Typing tool
|
Complete norovirus genomes
JX445160 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5069 ORF2: 5050..6672 ORF3: 6672..7478LOCUS JX445160 7500 bp RNA linear VRL 10-OCT-2012 DEFINITION Norovirus Hu/GII.4/AlbertaEI102/2008/CA non-structural polyprotein gene, partial cds; and major capsid protein and minor structural protein genes, complete cds. ACCESSION JX445160 VERSION JX445160.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/AlbertaEI102/2008/CA ORGANISM Norovirus Hu/GII.4/AlbertaEI102/2008/CA Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7500) AUTHORS Hasing,M.E., Lee,B.E., Preiksaitis,J.K., Tyrrell,G.J., Louie,M. and Pang,X.L. TITLE Direct Submission JOURNAL Submitted (01-AUG-2012) Provincial Laboratory for Public Health (ProvLab), 8440-112 Street, Edmonton, Alberta T6G 2J2, Canada FEATURES Location/Qualifiers source 1..7500 /organism="Norovirus Hu/GII.4/AlbertaEI102/2008/CA" /mol_type="genomic RNA" /strain="Hu/GII.4/AlbertaEI102/2008/CA" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:1238271" /country="Canada" /collection_date="Feb-2008" /note="genotype: GII.4" CDS <1..5069 /codon_start=3 /product="non-structural polyprotein" /protein_id="AFU55709.1" /translation="AVANSNNDTAKSSNDKVFSSMAVTLKRALGARPKQPPPREIPQR PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNIINILA SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS IKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVRTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGCPKPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL TLCALSEATNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" CDS 5050..6672 /note="VP1" /codon_start=1 /product="major capsid protein" /protein_id="AFU55710.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFATDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6672..7478 /codon_start=1 /product="minor structural protein" /protein_id="AFU55711.1" /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRIPTPARGSPSTSS NVSTATSVYSNQTGSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWAGAFNTRRQPLFAHIRRRGESRV" 3'UTR 7479..>7500 ORIGIN 1 ccgctgttgc taacagcaac aacgacaccg caaaatcttc aaatgacaaa gtgttttcta 61 gcatggctgt cactcttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg 121 aaataccaca aagaccccca cgaccaccta ctccagaact ggtcaaaaag atccctcctc 181 ccccgcccaa cggagaggat gaagtagtgg tttcttatag tgccaaagat ggcgtttccg 241 gtttgcctga gctttccacc gtcaggcaac cggaagaaac caatacggcc ttcagtgtcc 301 ctccactcaa tcagagggag aatagggatg ctaaggaacc actgactgga acaattctgg 361 aaatgtggga tggagaaatc taccattatg gcctgtatgt tgagcgaggt cttgtgctgg 421 gtgtacacaa accaccagct gccattagcc tcgccaaggt cgaactaaca ccactctcct 481 tgttctggag acctgtgtac actcctcagt acctcatttc tccagacact ctcaagaaat 541 tacacggaga aacatttccc tacacagcct ttgacaacaa ttgctatgcc ttttgttgct 601 gggtcctgga tctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggct 661 tcttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gattccaaat 721 taaagaaggt agctaacata ttcctgtgcg ccctgtcttc gctattcacc aggcccataa 781 aagacataat aggaaagtta aggcctctca acatcatcaa catcctggct tcatgtgatt 841 ggactttcgc aggcatagtg gagtccttga tactcttggc agagctcttt ggagtcttct 901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgatttc gagttacaag 961 gacctgagga ccttgtagtg gagctcgtcc ctgtagtaat gggggggatt ggtttggtgc 1021 taggattcac caaagagaag attggaaaaa tgttgtcatc tgctgcatcc accttgagag 1081 cttgtaaaga ccttggtgca tatgggctag agatcctaaa gttagtcatg aagtggttct 1141 tcccgaagaa agaggaagcg aatgaactgg ctatggtgag atccatcgag gacgcagtac 1201 tggaccttga ggcgattgaa aacaaccata tgaccacctt gctcaaagac aaagacagcc 1261 tggcaaccta catgagaacc