Typing tool
|
Complete norovirus genomes
MW305590 | GII.4 US95 | ||
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GII.P4 US95 |
ORF1: 1..5069 ORF2: 5050..6669 ORF3: 6669..7475LOCUS MW305590 7521 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate 170 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305590 VERSION MW305590.1 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7521) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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="170" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Japan" /collection_date="16-Dec-1995" /note="genotype: GII.4[GII.P4]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59106.1" /translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR PPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPEEANTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLKKLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD QRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF ELQGPAITTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPDLKQALKNIS IKKCQIVYSGCTYTLESDGKGNVKVDRVQSASVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTGEAINKDGCPKPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGIPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE 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="QPJ59107.1" /translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP 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="QPJ59108.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQGMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNLRATVPARGSSSTLS STPTATSVYSNQTVSTRLGSSAGSGASVSSLPLTARTRSWVEDQNRNLSPFMRGALNT SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKQGESRV" ORIGIN 1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta 61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg 121 aaataccaca aagaccccca cgaccaccca ccccagaact ggtcaaaaag atcccccctc 181 ccccgcccaa cggggaggat gaaatagtgg tttcttatag tgtcaaagat ggcgtttccg 241 gtctgcctga gctttccacc gtcaggcaac cggaagaagc caatacggcc ttcagtgtcc 301 ccccactcaa ccagagggaa aatagggatg ctaaggagcc actgactgga acaattctgg 361 aaatgtggga tggggagatc taccattacg gcctatatgt ggagcgaggt cttatacttg 421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgagctaaca ccactctcct 481 tgttctggag acctgtgtat actccccagt atctcatctc tccagacact ctcaagaaat 541 tacacggaga atcgtttccc tatacagcct ttgacaacaa ttgctatgcc ttctgttgct 601 gggtcttgga cctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggtt 661 tcttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gattccaaat 721 taaagaaggt agctaatata ttcctgtgtg ctctatcttc actattcacc aggcccataa 781 aagacataat agggaagcta aggcctctta acatccttaa catcttggcc tcatgtgatt 841 ggactttcgc aggcatagtg gaatccttga tactcttggc agagctcttt ggagttttct 901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgattac gagttacaag 961 ggcctgagga 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 tggacctcga ggcaattgaa aacaaccata tgaccaccct gctcaaagac aaagacagtc 1261 tggcaaccta catgaggacc cttgaccttg aggaggagaa agccaggaag ctctcaacca 1321 agtccgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgagg atcgctgctg 1381 cacgttccct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cctgttgtct 1441 tgatgatatc aggcagacca ggaataggga agacccacct tgctagggaa gtggccaaga 1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggcct cgtcccacgc aatggcgtcg 1561 accactggga tgcatacaag ggggagaggg tcgtcctatg ggacgactat gggatgagca 1621 atcccatcca cgatgccctc aggttgcaag aactcgctga cacttgcccc ctcactctaa 1681 actgtgacag gattgagaac aaaggaaagg tctttgacag tgatgtcata 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 acacgggaag ggcgtcatga 1981 agactctcac cactggctcc cttattgccc gggcatcagg gctactccat gagaggctag 2041 atgagtttga actacagggc ccagctatca ccaccttcaa ctttgatcgc aacaaagtgc 2101 ttgcctttag gcagcttgct gctgaaaaca aatacgggtt gatggacaca atgaaagttg 2161 gaaggcagct caaggatgtc agaaccatgc cagatcttaa acaagcactc aagaatatct 2221 caatcaagaa gtgccagata gtgtacagtg gttgcaccta tacacttgag tctgatggca 2281 agggcaatgt gaaagttgac agagttcaga gcgcctccgt gcagaccaac aacgagctgg 2341 ccggcgccct acaccatcta aggtgcgcca gaatcaggta ttatgtcaag tgtgtccagg 2401 aggccctgta ttccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca 2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaagacaca ggggaggcta 2521 tcaacaagga cgggtgccca aaacccaaag atgatgagga gttcgtcatt tcatccgacg 2581 atatcaaaac tgagggcaag aaagggaaga ataagactgg 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 tttcaggcca acaaggaaac aacgcaagga ggaaagggcc tctctcggtt 2881 tagtcacagg ttctgaaatc aggaaaagga acccagatga tttcaagccc aaggggaaac 2941 tgtgggctga tgatgacaga agtgtggact acaatgagaa actcagtttt gaggccccac 3001 caagcatctg gtcgaggata gtcaactttg gttcaggttg gggcttttgg gtctctccca 3061 gtctgttcat aacatcaacc catgtcatac cccagggcgc