Typing tool
|
Complete norovirus genomes
JX459900 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS JX459900 7558 bp RNA linear VRL 10-MAY-2013 DEFINITION Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU, complete genome. ACCESSION JX459900 VERSION JX459900.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU ORGANISM Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7558) 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 7558) 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..7558 /organism="Norovirus Hu/GII.4/Randwick/NSW882J/2011/AU" /mol_type="genomic RNA" /strain="Hu/GII.4/Randwick/NSW882J/2011/AU" /host="Homo sapiens" /db_xref="taxon:1241971" /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="AFV08770.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSNMAVTLKRALGARP KQPPPREIQQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGFVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGC PRPKDDGEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVAGMILEEGAPEG TVVSLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5085..6707 /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="AFV08771.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSTFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFDANQNTKFTPVGVIQDG NTAHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6707..7513 /note="minor structural protein" /codon_start=1 /product="VP2" /protein_id="AFV08772.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQSQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGVPPGRANLRAAVPARGPSSTSS NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSSARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" 3'UTR 7514..7558 ORIGIN 1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga 61 caccgcaaaa tcttcaagtg acaaaatgtt ttctaacatg gctgtcactc ttaaacgagc 121 cctcggggcg cggcctaaac agcccccccc gagggaaata caacaaagac ccccacgacc 181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaagt 241 agtggtttct tatagtgcca aagatggcgt ttccggtttg cctgagcttt ccaccgtcag 301 gcaaccggaa gaaaccaata cggccttcag tgtcccccca ctcaatcaga gggagaatag 361 ggatgctaag gaaccactaa ctgggacaat tctggaaatg tgggatgggg aaatctacca 421 ttatggcctg tatgttgagc aaggttttgt gctgggcgtg cacaagccac cagctgccat 481 tagcctcgcc aaggtcgaat taacaccact ctccttgttc tggagacctg tgtacactcc 541 tcagtacctc atttctccag acaccctcaa gaaattacac ggagaaacat ttccctacac 601 agcctttgac aacaattgct atgccttttg ttgctgggtc ctggatttaa acgactcgtg 661 gctgagtagg agaatgatcc agagaacaac aggcttcttc agaccctacc aagattggaa 721 tagaaaaccc ctccccacta tggatgattc caaattaaag aaggtggcta acatattcct 781 gtgcgccctg tcttcgctat tcactaggcc cataaaagac ataataggaa agttaaggcc 841 tcttaacatc atcaacatcc tggcttcatg tgattggact ttcgcaggca tagtggagtc 901 cttgatactc ttggcggagc tctttggagt cttctggaca cccccagatg tgtctgcgat 961 gatcgccccc ttactcggtg atttcgagtt acaaggacct gaggaccttg tagtggagct 1021 cgtccctgtg gtaatggggg ggattggttt ggtgctagga ttcaccaaag agaagattgg 1081 gaaaatgttg tcatctgctg catccacctt gagagcttgc aaagaccttg gtgcatatgg 1141 actagagatc ttgaagttag tcatgaagtg gttcttcccg aagaaagagg aagcgaatga 1201 actggccatg gtgagatcca tcgaggatgc agtactggac cttgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga tagcctggca acctacatga gaaccctcga 1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg 1381 cacaatcaac gcacttctgg cgagaatcgc cgctgcacgc tccctggtgc accgagcaaa 