cttgacctcg aggaagagaa agccagaaaa ctctcaacca 1321 agtctgcttc acctgacatc gtgggcacaa tcaacgccct tttggcgaga atcgccgctg 1381 cacgttccct ggtgcaccga gcgaaggagg agctttccag cagaccaaga cctgtagtct 1441 tgatgatatc aggcaggcca ggaataggga agacccacct tgctagggaa gtggctaaga 1501 gaatcgcagc atccctcaca ggagaccagc gtgtaggcct catcccacgc aatggcgtcg 1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagca 1621 atcccatcca cgacgccctc aggctgcaag aactcgctga cacttgcccc ctcactctaa 1681 actgtgacag gattgagaat aaaggaaagg tctttgacag cgatgtcatc attatcacta 1741 ctaatctggc caacccagca ccactggact atgtcaactt tgaagcgtgc tcgaggcgca 1801 tcgatttcct cgtgtatgca gaagcccctg aggtcgaaaa ggcgaagcgc gactttccgg 1861 gccaacctga catgtggaaa aacgctttta gttctgactt ctcacacata aaattggcac 1921 tggctccaca aggtggcttt gataagaacg ggaacacccc acacgggaag ggcgtcatga 1981 agactctcac cactggctcc ctcattgccc gggcatcagg gctgctccat gagagattgg 2041 atgagtttga actacagggc ccagctctta ccaccttcaa ctttgaccgc aacaaagtgc 2101 ttgccttcag gcagcttgct gctgaaaaca aatatgggtt gatggacaca atgaaagttg 2161 ggaggcagct caaggatgtc aaaaccatgc cagaacttaa acaagcactc aagaatatct 2221 caatcaagaa gtgccagatt gtgtacagtg gttgcaccta cacacttgag tctgatggca 2281 agggcaatgt gaaagttgac agagttcaga gtacctccgt tcggaccaac aatgagttgg 2341 ctggcgccct gcaccatcta aggtgcgcca gaatcaggta ctatgtcaag tgtgttcagg 2401 aggctctgta ttctatcatc cagattgctg gggctgcatt tgtcaccacg cgcatcatca 2461 agcgtgtgaa cattcaagac ttatggtcca agccacaagt ggaaaacaca gaagaggcta 2521 ccagcaagga cgggtgccca aaacccaaag atgatgagga gttcgtcatt tcatctgacg 2581 acattaaaac tgagggtaag aaagggaaga acaagactgg ccgtggcaag aagcacacag 2641 ccttctcaag taaaggtctc agtgatgaag agtatgatga gtacaagaga attagagagg 2701 aaagaaatgg caagtactcc atagaagagt accttcagga cagggacaaa tactatgagg 2761 aggtggccat tgccagggcg accgaggaag acttctgtga agaggaggag gccaagatcc 2821 ggcaaaggat cttcagacca acaaggaaac agcgcaagga agaaagagcc tccctcggtt 2881 tagtcacagg ttctgaaatt aggaaaagaa atccagaaga cttcaaaccc aaagggaaac 2941 tatgggctga cgatgacaga agtgtggact acaatgaaaa actcaatttt gaggccccac 3001 caagcatctg gtcaaggata gtcaactttg gctcaggttg gggcttctgg gtctccccca 3061 gcctgttcat aacatcaacc cacgtcatac cccagggcgc aaaggagttc tttggagtcc 3121 ccatcaaaca aattcaggtg cacaagtcag gcgaattctg tcgcttgagg ttcccaaaac 3181 caatcaggac tgatgtgact ggcatgatct tggaagaagg tgcgcccgaa ggcaccgtgg 3241 tcacactact catcaaaagg cctactggag aactcatgcc cctagcagct agaatgggga 3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcagatgggc atgcttctga 3361 caggatccaa cgccaaaagc atggatctag gcaccacacc aggtgattgc ggctgtccct 3421 acatctacaa gagaggaaac gactatgtgg tcattggagt ccacacggct gccgctcgtg 3481 ggggaaacac tgtcatatgt gccacccagg ggggtgaggg ggaagctaca cttgaaggtg 3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccagggagt gccccaaaac 3601 ttagcaccaa aaccaaattc tggagatcat ccacagcacc actcccacct ggcacctatg 3661 aaccagccta ccttggtggc aaagacccca gagtcaaggg tggcccctcg ttgcagcaag 3721 tcatgaggga ccagctgaaa ccatttacag agcctagggg taagccacca aagccaagtg 3781 tgttagaagc tgccaagaaa accatcatca atgtccttga acagacaatt gacccacctg 3841 agaagtggtc gttcgcacaa gcttgcgcat cccttgacaa gaccacttct agcggccatc 3901 cgcaccacat gcggaaaaac gactgctgga acggggaatc cttcacaggc aagctggcag 3961 accaggcttc caaggccaac ctgatgtttg aagaagggaa gaacatgacc ccagtctaca 4021 caggtgcact taaggatgaa ttagtcaaaa ctgacaaaat ttatggtaag atcaagaaga 4081 ggcttctctg gggctcggat ttagcaacca tgatccggtg tgctcgagca ttcggaggcc 4141 tgatggatga actcaaagca cactgcgtca cacttcctgt cagagttggt atgaatatga 4201 atgaggatgg ccccatcatc ttcgagaagc actccaggta cagataccac tatgatgctg 4261 attactctcg atgggattca acacaacaga gagccgtgct ggcagctgct ctagaaatca 4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggttgt