Typing tool
|
Complete norovirus genomes
MW305586 | GII.4 Farmington Hills | ||
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GII.P4 US95 |
ORF1: 1..5069 ORF2: 5050..6669 ORF3: 6669..7454LOCUS MW305586 7500 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate 57 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305586 VERSION MW305586.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7500) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7500) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7500 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="57" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Japan" /collection_date="28-Oct-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="QPJ59094.1" /translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR PPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPEEANTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLKKLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEETNELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD QRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALKNIS IKKCQIVYSGCTYTLESDGKGNVKVDRVQSASVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEGTGEVINKDGCPRPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT 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="QPJ59095.1" /translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT QLSAVNICTFRGDVTHIAGSHDYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML SQTTRGDGSTRAHKATVSTGSVHFTPKLGSVQYTTDTNNDFETGQNTKFTPVGVIQDG NNHQNEPQQWALPNYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC LLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGPHDLVI PPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6669..7454 /gene="ORF3" CDS 6669..7454 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59096.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATQKLQQGMMKVRQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNLRATGTPSSTSTATS VYSNQTVSTRLGSSAGSGTSVSSLPSTARTRSWVGDQNRNLSPFMRGALNTSFVTPPS SRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ccgctgttgc caacagcaac aacgacaccg caaaatcttc aagtgacgga gtgctttcta 61 gcatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg 121 aaataccaca aagaccccca cgaccaccta ccccagaact ggtcaaaaag atcccccctc 181 ccccgcccaa cggggaggat gaaatagtgg tttcttatag tgtcaaagat ggcgtttccg 241 gtctgcctga gctttccacc gtcaggcaac cggaagaagc caatacggcc ttcagtgttc 301 ccccactcaa ccagagggag aatagggatg ctaaggagcc actaactgga acaattctag 361 aaatgtggga tggagagatc taccattacg gcctatatgt ggagcgaggt cttatacttg 421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgagctaaca 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 taaagaaggt ggctaacata ttcctgtgtg ctctatcttc actattcacc aggcccataa 781 aagacataat agggaagcta aggcctctta acatcctcaa catcttggcc tcatgtgatt 841 ggactttcgc aggcatagtg gaatccttga tactcttggc agagctcttt ggagttttct 901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgattac gagttacaag 961 gacctgagga ccttgcagtg gaactcgttc ctgtagtgat ggggggaatt ggtctggtgc 1021 taggatttac caaagagaag attggaaaaa tgttgtcatc tgctgcatcc accttaagag 1081 cttgtaaaga tcttggtgca tacgggctgg aaatcctaaa gttagtcatg aagtggttct 1141 tcccaaagaa agaggaaaca aatgaactgg ctatggtgag atccatcgag gatgcagtgc 1201 tggacctcga ggcaattgaa aacaaccata tgaccacctt gctcaaagac aaagacagcc 1261 tggcaaccta catgaaaacc cttgaccttg aggaggagaa agccaggaag ctctcaacca 1321 agtccgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgctgctg 1381 cacgttccct ggtgcatcga gcgaaggagg