Typing tool
|
Complete norovirus genomes
KY424332 | GII.4 Sydney | ||
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GII.P12 |
ORF1: 1..5069 ORF2: 5050..6669 ORF3: 6669..7475LOCUS KY424332 7521 bp RNA linear VRL 19-APR-2018 DEFINITION Norovirus GII.4 isolate Hu/GII.4/MD104-2/1987/US nonstructural polyprotein gene, partial cds; and major capsid protein VP1 and minor capsid protein VP2 genes, complete cds. ACCESSION KY424332 VERSION KY424332.1 KEYWORDS . SOURCE Norovirus GII.4 ORGANISM Norovirus GII.4 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7521) AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C.J., Sosnovtsev,S.V. and Green,K.Y. TITLE Static and Evolving Norovirus Genotypes: Implications for Epidemiology and Immunity JOURNAL PLoS Pathog. 13 (1), e1006136 (2017) PUBMED 28103318 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7521) AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C., Sosnovtsev,S.S. and Green,K.Y. TITLE Direct Submission JOURNAL Submitted (03-JAN-2017) LID, NIAID, NIH, 50 South Drive, B50/R6316, Bethesda, MD 20892, USA COMMENT ##Assembly-Data-START## Assembly Method :: Bowtie v. 2; Sequencher v. 5 Sequencing Technology :: Sanger dideoxy sequencing; IonTorrent ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7521 /organism="Norovirus GII.4" /mol_type="genomic RNA" /isolate="Hu/GII.4/MD104-2/1987/US" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:489821" /country="USA" /collection_date="Nov-1987" /note="genotype: GII.4" CDS <1..5069 /codon_start=3 /product="nonstructural polyprotein" /protein_id="APU54759.1" /translation="AVANSNNDTAKSSSDGVLSSMAITFKRALGARPKQPPPREILQR PPRPPTPELVKKIPPPPPNGEDELVVSYSVKDGVSGLPELSTVRQPDEANTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAVSLAKVELTPLSL FWRPVYTPQYLISPDTLKRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTVDDSKLKKVANLFLCALSSLFTRPIKDIIGKLRPLNILNILA SCDWTFAGIVESLILMAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKRIAASLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM WKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY ELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALKNIS IKRCQIVYSGCTYTLESDGKGNVKVDRVQSATVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETINKDGCPKPKDDEEFVV SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVAGMILEEGAPEGTVATLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLPQVMRDQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPQKWSFTQACASLDKTTSSGHPHHIRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAA LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLTISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" CDS 5050..6669 /codon_start=1 /product="major capsid protein VP1" /protein_id="APU54760.