Typing tool
|
Complete norovirus genomes
OR797347 | GII.3 | ||
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GII.P12 |
ORF1: 1..1589 ORF2: 1570..3216 ORF3: 3216..3705LOCUS OR797347 3705 bp RNA linear VRL 08-JAN-2024 DEFINITION Norovirus GII isolate SDLY201718 nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION OR797347 VERSION OR797347.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 3705) AUTHORS Li,C., Song,S., Huang,X., Liu,X., Lv,H., Shen,Y., Wei,X., Zhang,W. and Xu,Y. TITLE Molecular epidemiology and genetic diversity of norovirus among hospitalized patients with acute gastroenteritis in Shandong, China, 2016-2018 JOURNAL J Med Virol 95 (12), e29339 (2023) PUBMED 38130177 REFERENCE 2 (bases 1 to 3705) AUTHORS Li,C., Song,S., Huang,X., Liu,X., Lv,H., Shen,Y., Wei,X., Zhang,W. and Xu,Y. TITLE Direct Submission JOURNAL Submitted (10-NOV-2023) school of public health, Shandong university, 44 Wenhua West Road, Jinan, Shandong 250000, China COMMENT ##Assembly-Data-START## Assembly Method :: BWA v. 0.7.17 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..3705 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="SDLY201718" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="China" /collection_date="2017-05-01" /note="genotype: GII.3[P12]" gene <1..1589 /gene="ORF1" CDS <1..1589 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="WPC83738.1" /translation="GNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPKPSVLE AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMEELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAA LEIMVKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" mat_peptide <1..56 /gene="ORF1" /product="Pro" mat_peptide 57..1586 /gene="ORF1" /product="RdRp" gene 1570..3216 /gene="ORF2" CDS 1570..3216 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WPC83739.1" /translation="MKMASNDATPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD VRNNFFHYNQGSDSRLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPEFSFNFLVPP TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTAGRFTPKLGSLEISTESDDFDQNQP TRFTPVGIGVDHEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRVQ" gene 3216..>3705 /gene="ORF3" CDS 3216..>3705 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WPC83740.1" /translation="MAGAFVAGLAGDILTNTVGSLVNAGANAINQKVDFENNKYLQNA SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG TRYWAPSATSTTSMSGGFTNQAVHRTTPNFNMNQAPRSTSSSGSSVRSLSTQVTSLSS HSS" ORIGIN 1 gaggaaacac tgtcatttgt gccacccagg ggagcgaggg agaagccaca cttgaaggcg 61 gtgatagcaa ggggacctac tgcggtgcac caatcttagg tccaggaagt gccccaaaac 121 tcagcaccaa gaccaagttc tggaggtcat ccacggcacc actcccacct ggtacctatg 181 aaccagctta cctcggtggc aaggacccca gagttaaggg tggcccttca ctgcaacaag 241 ttatgaggga tcaactgaaa ccattcactg agcctagggg taggccacca aaaccaagtg 301 tgctagaagc tgccaagaaa accatcatca atgtcctaga acagacaatt gacccacctc 361 aaaaatggtc gtttgcacag gcatgcgcat ccctagacaa gaccacttct agcggtcatc 421 cgcaccacat gcggaagaat gactgctgga acggggagtc cttcacagga aaattagcag 481 accaggcttc caaggccaat ctgatgtttg aggaggggaa gaacatgacc ccagtttaca 541 cgggtgcgct taaggacgag ctggtcaaga ctgacaagat ttatggtaag atcaaaaaga 601 ggcttctctg gggttcggac ctggcgacca tgattcggtg cgctcgagca ttcgggggtc 661 tgatggagga actcaaagca cattgtgtca cactacctgt tagggtgggt atgaatatga 721 atgaggatgg ccctatcatc tttgagagac actccagata taaatatcat tatgatgctg 781 attactcccg gtgggattca acacaacaaa gagctgtgtt