatggtgat gacgaaattg ttagcacaga 4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac 4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc 4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat 4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca 4921 cggcccagca ttttacagca aaatcagcaa gttggtcatt gcagagctaa aagaaggtgg 4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggcttt ggagcccgta gttggtgccg ctattgcggc acctgtagcg ggccagcaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcctttaggc cctgatctga 5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaatcct cgcggggaat gcgttcaccg ccggaaaaat catatttgca gcagtcccac 5461 caaatttccc aactgaaggt ttgagcccca gccaagtcac tatgttcccc cacataatag 5521 tagatgttag gcaattggaa cctgtgttga tccccttacc cgatgttaga aataatttct 5581 accattataa tcagtcaaat gaccccacca tcaaattgat agcaatgttg tacacaccac 5641 ttagggctaa caatgccggg gacgatgtct tcacagtttc ttgtcgagtt ctcacgagac 5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgaatca agaactaaac 5761 cattctctgt cccagtttta actgttgagg aaatgaccaa ttcaaggttc cccattcctt 5821 tggaaaagtt gttcacaggc cccagtagtg cctttgttgt tcaaccacaa aacggcaggt 5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc tcctgtcaac atctgcacct 5941 tcagggggga tgtcacccac atttcaggca gtcgtaacta cacaatgaat ttggcctccc 6001 aaaattggaa cagttatgat ccaacagaag aaatcccagc ccccctagga actccagatt 6061 tcgtggggaa gattcaaggt atgctcaccc aaaccacaag gacagatggc tcgacccgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggcagggttc 6181 aatttgccac tgacacagac aatgattttg taactaacca aaacacaaag ttcaccccag 6241 tcggtgttat ccaggatggt agtactaccc cccgaaatga accccaacaa tgggtgctcc 6301 caagctactc aggcagaaac actcataatg tgcacctggc ccccgctgta gcccccactt 6361 tcccgggcga gcagctcctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caggaggcag 6481 ccccagcaca atctgatgtg gcactgttaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg taagcttcat aaaacaggct atgttacagt ggctcacact ggccaacatg 6601 atttagttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca 6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc attataatgg ctggagcttt 6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc 6841 cttccaattt agtagcagtc tacaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaagcaat 6961 gctcctagag ggtggattct ttgaaacaga tgcagcccgt ggggcaatca acgcccccat 7021 gacaaaaact ttggactgga gcggaacaag gtactgggct cccgatgcta gaactacaac 7081 atacaatgca ggccgctttt ccacccctca accctcgggg gcactaccag gaagagctaa 7141 tcttagggcc actgtcccca cccggggtcc ctccagcacg tcttctaact cttctattgc 7201 tacttctgtg tattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg 7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa 7321 taggagtttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgca agcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatctct cttttctttt gtgtctttt //