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLSRMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSHDSTLKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT QLSAVNICNFRGDVTHIVGSHDYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGLL TQTTRADGSTRAHKATVSTGSVHFTPKLGSVQFTTDTNNDFQTGQNTKFTPVGVIQDG DHHQNEPQQWVLPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC LLPQEWVLHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGPYDLVI PPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6669..7475 /codon_start=1 /product="minor capsid protein VP2" /protein_id="APU54761.1" /translation="MAGSFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATQKLQQDLMKVKQAVLLEGGFSTTDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNPRITVPARGPPSTLS NASIATSVYSNQTVSTRLGSSAGSGTGVSSLPSTARTRNWVEDQNRNLSPFMRGALNT SFVTPPSSRSSNQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta 61 gcatggctat cacttttaaa cgagccctcg gggcgcggcc taaacagcct cccccgaggg 121 aaatactaca aagaccccca cgaccaccta ccccagaact ggtcaaaaag atcccccctc 181 ccccgcccaa cggggaggat gaactagtgg tttcttatag tgtcaaagat ggcgtttccg 241 gtctgcctga gctttccact gtcaggcaac cggatgaagc caatacggcc ttcagtgttc 301 ccccactcaa tcagagggag aatagggatg ccaaggagcc actaactgga acaattctgg 361 aaatgtggga tggagagatc taccattacg gcctatatgt ggagcgaggt cttgtacttg 421 gtgtgcacaa accaccagct gccgtcagcc tcgccaaggt cgaactaaca ccactctcct 481 tgttctggag acctgtatac actccccagt atctcatctc cccagacact ctcaagagat 541 tgcacggaga atcgttcccc tatacagcct ttgacaacaa ttgctatgcc ttctgttgct 601 gggtcttaga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggtt 661 tctttagacc ctatcaagat tggaatagga aacccctccc tactgtggat gactccaaat 721 taaagaaggt agctaactta ttcctgtgtg ctctatcttc actattcacc aggcccatca 781 aagacataat agggaaacta agacctctca acatcctcaa catcttggcc tcatgtgatt 841 ggactttcgc aggcatagtg gagtccttga tactcatggc agagctcttt ggagttttct 901 ggacaccccc agatgtgtct gcgatgattg cccccttgct aggtgattac gagttacaag 961 ggcctgagga ccttgcagtg gaactcgttc ctatagtgat ggggggaatt ggtttggtgc 1021 taggatttac caaagagaag attgggaaga tgttgtcatc tgctgcatcc accttaagag 1081 cttgtaaaga tcttggtgca tacgggctgg aaatcctaaa attagtcatg aagtggttct 1141 tcccaaagaa agaggaagca aatgagctgg ctatggtgag atccatcgag gatgcggtgc 1201 tggacctcga ggcaattgaa aacaaccata tgaccaccct gctcaaagac aaagacagtc 1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca 1321 agtctgcttc acctgatatc gtgggtacaa tcaacgccct tctggcaaga atagctgctg 1381 cacgttccct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cccgttgtcg 1441 tgatgatatc aggcagacca gggataggga agacccacct tgccagggaa ctggccaaga 1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggtct catcccacgc aatggcgtcg 1561 accactggga cgcatacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagta 1621 atcccatcca tgatgccctc aggttacaag aactcgctga cacttgcccc ctcactctaa 1681 actgtgacag gattgagaac aaaggaaagg tctttgacag tgatgccata atcatcacca 1741 ctaatctggc caacccagca ccactggact acgtcaactt tgaggcatgc tcgaggcgca 1801 tcgatttcct cgtgtatgca gatgcccctg aagtcgagaa ggcgaaacgt gattttccag 1861 gccaacctga catgtggaag aacgctttca gtcctgattt ctcgcacata aaactaacgc 1921 tggctccaca gggtggcttc gacaagaatg gaaacacccc acatgggaag ggcgtcatga 1981 agactctcac cactggctcc ctcattgccc gggcatcagg gctactccat gagaggttag 2041 atgagtatga gctacagggc ccaactctca ccactttcaa ctttgatcgc aacaaggtgc 2101 ttgcttttag gcagcttgct gctgaaaaca aatacgggct gatggacaca atgaaagttg 2161 gaagacagct caaggatgtc agaaccatgc cagagcttaa acaagcactc aagaatatct 