agcagaagac cttctttctc 4381 ctagcgtggt ggatgtgggt gacttcacaa tatcaatcaa cgagggtctt ccctctgggg 4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcactct 4501 ccgaagccac aaatttgtcc ccagacatca tacaggctaa ttctctcttc tccttctatg 4561 gtgatgatga aattgttagt acagacataa aattagaccc agagaagttg acagcaaagc 4621 ttaaggaata tgggttgaaa ccaacccgcc ctgacaaaac tgaaggacct cttgttattt 4681 ctgaagactt agacggtttg actttcctgc ggagaactgt gacccgcgac ccagctggtt 4741 ggtttggaaa actggagcag agctcaatac tcaggcaaat gtactggact aggggcccca 4801 atcatgaaga cccatctgaa tcaatgatcc cacactctca aagacccata caattgatgt 4861 ccttactagg agaggccgca ctccacggcc caacattcta cagtaaaatc agcaaattag 4921 tcattgcaga gctaaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccaatgt 4981 tcagatggat gagattctcg gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgccatt 5161 gcggcgcctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgtg 5221 caagcccctg gtggagagtt cacagtatcc cctagaaacg ctccaggtga aatactatgg 5281 agcgcgccct taggccctga tttgaatccc tacctatctc atttggccag aatgtataat 5341 ggttatgcag gtggttttga agtgcaggtg atcctcgcgg ggaacgcgtt caccgccgga 5401 aaaattatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag tcccagccag 5461 gtcactatgt tcccccacat aatagtagat gttaggcaat tggaacctgt gttgatcccc 5521 ttacctgatg ttaggaataa cttctatcac tataatcagt caaatgattc taccattaaa 5581 ttgatagcaa tgctgtatac accacttagg gccaataatg ctggggatga tgtcttcaca 5641 gtctcttgtc gagtcctcac gaggccatcc cctgattttg actttatatt cctggtgcca 5701 cctacagttg agtcaagaac taagccattt actgtcccaa tcttaactgt tgaagaaatg 5761 accaattcaa gattccccat tcctttggaa aaattgttca cgggtcccag cagtgccttt 5821 gttgttcaac cacaaaatgg cagatgcacg actgatggcg tgctcttagg caccacccaa 5881 ctgtctcctg tcaacatttg caccttcaga ggggacgtca cccacattgc gggttctcgt 5941 aattacacaa tgaatttggc ctctctaaat tggaacaatt atgacccaac agaggaaatt 6001 ccagcccctc tgggaactcc agatttcgtg ggaaagatcc aaggtgtgct cactcaaacc 6061 acaaagggag atggctcgac ccggggccat aaagctacag tttacactgg gagtgccgac 6121 ttcactccaa agctgggcag tgttcaattt gctactgata cagaaaatga ttttgaaact 6181 caccaaaaca caaaattcac cccagtcggt gtcatccagg atggtagcac cacccatcga 6241 aatgaacccc aacaatgggt gctcccaagt tattcaggta gaaatgtcca taatgtacac 6301 ctagcccctg ctgtagcccc caattttccg ggtgaacaac ttcttttctt caggtccact 6361 atgcccggat gcagcggata tcccaacatg gatttggatt gtctactccc ccaggagtgg 6421 gtgcagcact tctaccaaga ggcagctcca gcacaatctg atgtggctct attgagattt 6481 gtgaatccag acacgggtag ggtcctgttt gagtgcaaac ttcataaatc aggctatgtc 6541 acagtggccc acaccggcca acatgatttg gtcatccccc ccaatggcta ttttaggttt 6601 gattcctggg ttaatcaatt ctatacactt gcccccatgg gaaatggaac ggggcgtaga 6661 cgtgctttat aatggctgga gctttctttg ctggattggc atctgatgtc cttagctctg 6721 gacttggttc cctaatcaat gctggggctg gggctatcaa ccaaaagatt gattttgaaa 6781 ataatagaaa attgcagcaa gcttccttcc agtttagcag taatctacaa caggcttcct 6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc cactaaaaag ttgcaacagg 6901 aaatgatgaa agtcaaacag gcaatgctct tagaaggtgg attctctgaa acagatgcag 6961 cccgtggagc aatcaacgcc cccatgacaa aggctttgga ctggagcgga acaaggtact 7021 gggcccctga tgctaggact acaacataca atgcaggccg cttctccacc cctcaacctt 7081 cgggggcact gccaggaaga atcaatccca ggattcctac ccccgctcgg ggctccccca 7141 gcacatcttc caatgtttcc actgctactt ctgtatattc aaatcaaact ggttcaacga 7201 gacttggttc tacagctggt tctggcacca atgtctcgag tctcccgtca actgcaagga 7261 ctaggagttg ggttgaggat caaaacagaa atttgtcacc tttcatgagg ggggctcaca 7321 acatatcgtt tgtcacccca ccatctagca gatcctccag ccaaggcaca gtctcaaccg 7381 tgcctaaaga agttttggac tcctgggctg gcgctttcaa cacgcgcagg cagcctctct 7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta //