Typing tool
|
Complete norovirus genomes
MW305661 | GII.4 US95 | ||
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GII.P4 US95 |
ORF1: 1..5069 ORF2: 5050..6669 ORF3: 6669..7475LOCUS MW305661 7521 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate 1115 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305661 VERSION MW305661.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7521) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Genome-wide analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7521) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Direct Submission JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993, USA COMMENT ##Assembly-Data-START## Assembly Method :: High-performance Integrated Virtual Environment (HIVE) v. 2 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7521 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="1115" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Japan" /collection_date="13-Dec-1997" /note="genotype: GII.4[GII.P4]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59319.1" /translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR PPRPPTPELIKKIPPPPPNGEDEIVVSYSVRDGVSGLPELSTVRQPEEANTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELIPLSL FWRPVYTPQYLISPDTLKKLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANVFLCALSSLFTRPIKDIIGRLRPLNILNILA SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD QRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPDLKQALKNIS IKKCQIVYSGCTYTLESDGKGNVKVDRVQSASVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTGEAINRDGCSKPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRES DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGRDPRVKDGPSLQQVMRDQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPEKWSFTQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAA LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" mat_peptide <1..959 /gene="ORF1" /product="p48" mat_peptide 960..2057 /gene="ORF1" /product="NTPase" mat_peptide 2058..2594 /gene="ORF1" /product="p22" mat_peptide 2595..2993 /gene="ORF1" /product="VPg" mat_peptide 2994..3536 /gene="ORF1" /product="Pro" mat_peptide 3537..5066 /gene="ORF1" /product="RdRp" gene 5050..6669 /gene="ORF2" CDS 5050..6669 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59320.1" /translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSDDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT QLSAVNICTFRGDVTHIAGSHDYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTREDGSTRAHKATVSTGSVHFTPKLGSVQYTTDTNNDFQTGQNTKFTPVGVIQDG NNHQNEPQQWVLPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC LLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGPHDLVI PPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6669..7475 /gene="ORF3" CDS 6669..7475 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59321.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQGMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTHNAGRFSTPQPSGALPGRTNLRATVPARGSSSALS STPTATSVYSNQTVSTRLGSSAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGALNT SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta 61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg 121 aaataccaca aagaccccca cgaccaccca ccccagaact gatcaaaaag atcccccctc 181 ccccgcccaa cggggaggat gaaatagtgg tttcttatag tgtcagagat ggcgtttccg 241 gtctgcctga gctttccacc gtcaggcaac cggaagaagc caatacggcc ttcagtgtcc 301 ccccactcaa ccagagggag aatagggatg ctaaggagcc actgactgga acaattctgg 361 aaatgtggga tggagagatc taccattacg gcctatatgt ggagcgaggc cttatacttg 421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgagctaata ccactctcct 481 tgttctggag acctgtgtat actccccagt atctcatctc tccagacact ctcaagaaat 541 tacacggaga atcgtttccc tacacagcct ttgacaacaa ttgctatgcc ttctgttgct 601 gggtcttgga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggtt 661 tcttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gattccaaat 721 tgaagaaggt agctaatgta ttcctgtgtg ctctatcttc actattcacc aggcccataa 781 aagacataat