2221 caatcaagag gtgccagata gtgtacagtg gttgcaccta tacacttgag tctgatggca 2281 agggcaatgt gaaagttgac agagttcaga gcgccaccgt gcagaccaat aacgagctgg 2341 ccggcgccct acaccatcta aggtgcgcca gaattaggta ctatgtcaag tgtgtccagg 2401 aggccctata ttccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca 2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaagacaca gaggagacta 2521 tcaacaagga cgggtgccca aaacccaaag atgatgagga gttcgtcgtc tcatctgacg 2581 acatcaaaac tgagggcaag aaagggaaga acaagactgg ccgtggcaag aagcacacag 2641 ccttctcaag caaaggtctc agtgatgaag agtacgatga gtacaagaga atcagagaag 2701 aaagaaacgg caagtactcc atagaagagt accttcagga cagggacaag tactatgagg 2761 aggtggccat tgccagggcg accgaagagg acttctgtga agaggaggag gccaagattc 2821 ggcagaggat tttcaggcca acaaggaaac aacgcaagga ggagagggcc tctctcggtt 2881 tagtcacagg ctctgaaatc aggaagagga acccagatga tttcaagccc aagggaaaac 2941 tgtgggctga tgatgacagg agtgtagact acaatgagag actcagtttt gaggccccac 3001 caagcatctg gtcgaggata gtcaactttg gttcaggttg gggcttttgg gtttctccca 3061 gcctgttcat aacatcaact catgtcatac cccagggcgc acaggagttc tttggagtcc 3121 ccatcaagca aattcagata cacaaatcgg gcgaattctg tcgcttgagg ttcccaaaac 3181 caatcaggac tgatgtggcg ggcatgatct tagaagaagg tgcgcccgaa ggtaccgtgg 3241 ccacactact catcaagagg cctactggag aacttatgcc cttagcagcc agaatgggga 3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcaaatgggc atgcttctga 3361 caggatccaa cgccaaaagc atggatctag gcaccacacc aggtgactgc ggctgcccct 3421 acatctacaa gagggagaat gactacgtgg ttattggagt ccacacggct gccgctcgtg 3481 gggggaacac tgtcatatgt gctacccagg ggagtgaggg agaggctaca cttgaaggcg 3541 gtgacagtaa gggaacctac tgtggtgcac caatcctagg cccaggaagt gccccaaaac 3601 tcagcaccaa gactaaattc tggagatcat ctacaacacc actcccacct ggcacctatg 3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccttca ttgccacaag 3721 tcatgaggga tcagctgaaa ccatttacag agcccagggg caaaccacca aagccaagtg 3781 tgttggaggc tgccaagaaa accatcatca atgtccttga acaaacaatt gatccacctc 3841 agaagtggtc attcacgcaa gcttgcgcgt ccctcgacaa gactacttcc agtggccatc 3901 cgcaccacat acggaaaaac gactgctgga acggggaatc cttcacaggc aagttggcag 3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccggtctaca 4021 caggtgcgct taaggatgag ttggtcaaaa ctgacaaaat ttatggcaag atcaagaaga 4081 ggcttctctg gggctcggac ttagcgacca tgatccggtg cgctcgggca ttcggaggcc 4141 taatggatga actcaaagca cactgtgtta cacttcctgt cagagttggt atgaatatga 4201 atgaggatgg ccccatcatc ttcgagaggc attccaggta taaatatcac tatgatgctg 4261 attactctcg gtgggattca acgcaacaga gagccgtatt agcagcagcc ctagaaatca 4321 tggttaaatt ctccccagaa ccacatctgg cccagatagt tgcagaagac cttctctctc 4381 ctagtgtgat ggatgtgggt gacttcaaaa tatcaatcaa tgagggtctc ccctctgggg 4441 tgccctgcac ctcccaatgg aattccatcg cccactggct cctcactctc tgtgcactct 4501 ctgaagtcac aaacttgtcc cctgatatca tacaggctaa ttccctcttc tccttttatg 4561 gcgatgatga aattgtcagt acagatataa agttggaccc agagaaattg acagcaaaac 4621 tcaaggaata cgggttgaaa ccaacccgcc ctgacaaaac tgaaggaccc cttactatct 4681 ctgaagactt gaatggtctg accttcctgc ggagaactgt gacccgcgac ccagctggct 4741 ggtttggaaa attggaacag agttcaatac ttaggcaaat gtactggact aggggcccca 4801 accatgaaga