aaaggagttc tttggaatcc 3121 ccatcaagca aattcagata cacaaatcag gcgaattctg tcgcttgagg ttcccaaaac 3181 caatcaggac tgatgtgacg ggtatgatct tagaagaagg tgcgcccgaa ggcaccgtgg 3241 tcacactact catcaagagg cctactggag aacttatgcc cctagcagct agaatgggga 3301 cccatgcaac catgaaaatt caagggcgta ctgttggagg tcagatgggc atgcttctga 3361 caggatccaa cgccaaaagc atggacctgg gcaccacacc aggtgactgc ggctgcccct 3421 acatctacaa gagggaaaat gactatgtgg ttattggagt ccacacggct gccgctcgtg 3481 ggggaaacac tgtcatatgt gccacccagg ggagtgaggg ggaggctaca cttgaaggtg 3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccagggagt gccccaaaac 3601 tcagcaccaa gaccaaattc tggagatcgt ccacaacacc actcccacct ggcacctatg 3661 aaccagccta tcttggtggt aaggacccca gagtcaaggg tggcccttca ttgcaacaag 3721 ttatgaggga tcagttgaaa ccatttacag agcccagggg caaaccacca aagccaagtg 3781 tgttggaagc tgccaagaaa accatcatca atgtccttga acaaacaatc gatccacccg 3841 agaaatggtc attcacgcaa gcttgcgcgt cccttgacaa gactacttcc agtggccatc 3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc cttcacaggc aagctggcag 3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccagtctaca 4021 caggtgcact taaggatgag ttagttaaaa ctgacaaaat ttatggtaag atcaagaaga 4081 ggcttctctg gggctcggac ttagcgacca tgatccggtg cgctcgagca ttcggaggct 4141 taatggatga actcaaagca cactgcgtta cacttcctat cagagttggt atgaatatga 4201 atgaggacgg ccccatcatc ttcgagaggc attccagata caaatatcac tatgatgctg 4261 attactctcg gtgggattca acacaacaga gagccgtgtt ggcagcagcc ctagaaatca 4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtggt cgcagaagac cttctttctc 4381 ctagcgtggt ggatgtgggt gacttcaaaa tatcaatcaa tgagggtctc ccctctgggg 4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcgctct 4501 ctgaagttac aaacttgtcc cctgacatca tacaggctaa ttccctcttc tccttttatg 4561 gtgatgatga 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 gctaaaagaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt 4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cacagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgctatt 5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa caattttgta 5221 caagcccctg gtggagagtt tacagtatcc cctagaaacg ctccgggtga gatattatgg 5281 agcgcgccct tgggccctga tttgaacccc tacctttctc atttggccag aatgtacaat 5341 ggttatgcag gtggttttga agtgcaggta atcctcgcgg ggaacgcgtt caccgccggg 5401 aaaatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccccagccag 5461 gttactatgt tcccccatat aatagtagat gttaggcaat tggaacctgt gttgatcccc 5521 ttacctgatg ttaggaataa cttctatcat tacaatcaat caaatgattc taccattaaa 5581 ttgatagcaa tgctgtatac accacttagg gctaataatg ctggggatga tgtcttcaca 5641 gtctcttgtc gagtcctcac gaggccatcc cccgattttg atttcatatt cttggtgcca 5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg 5761 tccaactcaa gattccccat tcctttggaa aagttgtaca cgggtcccag cagtgctttt 5821 gttgtccaac cacaaaatgg caggtgcacg actgatggcg tgctcttagg cactacccag 5881 ctgtctgctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggcagtcat 5941 gactatacaa tgaatttggc ttctcaaaat tggaacaatt atgacccaac agaagaaatc 6001 ccagcccctc tgggaactcc agatttcgtg ggaaagatcc aaggcatgct cacccaaacc 6061 acaagagagg atggctcgac ccgcgcccac aaagctacag tgagcactgg gagtgtccac 6121 tttactccaa agctgggcag tgttcaatac accactgaca caaacaatga ttttcaaact 6181 ggccaaaaca cgaaattcac cccagtcggc gtcatccagg acggtaataa tcatcaaaat 6241 gaaccccaac aatgggtgct cccaaattac tcaggtagaa ctggtcataa tgtgcaccta 6301 gctcctgccg ttgcccccac tttcccgggt gagcaacttc ttttctttag gtccactatg 6361 cccggatgta gcgggtatcc caacatgaat ctggattgcc tactccccca ggaatgggtg 6421 cagcacttct accaagaagc agctccagca caatctgatg tggctctgct gagatttgtg 6481 aatccagaca caggtagggt tctgtttgag tgcaagctcc ataaatcagg ctatgtcaca 6541 gtggctcaca ctggcccgca tgatttggtt atccccccca atggttactt tagatttgat 6601 tcctgggtca accagttcta cacacttgcc cccatgggaa atggagcggg gcgcagacgt 6661 gcattataat ggctggagct ttctttgctg gattggcatc tgatgtcctt ggctctggac 6721 ttggttccct aatcaatgct ggggctgggg ccatcaacca aaaagttgaa tttgaaaata 6781 acagaaaatt gcaacaagct tccttccaat ttagtagcaa cctgcaacag gcttccttcc 6841 aacatgataa ggagatgctc caagcacaaa ttgaggccac taagaaattg caacagggta 6901 tgatgaaggt taaacaggcg atgctcctag agggtggatt ctctgaaaca gatgcagccc 6961 gtggggcaat caacgccccc atgacaaagg ctctggactg gagcggaaca aggtactggg 7021 ctcctgatgc caggaccaca acatacaatg caggccgctt ttccacccct caaccttcgg 7081 gggcattgcc aggaagaact aatcttaggg ctactgtccc cgctcggggc tcctctagta 7141 cactttctag tactcccact gctacttctg tgtattcaaa tcaaactgtt tcaacgagac 7201 ttggttcttc agctggttct ggtgccagtg tctcgagtct cccgttaact gcaaggacta 7261 ggagctgggt tgaggatcaa aacagaaatt tgtcaccttt tatgaggggg gctctcaaca 7321 catcattcgt caccccacca tctagtagat cctctagcca aggcacagtc tcaaccgtgc 7381 ctaaagaaat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg 7441 ctcacattcg taagcaaggg gagtcacggg tgtaatgtga aaagacaaaa ctgattatct 7501 ttcctttctt tagtgtcttt t //