agctttccag cagaccaaga cctgttgtct 1441 tgatgatatc aggcagacca ggaataggga agacccacct tgctagggaa gtggccaaga 1501 gaatcgcagc ctccctcaca ggagaccagc gcgtaggcct cgtcccacgc aatggcgtcg 1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat gggatgagca 1621 atcccatcca cgacgccctc aggttgcaag aactcgctga cacttgcccc ctcactctaa 1681 actgtgacag gattgagaac aaaggaaagg tctttgacag tgatgtcata attatcacca 1741 ctaacctggc caatccagca ccactggact atgtcaactt tgaagcatgc tcgaggcgca 1801 tcgatttcct cgtgtatgca gaagcccctg aagtcgaaaa ggcgaaacgt gacttcccag 1861 gccaacctga catgtggaag aacgccttca gttctgattt ctcacacata aaactaacac 1921 tggctccaca gggtggcttc gataagaacg ggaacacccc acacgggaag ggcgtcatga 1981 agactctcac cactggctcc cttattgccc gggcatcagg gctactccat gagaggctag 2041 atgagtttga actacagggc ccagctctca ccaccttcaa ctttgatcgc aacaaagtgc 2101 ttgcctttag gcagcttgct gctgaaaaca aatacgggtt gatggacaca atgaaagttg 2161 gaagacagct taaggatgtc agaaccatgc cagagcttaa acaagcactc aagaatatct 2221 caatcaagaa gtgccagata gtgtacagtg gttgcaccta tacacttgag tctgatggca 2281 agggcaatgt gaaagttgac agagttcaga gtgcctccgt gcagaccaac aacgagctgg 2341 ccggcgccct gcaccatcta aggtgcgcca gaatcaggta ctatgtcaag tgtgtccagg 2401 aggccctgta ttccatcatc caaattgctg gagctgcatt tgtcaccacg cgcatcgtca 2461 agcgcatgaa catacaagac ctctggtcca agccacaagt ggaaggcaca ggggaggtta 2521 tcaacaagga cgggtgccca agacccaaag atgatgagga gttcgtcatt tcatccgatg 2581 acatcaaaac tgagggcaag aaagggaaga acaagactgg ccgcggcaag aagcacacag 2641 ccttctcaag caaaggtctc agtgatgaag agtacgacga gtacaagagg atcagagaag 2701 aaagaaatgg caagtactcc atagaagagt accttcagga cagggacaaa tactatgagg 2761 aggtggccat tgccagggcg accgaggaag atttctgtga agaggaggag gccaagattc 2821 ggcaaaggat tttcagacca acaaggaaac aacgcaagga ggaaagggcc tctctcggtt 2881 tagtcacagg ttctgaaatc aggaaaagga acccagatga tttcaagccc aaggggaaac 2941 tgtgggctga tgatgacagg agtgtggact acaatgagaa actcagtttt gaggccccac 3001 caagcatctg gtcgaggata gtcaattttg gttcaggttg gggcttttgg gtctctccca 3061 gtctgttcat aacatcaact catgtcatac cccagggcgc aaaggagttc tttggagtcc 3121 ccatcaagca aattcagata cacaaatcag gcgaattctg ccgcttgagg ttcccaaagc 3181 caatcaggac tgatgtgacg ggtatgatcc tagaagaagg tgcgcccgaa ggcaccgtgg 3241 tcacactact catcaagagg cctactggag aacttatgcc cctagcagct agaatgggga 3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcagatgggc atgcttctga 3361 caggatccaa cgccaaaagc atggacctag gcaccacacc aggtgactgc ggctgcccct 3421 acatctacaa gagggaaaat gactatgtgg ttattggagt ccacacggct gccgctcgtg 3481 ggggaaacac tgtcatatgt gccacccagg ggagtgaggg ggaggccaca cttgaaggtg 3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccaggaagt gccccaaaac 3601 tcagcaccaa gaccaaattc tggagatcgt ccacaacacc actcccacct ggcacctatg 3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccttca ttgcaacaag 3721 ttatgaggga tcagctgaaa ccatttacag agcctagggg caaaccacca aaaccaagtg 3781 tgttggaagc tgccaagaaa accatcatca atgtccttga acaaacaatt gatccacctg 3841 agaaatggtc attcacgcaa gcttgcgcgt ccctcgacaa gactacttcc agtggccatc 3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc cttcacaggc aagctggcag 3961 accaggcttc caaggccaac ctgatgttcg aagaggggaa gaacatgacc ccagtctaca 4021 caggcgcgct caaggatgag ttagttaaaa ctgacaaaat ttatggtaag atcaagaaga 4081 ggcttctctg gggctcggac ttagcgacca tgatccggtg cgctcgagca ttcggaggct 4141 taatggacga actcaaagca cactgtgtta cacttcctat cagagttggt atgaatatga 4201 atgaagatgg ccccatcatc ttcgagaggc attccaggta caaatatcac tatgatgctg 4261 attactctcg gtgggattca acacaacaga gagccgtgtt ggcagcagcc ctagaaatca 