1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca ggccaggaat 1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga 1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga 1621 aagggtcgtc ctatgggacg actatggaat gagcaacccc atccacgacg ccctcaggct 1681 gcaagaactc gctgacactt gccccctcac tctaaattgt gacaggattg agaataaagg 1741 aaaggtcttt gacagcgatg tcatcattat cactactaat ctggccaacc cagcaccact 1801 ggactacgtc aactttgagg cgtgctcgag acgcatcgac ttcctcgtgt acgcagaagc 1861 ccccgaggtc gaaaaggcga agcgcgactt cccgggccaa cctgacatgt ggaaaaacgc 1921 ttttagttct gatttctcac acataaaatt ggcactggct ccacaaggtg gctttgataa 1981 gaacgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gctccctcat 2041 tgcccgggca tcagggctgc tccatgagag attggatgag ttcgaactac agggcccaac 2101 tcttaccacc ttcaactttg accgcaacaa agtgcttgcc ttcaggcagc ttgctgctga 2161 aaacaaatat ggattgatgg acacaatgaa agttgggagg cagctcaagg atgtcaaaac 2221 catgccagaa cttaagcaag cactcaagaa tatctcaatc aagaagtgcc agattgtgta 2281 cagtggttgc acctacacac ttgagtctga tggcaagggc aacgtgaaag ttgacagagt 2341 acagagtacc tccgttcaga ccaacaatga gctggctggc gccctgcacc atctaaggtg 2401 cgccagaatc aggtattatg ttaagtgtgt tcaggaagcc ctgtattcta tcatccagat 2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagacttatg 2521 gtccaagcca caagtggaaa acacagagga ggctaccagc aaggacgggt gcccaagacc 2581 caaagatgat ggggagttcg tcatttcatc tgacgacatt aaaacagagg gtaagaaagg 2641 gaagaacaag actggccgtg gcaagaagca cacagccttc tcaagtaaag gtctcagtga 2701 tgaagagtat gatgaataca agagaattag agaggaaaga aatggcaagt actccataga 2761 agagtacctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta gaccaacaag 2881 gaaacaacgt aaggaagaaa gagcttctct cggtttagtc acaggttctg aaattaggaa 2941 aagaaatccg gaagacttca agcccaaggg gaaactatgg gctgacgatg acagaagtgt 3001 ggactataac gaaaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa 3061 ctttggctca ggttggggct tctgggtctc ccccagcctg ttcataacat caacccacgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtgcacaa 3181 gtcaggcgaa ttctgtcgct tgaggttccc aaagccaata aggaccgatg tggctggcat 3241 gatcttggaa gaaggtgcgc ccgaaggcac cgtggtctca ctactcatca aaaggtctac 3301 tggagaactc atgcccctag cggctagaat gggaacccac gcaaccatga agattcaagg 3361 acgcactgtt ggaggtcaga tgggcatgct tttgacagga tccaacgcca aaagcatgga 3421 tctaggcacc acaccaggcg attgtggctg tccctacatc tacaagagag gaaacgacta 3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac 3541 ccaggggggt gagggggaag ctacacttga aggcggtgac agtaagggaa catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aaaactcagc accaaaacca aattctggag 3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaaaga 3721 ccccagagtc aagggtggcc cctcgctgca gcaagtcatg agggaccagc taaaaccatt 3781 tacggagcct aggggtaagc caccaaagcc aagtgtgtta gaagctgcta agaaaaccat 3841 catcaatgtc cttgagcaga caattgatcc acctgagaag tggtcgttcg cacaagcttg 3901 cgcatccctt gataagacca cttctagcgg ccatccgcac cacatgcgaa aaaatgactg 3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaaag ccaacctgat 4021 gtttgaagaa gggaagaaca tgaccccagt ctacacaggt gcacttaagg atgaattagt 4081 caaaactgac aaagtttatg gtaagatcaa gaagaggctt ctctggggct cggacctggc 4141 aaccatgatc cggtgtgctc gagcattcgg aggtctgatg gatgagctca aagcacactg 4201 tgtcacactt cctgtcagag ttggtatgaa tatgaatgag gatggcccca tcatcttcga 4261 gaagcattcc aggtacagat accattatga tgctgattac tctcggtggg attcaacaca 4321 acagagagcc gtactggcag ctgctctaga aatcatggtt aaattctcct cagaaccaca 4381 tttggctcag