Typing tool
|
Complete norovirus genomes
MW305627 | GII.2 | ||
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GII.P2 |
ORF1: 1..5069 ORF2: 5050..6678 ORF3: 6678..7457LOCUS MW305627 7502 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate Arg13737 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305627 VERSION MW305627.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7502) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7502) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7502 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Arg13737" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Argentina" /collection_date="2015" /note="genotype: GII.2[GII.P2]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59217.1" /translation="AAVNSNNDNTKSSSDGMLNNMAVTLKRALGARPKQPAPREKPPR PPRPPTPELIKRIPPPPPNDGDEPTVMFSTAGGVSGLPELTTVGQPPEASTAFSVPPL SQRENRDAKEPLTGTILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISIAKVELTPLSL YWRPVYTPQYLIPPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWLSRRMISRTT GFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLKPLNILNILA SCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPEDIAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDEANELAMV RAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKKIASTLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM WKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEY ELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMDELRKAIKNIT IRKCQIVYGGNTYTLESDGKGRVVVERVQNASVQINNEIAGAVHHLRCARIRYYVKCV QEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEDADEATTKEGCPKPRDEEEFVV SSEDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVATILIKRTT GELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGFPHHVRKNEHWNGESFTGKLAD QASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLATMVRCARSFG GLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDSTQQRAVLAAA MEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREYGLKPTRPDK TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSVLRQLYWTKGPNHEDPFESMIP HSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSLVNEDGVE" 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..6678 /gene="ORF2" CDS 5050..6678 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59218.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKQNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFA PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSTP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6678..7457 /gene="ORF3" CDS 6678..7457 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59219.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPGSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFVTQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTHRQPLFAHLRKRGESQA" ORIGIN 1 tcgctgctgt taacagcaac aacgacaaca caaaatcttc aagtgacgga atgcttaaca 61 acatggccgt cacccttaaa cgagcccttg gggcccgacc caaacagccg gccccgaggg 121 aaaaacctcc aagaccccct agaccaccaa caccagaact aattaaaaga atcccccccc 181 caccacctaa tgatggggat gaaccaaccg tgatgtttag cactgcaggt ggtgtgtctg 241 gcctacctga gctcacaaca gtcggtcaac cacctgaagc tagcacggcc tttagcgtgc 301 ctcccctcag ccaaagggaa aacagggacg ctaaggagcc gttaactgga actattctgg 361 aaatgtggga cggggagatt tatcactatg gactgtatgt ggaaaaaggg cttgtgttag 421 gcgtgcacaa gccaccggct gccatcagca tagccaaagt ggaattaacg cctctctcac 481 tgtattggag gcctgtgtac acgcctcagt acctcatacc tccagacacc ttgaggaaac 541 tccacggtga actattcccc tatacagcct ttgaaaacaa ctgttatgcc ttctgctgtt 601 gggttttgga ccttaacgat tcatggctaa gcaggaggat gattagtagg actactggct 661 ttttcaggcc ctaccaagag tggaacagga agcccctccc aaccatggat gactcaaaat 721 tgaaaaaggt cgcaaacatc gttctatgtg cattgtcatc attgttcact agacccatta 781 aggatataat tggcaagctt aaacccctca acatcctgaa cattctggcc tcgtgcgact 841 ggaccttcgc tggcatagtt gagtcactaa tcctcttggc tgaactcttt gatgtgttct 901 ggacaccccc agacgtgtct gcaatgatcg cacccctcct cggtgactat gagctacaag 961 gccctgaaga catcgctgtg gagctcgtac ccgttgtgat gggtgggata ggtctggtgc 1021 tgggattcac caaagagaaa ataggtaaga tgctctcctc tgcagcatca actttgaggg 1081 catgcaaaga tcttggagcc tatggactgg agatattgaa actagtcatg aaatggttct 1141 tcccaaagaa ggatgaggcc aacgaactgg ctatggttag agccattgaa gacgctgtat 1201 tagacctgga ggctattgag aacaaccata tgaccactct attgaaagac aagaacagcc 1261 ttgcagccta catgaagacc ctggacatgg aagaggaaaa agctaggaag ttatccacca 1321 aatcagcctc ccctgacatt gtgggcacca taaatgccct gttggctagg atcgctgccg 1381 cgcgctcctt agttcatagg gccaaggagg agctctccag caggccaagg ccggtcgtct 1441 tgatgatctc tggcaagcca gggataggaa agacccactt ggccagagaa ctggcaaaga 1501 aaatcgcctc aacactcaca ggagaccaga gagtgggcct catcccacgg aatggagttg 1561 accattggga tgcctacaaa ggtgagagag tggtgctctg ggatgattac gggatgagca 1621 accccatcca cgatgcgctg aggttgcaag aactggcaga cacatgtcca ttgactctaa 1681 attgtgacag gattgaaaac aaggggaaag tcttcgacag cgatgcgatc ataattacca 1741 ccaatttggt caatcctgcg ccgctggatt atgtcaactt tgaggcctgc tccagacgta 1801 tagacttcct tgtgtatgct gatgccccag aagtcgagaa agcgaagcgg gacttccccg 1861 gccaaccaga catgtggaag gacgcctatc gctctgactt ctcacacatc aaactacaac 1921 ttgcaccaca aggtgggttt gacaaaaatg gtaacacccc tcatggtaaa ggagtgatga 1981 agactctcac tgccagctca ctggttgcgc gtgcctctgg tctcttgcac gagaggctag 2041 atgagtacga attgcaaggt ccacccctct caaccttcaa ctttgaccgc aacaaaattg 2101 cagcgttcag acaactcgct gctgaaaaca agtatggtct ggtagacacg atgagggtgg 2161 gtaaccagct cagaaatgtc acgaccatgg atgaactcag gaaggctatc aagaacatca 2221 caatcagaaa gtgtcagata gtctatggtg gcaacactta cacgcttgag tctgacggca 2281 agggtagagt tgtggttgag agggtgcaga acgccagcgt gcaaatcaac aatgagatcg 2341 ctggtgcagt acaccacctt agatgtgcca gaatacggta ttatgttaag tgtgtccaag 2401 aggctatcta ctcactcctc caaattgctg gcacggtgtt tgtcacttca cgcatcgtaa 2461 gccgcatgaa catccaaaat ttatggtcca ggccattaac tgaagatgca gatgaggcca 2521 ccacgaaaga ggggtgccct aaacctaggg atgaagaaga atttgtcgtc tcctcagaag 2581 atatcaagcc agagggcaag