ggcagcagcc ttagaaatca 841 tggtcaagtt ttccccagag ccacacctgg cccaaaaggt tgcagaagac cttctttctc 901 ccagcgtgat ggacgtgggt gacttcaaaa tatcaatcaa tgagggtctc ccctccggag 961 tgccctgcac ctcccaatgg aattccatcg cccactggct cctcactctc tgtgcactct 1021 ccgaggttac aaacctgtcc cctgacatta ttcaggctaa ctctctcttt tctttctacg 1081 gtgatgatga aattgtgagt acagacataa aattggaccc agaaaaactg acagcaaaac 1141 tcaaggaata cgggttgaaa ccgacccgcc ctgacaaaac tgaagggcct cttgtcattt 1201 ccgaagacct gaatggccta accttcctgc ggaggaccgt gactcgcgac ccagcaggct 1261 ggtttggaaa gttggaacag agttcaatac tcagacaaat gtactggact agaggcccca 1321 accatgaaga tccatctgaa acaatgatac cacactccca gaggcccata caattgatgt 1381 ctttgctggg tgaggcagca ctccacggcc cagcattcta cagcaaaatc agtaaactgg 1441 tcattgcaga attgaaggag ggtggcatgg atttttacgt gccaagacaa gaaccaatgt 1501 tcagatggat gagattctcg gatctgagca cgtgggaggg cgatcgcaat ctggctccca 1561 gttttgtgaa tgaagatggc gtcgaatgac gccaccccat ctaatgatgg tgccgccggc 1621 ctcgtcccag agatcaacaa tgaggcaatg gcgctagatc cagtggcggg tgcagcgata 1681 gcagcacccc tcaccggcca gcaaaatata attgatccct ggattatgaa taattttgtg 1741 caagcacctg gtggtgagtt cacagtgtct cctaggaatt cccctggtga agtgctcctc 1801 aatttggaat tgggcccaga gataaacccc tatctggccc atcttgctag aatgtacaat 1861 ggttatgcag gtgggtttga agtgcaggta gtcctggctg gaaatgcgtt tacagcagga 1921 aagataatct ttgcagctat accccctaac ttcccaattg acaatctaag tgcagcacag 1981 atcacaatgt gcccacatgt gattgtggat gtcaggcagc tggaaccggt caacctcccg 2041 atgcctgacg ttcgcaacaa cttcttccac tacaaccaag ggtctgattc gagattgcgc 2101 ttggttgcaa tgctgtatac acctcttagg gcaaataact ctggggatga tgttttcact 2161 gtgtcttgta gagtgctgac tagacctagt cctgaattct catttaactt ccttgtgcca 2221 cccactgtgg agtcaaagac aaaacctttt accctcccaa ttctgactat ctctgaaatg 2281 tctaattcta ggtttccagt gccgattgat tctctgcaca ccagcccaac tgagaatatt 2341 gttgtccagt gtcaaaatgg acgcgtcact cttgatggcg agttgatggg caccactcag 2401 ctcttaccta gccaaatctg tgctttcagg ggcgtgctca ctagatcaac aagcagggct 2461 agtgaccagg ccgacacagc aacccctaga ttgtttaatt attattggca catacaattg 2521 gataatctga atgggactcc ttatgatcct gcagaagaca taccaggccc cctagggaca 2581 ccagatttcc ggggcaaagt ctttggcgtg gccagccaaa gaaaccccga cagtacaact 2641 agagcacatg aagcaaaggt ggacacaaca gctggtcgct tcaccccaaa attaggttca 2701 ttagagatat ccactgaatc tgatgacttt gaccaaaacc agccaacaag gttcacccca 2761 gttggcattg gggttgacca cgaggcagac ttccaacaat ggtccttacc cgattactct 2821 ggccagttca ctcacaacat gaacttagcc ccagctgttg ctcccaactt ccctggtgag 2881 cagctccttt tcttccgctc acagttacca tcttctggtg ggcgatccaa tgggattcta 2941 gattgcctgg tcccccaaga atgggtccag cacttctacc aagaatcagc ccccgcccaa 3001 acccaggtgg ctctggttag atatgtcaac cctgacactg gtagagtgtt gtttgaggcc 3061 aagctgcaca aattgggttt catgactata gctaagaatg gtgattctcc aataactgtc 3121 cccccaaatg gatactttag gtttgaatct tgggtgaacc cattttatac acttgccccc 3181 atgggaactg ggaatgggcg tagaagagtt caataatggc tggtgctttt gtagcaggat 3241 tagctggtga tatactcaca aatactgtag ggtctctagt taatgcaggg gctaatgcta 3301 ttaatcaaaa agttgatttt gaaaataata aatatctgca aaatgcttcc ttcaatcatg 3361 ataaggaaat gttaaatgca cagattgagg caacaaagag attacaggct gacatgattg 3421 ctatcaaaca gggggttttg accgctggcg gcttttcccc cactgatgca gctcgcgggg 3481 caattaacgc ccccatgaca aaagtcctag attggaatgg aacaaggtac tgggcaccaa 3541 gtgccacctc tacaacctcg atgtcgggtg gcttcacaaa ccaggctgtg cacagaacca 3601 cgccaaattt taatatgaac caggccccca gatccacatc cagcagtggg tcttcagtga 3661 ggtcactctc aacccaagtc actagtctga gctcacactc gtccg //