cccatctgaa acaatgatac cacactccca aagacccata caattaatgt 4861 ccctactggg cgaggccgca ctccacggcc cagcattcta cagcaaaatt agcaagctag 4921 tcattgcaga gctgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt 4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctctggagc ccgttgttgg tgccgctatt 5161 gcggcacctg tagcgggcca acaaaatata attgacccct ggattagaaa taattttgta 5221 caagcccctg gtggagagtt tacagtgtcc cctagaaacg ctccaggtga gatactatgg 5281 agcgcgccct tgggccctga tttgaacccc tatctttctc atttgtccag aatgtacaat 5341 ggttatgcag gtggttttga agtgcaagta atcctcgcgg ggaacgcgtt caccgccggg 5401 aaagttatat ttgcagcagt tccaccaaac tttccaactg aaggcttaag ccccagccag 5461 gttactatgt tcccccatat aattgtagat gttaggcaat tggaacctgt gttgatcccc 5521 ctacctgatg ttaggaataa tttctatcat tacaatcaat cacatgattc tacccttaag 5581 ttgatagcaa tgttgtatac accactcagg gctaataatg ccggggacga tgtcttcaca 5641 gtctcttgtc gagttctcac gaggccatcc cccgattttg atttcatatt cttggtgcca 5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg 5761 tccaattcaa gattccccat tcctttggaa aagttgtaca cgggtcctag cagtgctttt 5821 gttgtccaac cacaaaatgg cagatgcacg actgatggcg tgctcttagg tactacccag 5881 ctgtcagctg tcaacatctg taactttagg ggggatgtca cccatattgt gggcagccat 5941 gattatacaa tgaatctggc ttcccaaaat tggagcaatt atgacccaac agaagaaatc 6001 ccagcccccc tgggaacacc agattttgtg gggaagatcc aaggcctgct cacccagacc 6061 acaagagcgg atggctcgac ccgtgcccac aaagctacag tgagcactgg gagtgtccac 6121 ttcactccaa agttgggtag tgttcaattc accactgaca caaacaatga tttccaaact 6181 ggccaaaaca cgaaattcac cccagttggc gtcatccagg acggtgatca ccatcagaat 6241 gagccccaac aatgggtact cccaaattac tcaggtagaa ctggtcataa tgtgcacctg 6301 gcccctgccg ttgcccccac ttttccgggt gagcaactcc ttttctttag atccactatg 6361 cccggatgta gcgggtatcc caacatgaat ttggattgcc tactccccca ggaatgggtg 6421 ctgcacttct accaggaagc agctccagca caatccgatg tggctctgct gagatttgtg 6481 aatccagaca caggtagggt tctgtttgag tgcaagctcc ataaatcagg ctatatcaca 6541 gtggctcaca ccggcccgta tgacttggtt atccccccca atggttattt tagatttgat 6601 tcctgggtca accagttcta cacacttgcc cccatgggaa atggaacggg gcgcagacgt 6661 gcattataat ggctggatct ttctttgctg gattggcatc tgatgtcctc ggctctggac 6721 ttggttctct aatcaatgct ggagctgggg ccatcaacca aaaagttgaa tttgaaaata 6781 acagaaaatt gcaacaagct tccttccaat ttagtagcaa tctacaacag gcttccttcc 6841 aacatgataa agagatgctc caagcacaaa ttgaggctac tcaaaaattg caacaggatc 6901 tgatgaaggt taaacaggca gtgctcctag agggtggatt ttccacaaca gatgcagccc 6961 gtggggcaat caatgccccc atgacaaagg ctctggactg gagcggaaca aggtactggg 7021 cccctgatgc caggaccaca acatacaatg caggccgctt ttccacccct cagccttcgg 7081 gggcattgcc aggaagaact aatcctagga ttaccgtccc cgctcggggc ccccccagca 7141 cactttctaa tgcttctatt gctacttctg tgtattcaaa tcaaactgtt tcaacgagac 7201 taggttcttc agctggttct ggtaccggtg tctcgagtct cccgtcaact gcaaggacta 7261 ggaactgggt tgaggaccaa aacaggaatt tgtcaccttt catgaggggg gctctcaaca 7321 catcattcgt cacccctcca tctagtagat cctctaacca aggcacagtc tcaaccgtgc 7381 ctaaagaaat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg 7441 ctcacattcg caaacgaggg gagtcacggg tgtaatgtga aaagacaaaa ttgattttct 7501 ttcttttctt tagtgtcttt t //