agggaggcta aggcctctta acatcctcaa catcttggcc tcatgtgatt 841 ggactttcgc aggcatagtg gaatccttga tactcttggc agagctcttt ggagttttct 901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgattac gagttacaag 961 gacctgagga ccttgcagtg gaactcgttc ctgtagtgat ggggggaatt ggtttggtgc 1021 taggatttac caaagagaag attggaaaaa tgttgtcatc tgctgcatcc accttaagag 1081 cttgtaaaga tcttggtgca tacgggctgg aaatcctaaa gttagtcatg aagtggttct 1141 tcccaaagaa agaggaagca aatgaactgg ctatggtgag atccatcgag gatgcagtgc 1201 tggaccttga ggcaattgaa aacaaccata tgaccacctt gctcaaagac aaagacagtc 1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccagaaag ctctcaacca 1321 agtccgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgctgctg 1381 cacgttccct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cctgttgtct 1441 tgatgatatc aggcagacca ggaataggga agacccacct tgccagggaa gtggccaaga 1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggcct cgtcccacgc aatggcgtcg 1561 accactggga tgcatacaag ggggagaggg tcgtcctatg ggacgactat gggatgagca 1621 atcccatcca cgatgccctc aggttgcaag agctcgctga cacttgcccc ctcactctaa 1681 actgtgacag gattgagaac aaaggaaaag tctttgacag cgatgtcata attatcacca 1741 ctaatctggc caacccagca ccactggact atgtcaactt tgaagcatgc tcgaggcgca 1801 tcgatttcct cgtgtatgca gaagcccctg aagtcgaaaa ggcgaaacgt gacttcccag 1861 gccaacctga catgtggaag aacgctttca gttctgattt ctcacacata aaactaacac 1921 tggctccaca gggtggcttc gataagaacg ggaacacccc acacggaaag ggcgtcatga 1981 agactctcac cactggctcc cttattgccc gggcatcagg gctactccat gagaggctag 2041 atgagtttga actacagggc ccagctctca ccaccttcaa ctttgatcgc aacaaagtgc 2101 ttgcctttag gcagcttgct gctgaaaaca aatacgggtt gatggacaca atgaaagttg 2161 gaaggcagct caaggatgtc agaaccatgc cagatcttaa acaagcactc aagaatatct 2221 caatcaagaa gtgccagata gtctacagtg gttgcaccta tacacttgag tctgatggca 2281 agggcaatgt gaaagttgac agagttcaga gcgcctccgt gcaaaccaac aacgagctgg 2341 ccggcgccct acaccatcta aggtgcgcca gaatcaggta ctatgtcaag tgtgtccagg 2401 aagccctgta ttccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca 2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaagacaca ggggaggcta 2521 tcaacaggga cgggtgctca aaacccaaag atgatgagga gttcgtcatt tcatccgacg 2581 atatcaaaac tgagggcaag aaagggaaga acaagactgg ccgcggcaag aagcacacag 2641 ccttctcaag caaaggtctc agtgatgaag agtacgacga gtacaagagg attagagaag 2701 aaagaaatgg caagtactcc atagaagagt accttcagga cagggacaaa tactatgagg 2761 aggtggccat tgccagggcg accgaggaag acttctgtga agaggaggag gccaagattc 2821 ggcaaaggat cttcaggcca acgaggaaac aacgcaagga ggaaagggcc tctctcggcc 2881 tagtcacagg ttctgaaatc aggaaaagga acccagatga tttcaagccc aaggggaaac 2941 tgtgggctga tgatgataga agtgtggact acaatgagaa actcagtttt gaggccccac 3001 caagcatctg gtcgaggata gtcaactttg gttcaggttg gggcttttgg gtttctccca 3061 gtctgttcat aacatcaacc catgtcatac cccagggcgc aaaggagttc tttggagtcc 3121 ccatcaagca aattcaggta cacaaatcag gcgaattctg tcgcttgagg ttcccaaaac 3181 caatcaggac tgatgtgacg ggcatgatct tagaagaagg tgcgcccgaa ggcaccgtgg 3241 tcacactact catcaagagg cctactggag agcttatgcc cttagcagct agaatgggga 3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcagatgggc atgcttctga 3361 caggatccaa cgccaaaagc atggacctag gtaccacacc aggtgactgc ggctgcccct 3421 acatctacaa gagggaaagt gactatgtgg ttattggagt ccacacggct gccgctcgtg 3481 ggggaaacac tgtcatatgt gccacccagg ggagtgaggg ggaggctaca cttgaaggtg 3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccaggaagt gccccaaaac 3601 tcagcaccaa gaccaaattc tggagatcgt ccacaacacc actcccacct ggcacctatg 3661 aaccagccta tcttggtggt agggacccca gagtcaagga tggcccttca ttgcaacaag 3721 ttatgaggga tcagttgaaa ccatttacag agcccagggg caaaccacca aagccaagtg 3781 tgttggaagc tgccaagaaa accatcatca atgtccttga acaaacaatt gatccacctg 3841 agaaatggtc attcacgcaa gcttgcgcgt cccttgacaa gactacttcc agtggccatc 3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc tttcacaggc aagctggcag 3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccagtctaca 4021 caggtgcgct taaggatgaa ttagttaaaa ctgacaaaat ttatggtaag atcaagaaga 4081 ggcttctctg