Typing tool
|
Complete norovirus genomes
JX459901 | GII.4 New Orleans | ||
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GII.P4 New Orleans |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS JX459901 7559 bp RNA linear VRL 10-MAY-2013 DEFINITION Norovirus Hu/GII.4/Caringbah/NSW409G/2011/AU, complete genome. ACCESSION JX459901 VERSION JX459901.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/Caringbah/NSW409G/2011/AU ORGANISM Norovirus Hu/GII.4/Caringbah/NSW409G/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/Caringbah/NSW409G/2011/AU" /mol_type="genomic RNA" /strain="Hu/GII.4/Caringbah/NSW409G/2011/AU" /host="Homo sapiens" /db_xref="taxon:1241967" /country="Australia" /collection_date="Oct-2011" /note="genotype: GII.4" 5'UTR 1..4 CDS 5..5104 /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="AFV08773.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP KQPPPRERPQRPPRPPTPELVKNIPPPPPNGEDEIVISYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELAPLSLYWRPVYTPQFLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAIVRSIEDAVLDLEAIENNHMTILLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM PELKQALKNVSIKKCQIVYSGCTYMLESDGKGSVKVDRIQSAAVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQAENTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5085..6707 /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="AFV08774.1" /translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHISGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFVTNQNTKFTPVGVIQDG STTPRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6707..7513 /note="minor structural protein" /codon_start=1 /product="VP2" /protein_id="AFV08775.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFFETDAARGAIN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSLSS NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEEQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" 3'UTR 7514..7559 ORIGIN 1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgttactt ttaaacgagc 121 cctcggggcg cggcctaaac agcctccccc gagggaaaga ccacaaagac ccccacgacc 181 acctactcca gaactggtta aaaatattcc ccctccccca cccaatggag aggatgaaat 241 agtgatttct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag 301 gcaaccggaa gaatccaaca cggccttcag tgtccctcca ctcaatcaga gggagaacag 361 agatgctaag gagccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca 421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccgc cagctgccat 481 cagcctcgct aaggttgagc tagcaccact ctccttgtac tggagacctg tgtacactcc 541 tcagttcctt atctctccag acactctcaa gaaactgtcc ggagaaacgt tcccctacac 601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctaa atgactcgtg 661 gctgagcagg aggatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa 721 taggaaaccc cttcccacta tggatgactc 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 gaggacctcg cagtggagct 1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaaaattgg 1081 gaaaatgttg tcatctgctg cgtccacctt gagagcttgc aaagaccttg gtgcatatgg 1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaggagg aggcaaatga 1201 gctggctata gtgaggtcca tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa 1261 tcatatgacc atcttgctta aagataaaga cagtctggca acctacatga gaacacttga 1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg 1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtac 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 attcatgatg ccctcaggct 1681 gcaagaactc gctgacactt gccccctcac tctgaactgt gacaggattg aaaataaagg 1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag catgctcgag gcgtattgac ttcctcgtgt atgcagaagc 1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc 1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa 1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat 2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactgc agggcccagc 2101 cctcaccacc ttcaattttg atcgcaataa agtgcttgcc tttagacagc ttgctgctga 2161 aaataaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcagaac 2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgtc aaatagtgta 2281 tagtggttgc acctacatgc ttgagtctga tggcaagggc agtgtgaaag ttgacagaat 2341 ccaaagcgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtg 2401 cgccagaatc aggtactatg tcaagtgtgt ccaggaagcc ctgtattcca tcatccaaat 2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg 2521 gtccaagcca caagcggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc 2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gcaagaaagg 2641 gaagaacaag actggtcgtg gtaagaagca 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 gagtctctct cggtctggtc acaggctctg aaattaggaa 2941 aagaaaccca gatgatttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt 3001 ggactacaat gagaaactca gctttgaggc cccaccaagc atttggtcga gaatagtcaa 3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt 3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa 3181 gtcaggcgag ttctgtcgct taagattccc 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 tgaagccatt 3781 cacagagccc aggggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat 3841 cattaatgtc cttgagcaaa caattgaccc acctgagaaa tggtcgttcg cacaagcttg 3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacatgcgga 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 attcaacgca 4321 acagagagcc gtgttggcag 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 gatgaaattg ttagcacaga 4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac 4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacttgaatg 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 attggtcatt gcagagctaa aagaaggtgg 4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct 5041 tagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggcttt ggagcccgta gttggtgccg ccattgcggc acctgtagcg ggccagcaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagtgc gcccttaggc cccgatttga 5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaatcct cgcggggaat gcgttcaccg ccgggaaaat catatttgca gcagtcccac 5461 caaatttccc aactgaaggt ttgagcccca gccaagtcac tatgttcccc cacataatag 5521 tagatgttag gcaactggaa cctgtgttga tccccttacc cgatgttagg aataatttct 5581 accactataa tcagtcaaat gaccccacca tcaaattgat agcaatgttg tacacaccac 5641 ttagggctaa taatgccggg gacgatgtct tcacagtttc ttgtcgagtt ctcacgagac 5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgaatca agaactaaac 5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaaggttc cccatccctt 5821 tggaaaagtt gttcacgggc cccagtagtg cctttgttgt tcaaccacaa aacggcaggt 5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc tcctgtcaac atctgcacct 5941 tcagagggga tgtcacccac atttcaggca gtcgtaacta cacaatgaat ttggcctccc 6001 aaaattggaa cagttacgat cctacagaag aaatcccagc ccccctagga actccagatt 6061 tcgtggggaa gattcaaggt gtgctcaccc aaaccacaag gacagatggc tcgacccgcg 6121 gccacaaagc tacagtatac actgggagcg ccgacttttc tccaaaactg ggtagggttc 6181 aatttgccac tgacacagac aatgattttg taactaacca aaacacaaag ttcaccccag 6241 tcggtgttat ccaggatggt agtactaccc cccgaaatga accccaacaa tgggtgctcc 6301 caagttactc aggcagaaac actcataatg tgcacctggc ccccgctgta gcccccactt 6361 tcccgggcga gcagctcctc ttcttcagat ctaccatgcc cgggtgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caggaagcag 6481 ccccagcaca atctgatgtg gcactgttaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttagttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca 6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc attataatgg ctggagcctt 6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggctccctga tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc 6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaagcaat 6961 gctcctagag ggtggattct ttgagacaga tgcagcccgt ggggcaatca acgcccccat 7021 gacaaaaact ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atacaatgca ggccgctttt ccacccctca accctcgggg gcactgccag gaagagctaa 7141 tcttagggct actgtccccg cccggggttc ctccagcttg tcttctaact cttctattgc 7201 cacttctgtg tattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg 7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggaacaaaa 7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgca agcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gatcatcttt cttttctttt gtgtctttt //