4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtagt cgcagaagac cttctttctc 4381 ctagcgtggt ggatgtgggt gacttcaaaa tatcaatcaa tgagggtctc ccctctggag 4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcgctct 4501 ctgaagttac aaacttgtcc cctgatatca tacaggctaa ttccctcttc tccttttatg 4561 gtgatgatga aattgttagc acagatataa agttggaccc ggagaaattg acagcaaaac 4621 tcaaggaata cgggttgaaa ccaacccgcc ctgacaagac tgaagggccc cttgttattt 4681 ctgaagactt aaatggtctg acattcctgc ggagaactgt gacccgcgac ccagctggtt 4741 ggtttggaaa attggagcag agctcaatac tcagacaaat gtactggact aggggcccca 4801 accatgaaga cccatctgaa acaatgattc cacattccca aagacccata caattgatgt 4861 ccctactggg agaggccgca ctccacggcc cagcattcta cagcaaaatt agcaagttag 4921 ttattgcaga gctaaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccaatgt 4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cacagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgctatc 5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaag taattttgta 5221 caagcccctg gtggagagtt tacagtatcc cctagaaacg ctccaggtga gatactatgg 5281 agcgcgccct tgggccctga tttgaatccc 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 tttctatcat tataatcaat caaatgattc taccattaaa 5581 ttgatagcaa tgctgtatac accacttagg gctaacaatg ctggggatga tgtcttcaca 5641 gtctcttgtc gagtcctcac gaggccatcc cccgattttg atttcatatt cttggtgcca 5701 cccacagttg aatcaagaac taaaccattc accgtcccaa tcttaactgt tgaggaaatg 5761 tccaattcaa gattccccat tcctttggaa aagttgtaca cgggtcccag cagtgctttt 5821 gttgtccaac cacaaaatgg caggtgcacg actgatggcg tgctcttagg cactacccag 5881 ctgtctgctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggcagccat 5941 gattatacaa tgaatttggc ttctcaaaat tggaacaatt atgacccaac agaagaaatc 6001 ccagcccctc tgggaactcc agacttcgtg ggaaagatcc aaggcatgct ttcccaaacc 6061 acaagagggg atggctcgac ccgcgcccac aaagctacag tgagcactgg gagtgtccac 6121 ttcactccaa agctgggcag tgttcaatac accactgaca caaacaatga ttttgaaact 6181 ggccaaaaca cgaaattcac cccagtcggc gtcatccagg acggtaacaa ccatcaaaat 6241 gaaccccaac aatgggcgct cccaaattac tcaggtagaa ctggtcataa tgtgcaccta 6301 gcccctgccg ttgcccccac ttttccgggt gagcaacttc ttttctttag atccactatg 6361 cccggatgta gcgggtatcc caacatgaat ctggattgcc tactccccca ggaatgggtg 6421 cagcacttct accaagaagc agctccagca caatctgatg tggctctgct gagatttgtg 6481 aatccagaca caggtagggt cctgtttgag tgcaagctcc ataaatcggg ctatgtcaca 6541 gtggctcaca ctggcccgca tgatttggtt atccccccca atggttactt tagatttgat 6601 tcctgggtca accagttcta cacacttgcc cccatgggaa atggagcggg gcgtagacgt 6661 gcattataat ggctggagct ttctttgctg gattggcgtc tgatgtcctt ggctctggac 6721 ttggttccct aatcaatgct ggggctgggg ccatcaacca aaaagttgaa tttgaaaata 6781 atagaaaatt gcaacaagct tccttccaat ttagtagcaa tctacaacag gcttccttcc 6841 aacatgataa agagatgctc caagcgcaaa ttgaggccac tcaaaaattg caacagggta 6901 tgatgaaggt tagacaggca atgctcctag agggtggatt ctctgaaaca gatgcagccc 6961 gtggggcaat caacgccccc atgacaaagg ctctggactg gagcggaaca agatactggg 7021 cccctgatgc caggaccaca acatacaatg caggccgctt ttccacccct caaccttcgg 7081 gggcactgcc aggaagaact aatcttaggg ctactggtac accttctagt acttccactg 7141 ctacttctgt gtactcaaat caaactgttt caacgagact tggttcttca gctggttctg 7201 gtaccagtgt ctcgagtctc ccgtcaactg caaggactag gagctgggtt ggggatcaaa 7261 acagaaattt atcacctttt atgagggggg ctctcaacac atcattcgtc accccaccat 7321 ctagtagatc ctctagccaa ggcacagtct caaccgtgcc taaagaaatt ttggactcct 7381 ggactggcgc tttcaacacg cgcaggcagc ctctcttcgc tcacatccgt aagcgagggg 7441 agtcacgggt gtaatgtgaa aagacaaaat tgattatctt tcccttcttt agtgtctttt //