gtagtagcag aagaccttct ttctcctagt gtagtggatg tgggtgactt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc 4501 catcgcccac tggcttctca ctctttgtgc gctctccgaa gtcacaaatt tgtctccaga 4561 catcatacag gctaattctc tcttctcctt ctatggtgat gatgaaattg ttagcacaga 4621 cataaaatta gacccagaga aattgacagc aaagctcaag gaatatgggt tgaaaccaac 4681 ccgccctgac aaaactgaag ggccccttgt tatttctgaa gacttagacg gtttgacttt 4741 tctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc 4801 aatactcagg caaatgtact ggaccagggg ccccaatcat gaagacccat ctgaatcaat 4861 gatcccacac tctcaaagac ccatacaatt gatgtcctta ctgggtgagg ccgcactcca 4921 cggcccaaca ttctacagta aaatcagcaa attagtcatt gcagagctaa aagaaggtgg 4981 catggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcggatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc gcctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagttcacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctaa 5341 atccctacct atctcatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc 5401 aggtgatcct cgcggggaac gcgttcaccg ctggaaaaat tatatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagtccca gccaggttac tatgttcccc catataatag 5521 tagatgttag gcaattggaa cctgtgttga tccccttacc tgatgttaga aataacttct 5581 atcattataa tcagtcaaat gattctacca ttaaattgat agcaatgctg tacacaccac 5641 ttagggctaa taatgctggg gatgatgtct ttacagtttc ttgtcgagtt ctcacgagac 5701 catcccccga ttttgatttc atatttttag tgccacctac agttgaatca agaactaaac 5761 cattctctgt cccaatttta actgttgaag aaatgaccaa ttcaaggttc cccattcctt 5821 tggaaaagtt gttcacgggc cccagtagta cctttgttgt tcaaccacaa aacggcaggt 5881 gcacgactga tggcgtgctc ttaggtacca cccaactgtc tcctgtcaac atctgcacct 5941 tcagagggga tgtcacccac attgcaggca gtcgtaacta cacaatgaat ctggcttccc 6001 aaaattggaa cagttatgac ccaacagaag aaatcccagc ccctctagga actccagatt 6061 tcgtggggaa gattcaaggt gtgctcaccc aaaccacaag gacagatggc tcgacccgcg 6121 gtcacaaagc tacagtgtac actgggagtg ccgacttttc tccaaaactg ggtagagttc 6181 aatttgccac tgacacagac aatgatttcg atgctaacca aaacacaaag ttcaccccag 6241 tcggcgttat ccaggatgga aatactgccc accgaaatga accccaacaa tgggtgctcc 6301 caagctactc aggcagaaac acccataatg tgcacctggc ccccgctgta gcccccactt 6361 ttccgggtga gcaactcctc ttcttcagat ctaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caggaagcag 6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggtcc 6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttatttta gatttgactc ctgggtcaac cagttctaca 6661 cacttgcccc catgggaaat gggacggggc gtaggcgtgc attgtaatgg ctggagcttt 6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaggcttc 6841 cttccaattt agtagcaact tacaacaagc ttcctttcaa catgataaag agatgctcca 6901 atcacaaatt gaggccacca aaaagctgca acaggaaatg atgagagtta aacaagcaat 6961 gctcctagag ggtggattct ccgagacaga tgcagctcgt ggggcaatca acgcccccat 7021 gacaaaagtt ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atataatgca ggtcgctttt ccacccctca accctcgggg gtaccaccag gaagagctaa 7141 tcttagggct gctgtccccg cccggggtcc ctccagcaca tcttctaact cttctattgc 7201 tacttctgtg tattcgaatc agaccacttc aacgagactt ggttctacag ctggttctgg 7261 taccagtgtc tcgagcctcc cgtcatctgc aaggactagg agctgggttg aggatcaaaa 7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc 7381 tagtagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg 7441 gactggcgct ttcaatacgc gcaggcagcc tctcttcgct cacatccgta agcgagggga 7501 gtcacgggtg taatgtgaaa agacaaattg attatctttc ttttctttag tgtctttt //