gggctcggac ttagcgacca tgattcggtg cgctcgagca ttcgggggct 4141 taatggatga actcaaagca cactgtgtta cacttcctat cagagttggt atgaatatga 4201 atgaggatgg ccccatcatc ttcgagaggc attccaggta caaatatcac tatgatgctg 4261 attactctcg gtgggattca acacaacaga gagccgtatt ggcagcagcc ctagaaatca 4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtagt cgcagaagac cttctttctc 4381 ccagcgtggt ggatgtgggt gacttcaaaa tatcaatcaa tgagggtctc ccctctgggg 4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcgctct 4501 ctgaagttac aaacttgtcc cctgacatca tacaggctaa ttccctcttc tccttttatg 4561 gcgatgatga aattgttagt acagatataa agttggaccc agagaaattg acagcaaaac 4621 tcaaggaata cgggttgaaa ccaacccgcc ctgacaaaac tgaagggccc cttgttattt 4681 ctgaagactt aaatggtctg accttcctgc ggagaactgt gacccgcgac ccagctggtt 4741 ggtttggaaa attggagcag agttcaatac tcagacaaat gtactggact aggggcccca 4801 accatgaaga cccatctgaa acaatgattc cacattccca aagacccata caattgatgt 4861 ccctactggg agaggccgca ctccacggcc cagcattcta cagcaaaatt agcaagttag 4921 ttattgcaga gttaaaagaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt 4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cacagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgtcgg tgccgctatt 5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta 5221 caagcccctg gtggagagtt tacagtatcc cctagaaacg ctccgggtga gatactatgg 5281 agcgcgcccc tgggccctga tttgaacccc tacctttctc atttggccag aatgtacaat 5341 ggttatgcag gtggttttga agtgcaggta atcctcgcgg ggaacgcgtt caccgccggg 5401 aaaatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccctagccag 5461 gttactatgt tcccccatat aatagtagat gttaggcaat tggaacctgt gttgatcccc 5521 ttacctgatg ttaggaacaa tttttatcat tacaatcaat cagatgattc taccattaaa 5581 ttgatagcaa tgctgtatac accacttagg gctaataatg ctggggatga tgtcttcaca 5641 gtctcttgtc gagtcctcac gaggccatcc cccgattttg atttcatatt cttggtgcca 5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg 5761 tccaattcaa gattccccat tcctttggaa aagttgtaca cgggtcccag cagcgctttt 5821 gttgtccaac cacaaaatgg caggtgcacg actgatggcg tgctcttagg cactacccag 5881 ctgtctgctg tcaacatctg caccttcaga ggggatgtca cccacattgc gggcagtcat 5941 gattatacaa tgaatttggc ttctcaaaat tggaacaatt atgacccaac agaagaaatc 6001 ccagcccctc tgggaactcc agatttcgtg ggaaagatcc aaggcatgct cacccaaacc 6061 acgagagagg atggctcgac ccgcgcccac aaagctacag tgagcactgg aagtgtccac 6121 tttactccaa agctgggcag tgtccaatac accactgaca caaacaatga ttttcaaact 6181 ggccaaaaca cgaagttcac cccagtcggc gtcatccagg acggtaataa ccatcaaaat 6241 gaaccccaac aatgggtact cccaaattac tcaggtagaa ctggtcataa tgtgcaccta 6301 gctcctgccg ttgcccccac ttttccggga gagcaacttc ttttctttag gtccactatg 6361 cccggatgta gcgggtatcc caacatgaat ctggattgcc tactcccaca ggaatgggtg 6421 cagcacttct accaagaagc agctccagca caatctgatg tggctctgct gagatttgtg 6481 aatccagaca caggtagggt tctgtttgag tgcaagctcc ataaatcagg ctatgtcaca 6541 gtggctcaca ccggcccgca tgatttggtt atccccccca atggttactt tagatttgat 6601 tcctgggtca accagttcta cacacttgcc cccatgggaa atggagcggg gcgtagacgt 6661 gcactataat ggctggagct ttctttgctg ggttggcatc tgatgtcctt ggctctggac 6721 ttggttccct aatcaatgct ggggctgggg ccatcaacca aaaagttgaa tttgaaaata 6781 acagaaaatt gcaacaagct tccttccaat ttagtagcaa tctacaacag gcttccttcc 6841 aacatgataa agagatgctc caagcacaga ttgaggccac taaaaagttg caacagggta 6901 tgatgaaggt taaacaggcg atgctcctag agggtggatt ctctgaaaca gatgcagccc 6961 gcggggcaat caacgccccc atgacaaagg ctctggactg gagcggaaca aggtactggg 7021 ctcctgatgc caggaccaca acacacaatg caggccgctt ctccacccct caaccttcgg 7081 gggcattgcc aggaagaact aatcttaggg ctactgtccc cgctcggggc tcctctagtg 7141 cactttctag tactcccact gctacttctg tgtattcaaa tcaaactgtt tcaacgagac 7201 ttggttcttc agctggttct ggtaccagtg tctcgagtct cccgtcaact gcaaggacta 7261 ggagctgggt tgaggatcaa aacagaaatt tgtcaccttt tatgaggggg gctctcaaca 7321 catcattcgt caccccacca tctagtagat cctctagcca aggcacagtc tcaaccgtgc 7381 ctaaagaaat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg 7441 ctcacattcg taagcgaggg gagtcacggg tgtaatgtga aaagacaaaa ttgattatct 7501 ttcctttctt tagtgtcttt t //