aaaggtaaaa acaagagtgg ccggggcaag aaacacacgg 2641 cattctcaag caaaggtctc agtgatgagg agtacgaaga gtacaaaagg attagagagg 2701 agagaaatgg caaatactcc atagaggaat acctacagga cagagacaag tactatgaag 2761 aggtggccat tgccagggcg actgaagaag acttctgtga agaagaagag gttaagatac 2821 gtcagaggat cttcaggcca actagaaagc aacgcaagga agaaagagcc aaccttggcc 2881 tcgtcaccgg atctgagatc aggaagagga acccagatga ctttaaacca aaaggaaagc 2941 tgtgggccga cgatgatagg agcgtcgact acaacgaaag aatcagcttt gaggccccac 3001 caagcatttg gtctagaatt gtcaactttg gttctggatg ggggttttgg gtgtcaccta 3061 gcctcttcat aacatcaaca catgtcatac cccaaggcat aactgaagcc tttggtgtac 3121 ccataaggca agtgcaaata cacaaatcgg gcgaattctg tcgcctgaga ttcccaaaac 3181 ccatcaggac agatgtgtca ggtatgatac tggaggaggg agcgcctgaa ggcactgttg 3241 ccaccatact catcaagaga accactggag aactgatgcc ccttgcagca agaatgggca 3301 cccacgcgac catgaggata caaggacgca cggtgggcgg ccaaatggga atgctgctca 3361 ctggatccaa tgcaaagagc atggatcttg gcaccacacc tggtgactgt gggtgtccct 3421 atatttacaa aaggggcaat gattacatag tcattggagt tcacacagca gctgcccgtg 3481 gcggaaacac tgttatctgc gccacacaag gtagtgaggg tgaggccaca ctcgagggtg 3541 gtgacaacaa agggacatac tgtggggcac caatcctagg acccgggagt gccccgaaac 3601 tgagcactaa gaccaaattc tggaggtcct ctacaacacc actcccaccc ggcacatacg 3661 agccggcata tctgggagga aaagaccccc gagtcaaagg tgggccatct ctgcaacaag 3721 tcatgcgaga ccaactgaag ccattcaccg aaccccgtgg taagccacca aaaccaagtg 3781 tccttgaagc tgccaaaaag acaattatca atgtgctaga gcaaacaata gaccccccac 3841 agaagtggac gtacgcgcaa gcgtgcgcgt ctcttgacaa aaccacatct agtgggtttc 3901 cccaccacgt gcgcaaaaac gagcactgga atggggaatc tttcacagga aaattggctg 3961 atcaggcatc aaaagcaaac ctaatgtttg aagagggaaa gcacatgacc ccagtttaca 4021 cagctgccct taaggatgag ttggtcaaaa ctgagaaggt gtatgggaag ataaagaaga 4081 ggttgctttg gggctctgat ctggccacaa tggtgcggtg tgcgcgctct tttggtggtt 4141 tgatggacga acttaaggcc cactgtgtaa cacttccgat aagggttggc atgaatatga 4201 atgaagatgg accaatagtc tttgagaaac actccagata caggtatcac tatgatgcag 4261 actattccag gtgggattca acacagcaga gagccgtcct ggctgcggcc atggagatta 4321 tggttaaatt ctcagcagaa ccacaactag cccaaatagt tgcagaggat ctactgtcgc 4381 ctagtgtagt tgatgtgggc gacttcaaaa tttccatcaa cgaagggtta ccatcaggtg 4441 tcccttgcac ctctcaatgg aactccattg cacactggct cctcaccttg tgtgcccttt 4501 ctgaagtcac agatctctct cccgatattg tgcaagccaa ctccctcttc tccttctatg 4561 gtgatgatga aattgtgagt acagacatta aattagaccc agaaaagttg acggggaagt 4621 tgagagaata cggcctcaaa cccactcggc ctgacaagac tgagggcccc ctgatcatta 4681 gcgaggatct gaatggcctg accttcttga ggagaaccgt cacccgcgac cctgcaggat 4741 ggtttggcaa actggaccag agctctgtac tcaggcaatt gtattggacc aagggtccta 4801 atcatgaaga cccctttgag tcaatgattc cacactccca gaggcccata caactcatgt 4861 cactcttggg cgaagcagca ctgcatgaac catcgtttta cagcaagatc agcaagcttg 4921 tgatatctga gttgaaagaa ggtggaatgg atttttacgt gcccaggcaa gaacccatgt 4981 tcaggtggat gagattctcg gatttgagca cgtgggaggg cgatcgcaat cttgctccca 5041 gtcttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg tgcagccggc 5101 ctcgtgccag aaagtaacaa tgaggtcatg gctcttgaac ccgtggctgg tgccgccttg 5161 gcagccccag tcaccggtca aacaaatatt atagaccctt ggattagagc aaattttgtc 5221 caggccccca atggtgaatt tacagtttct ccccgtaatg cccctggtga agtgctactg 5281 aatctagagt tgggtccaga attaaatcct tatctggcac atttagcaag aatgtataac 5341 gggtatgccg gtgggatgga ggtgcaggtc atgttggctg ggaacgcgtt cacagccggc 5401 aagttggtct tcgccgctgt gccacctcac ttcccggttg aaaaccttag cccacagcaa 5461 attaccatgt tccctcatgt gattatagat gtaaggacct tagaacctgt tttattacca 5521 cttcctgatg ttaggaacaa tttcttccat tataatcaga aagatgatcc taaaatgaga 5581 attgtggcta tgctttacac cccccttagg tctaatggtt caggtgatga tgtgttcaca 5641 gtctcctgca gggtgttgac tagaccctcc cctgattttg atttcacata cctggtgcca 5701 ccaacagtgg aatctaaaac aaaaccattc actctcccaa tcctcacact tggggaactt 5761 tccaattcta ggttcccagt gtccatagac cagatgtaca ccagccccaa tgaggttata 5821 tcagtgcagt gtcaaaatgg taggtgcaca ttggacgggg agcttcaggg gacaacacaa 5881 ctccaagtca gtggtatttg tgctttcaag ggggaagtga ccgcccattt gcatgacaat 5941 gaccacctat ataatgtcac catcacaaac ctgaatgggt ccccctttga cccctccgag 6001 gacatccctg cccctctggg cgtgcctgat ttccagggaa gggtctttgg tatcatctcc 6061 caaagagata aacagaacag ccctggacac aatgaaccag caaacagagg acacgacgct 6121 gtggtcccta cttacacagc acagtacacc ccaaaattgg gtcagattca aattggcaca 6181 tggcagaccg acgacctcac agtcaatcaa ccagtcaaat ttgccccagt cggtctcaat 6241 gacactgaac attttaacca atgggtggtc cccagatacg ctggtgccct aaacctcaac 6301 acaaaccttg ccccttctgt tgctccagtg tttccaggag agcgcctgct tttcttcaga 6361 tcatatattc ctctcaaggg tggttatgga aatccagcca ttgattgcct actaccacaa 6421 gagtgggtgc aacacttcta tcaggaagct gccccatcaa tgagtgaggt ggcccttgtc 6481 agatacatca acccggacac tggtcgggca ctgtttgagg ccaagctcca cagagctggt 6541 ttcatgacag tctcgagcaa caccagtacc ccggtggttg tgcctgccaa tggatacttc 6601 agatttgact cttgggtgaa tcaattctat tctctcgccc ccatgggaac tggaaatggg 6661 cgtagaaggg ttcaataatg gctggagctt ttgtagctgg tcttgcaggg gacgtgctca 6721 gcaatgggct cagttcatta attaatgcag gtgctaatgc aataaatcag agggcagaat 6781 ttgattttaa tcagaaatta cagcaaaatt cttttaatca tgataaggag atgttgcagg 6841 ctcagattca agcaactaag cagctgcagg cagacatgat ggctattaaa cagggggttc 6901 tgaccgctgg cggcttttcc cctgctgatg cagccagagg tgccgtgaat gcgcccatga 6961 cacaggcgct ggactggaac ggtacaaggt actgggcacc aggctctatg aggaccacat 7021 cttattctgg gaaattcaca tcaaccgccc cagtgaggca ggccgacttt cagcacaccc 7081 aaaaccggcc atcgagtggc tcttctgtgt cctcctttgt cactcaatct tcaaggccaa 7141 ctctgaccac aaccactggg tcctcacatg gcacagcctc atcaaattca actcgcagca 7201 cgagcctctc ccaatcaacg gtctctagag ctacatctag gactagtgag tgggttagag 7261 atcaaaatag aaatttggaa ccctacatgc atggtgcctt acagacagcc tttgtcaccc 7321 caccctccag cagggcgtct gatgggacag tctcaaccgt cccaaagggt gttttggact 7381 cctggacacc tgcgttcaac acccacaggc agccgctctt tgcacacctc cgtaagaggg 7441 gggagtcaca agcttagtga aaaggtggaa aatttgttta gaataaattg attttacctt 7501 tt //