Typing tool
|
Complete norovirus genomes
MW305607 | GII.17 | ||
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GII.P31 |
ORF1: 1..5069 ORF2: 5050..6672 ORF3: 6672..7451LOCUS MW305607 7507 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate Arg4446 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305607 VERSION MW305607.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7507) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7507) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7507 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Arg4446" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Argentina" /collection_date="2005" /note="genotype: GII.17[GII.P31]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59157.1" /translation="AAANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEIPPR PPRPPTPELVKNIPPPPPNGEDELVVSYSAKGGVSGLPELTTVRQPEENNTAFSVPPL NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVEKGLILGVHKPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA TCDWTFAGIVESLILMAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIAASLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDVEKAKRDFPGQPDM WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY ELQGPPLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLKQALKNVS IKKCQIVYNGSTYTLEADGKGNVKVDKVQSATVQTNNELTGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTARITKRMNIQNLWSKPQVEDTEETANKEGCPKPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIRDERNGKYSIEEYLQDR EKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGTPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT GELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLE AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGDSFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKFHYDADYSRWDSTQQRDVLAAA LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP HSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDHNLAPSFVNEDGVE" 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..6672 /gene="ORF2" CDS 5050..6672 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59158.1" /translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNQPANRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTISELTNSRFPVPVDSLFTAQNNNLNVQCQNGRCTLDGELQGTT QLQPSGICAFRGKITADVHQSHDDRWHMQLTNLNGTPFDPTEDVPAPLGTPDFTGLLY GVASQRNVQPNPNTTRAHEAVISTTSSQFVPKLGSINFGSTSEDFVVGQPTKFTPVGI KIETGHDFDQWTLPRYSGHLTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGVSDGIID CLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHSGDYPLV VPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6672..7451 /gene="ORF3" CDS 6672..7451 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59159.1" /translation="MAGAFIAGLAGDTLTNTVGSLVNAGANAITQKVDFENNKQLQSA SFQHDKDMLQAQVAATKQLQAEMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG TRYWAPNSTRTTGYSGQFTSTPVHMPTKITQPAPAKRTQPPSSSSGSIYSLSTQSTVL TKPSSGSSSVSSAFTQSTQLSSIPSMDRTANWVNQQRSLSPYMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 ccgctgctgc caacagcaac aacgacatcg caaaatcttc aagtgacgga gtgttttcca 61 acatggctgt cactttcaaa cgagccctcg gggcgcggcc caaacagccg cccccgaagg 121 aaataccacc cagaccccca cgaccaccca caccagaact ggtcaaaaat atccctcctc 181 ccccgcccaa cggggaggat gaactagtgg tttcctacag cgccaaaggt ggcgtttccg 241 gcctgcctga acttaccact gtcagacaac cggaagaaaa caacacggcg ttcagtgttc 301 ccccactcaa ccagagggag agtagggacg ccaaggaacc actaactgga acaattattg 361 aaatgtggga tggagaaata taccattacg gtctgtacgt ggaaaaaggt ctcatacttg 421 gtgtgcataa gccacctgca gccatcagcc ttgccaaggt tgagctaaca ccactttctc 481 tgttctggag acctgtgtac accccccagt atctcatctc tccagacact cttaggagac 541 tgcacggaga atcattcccc tacacagcat ttgacaataa ttgctacgcc ttctgttgtt 601 gggtgttgga cctaaacgat tcatggctaa gtaggaggat gatccagaga acaacaggtt 661 tcttcagacc atatcaagac tggaacagga aacccctccc cactatggat gactccaaat 721 taaagaaggt agccaacata ttcttgtgta ctctgtcttc gctattcacc agacccatca 781 aggacataat agggaagcta aaacctctta acatcctcaa tattttggcc acatgtgatt 841 ggaccttcgc aggcatagtg gaatccctaa tactcatggc agaactcttt ggagttttct 901 ggacaccccc agatgtgtct gcgatgatcg cccccttact aggtgattac gagctgcaag 961 gacctgagga cctcgcagta gaactcgtcc cagtagtgat gggggggata ggtttggtgc 1021 taggattcac caaagagaaa attgggaaga tgttgtcatc cgctgcatcc actttgagag 1081 cttgtaaaga ccttggtgca tacggactgg aaattttaaa attggtcatg aaatggttct 1141 tcccaaagaa agaggaagca aatgagttgg ccatggtgag agccatcgag gatgcggtgc 1201 tggacctcga ggcaattgaa aacaaccaca tgaccaccct gcttaaagat aaagacagct 1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccagaaaa ctctcaacca 1321 aatctgcttc acccgatatt gtgggcacaa tcaatgctct tctggcaagg atcgctgctg 1381 cacgctccct agtgcatcgg gcgaaagaag agctctccag caggccaaga cctgttgttg 1441 tgatgatatc gggaaaacca ggaataggga aaactcacct tgccagggaa ctggctaaga 1501 agatcgcggc ttccctcaca ggggaccaac gtgtgggtct cataccgcgc aatggtgttg 1561 accattggga cgcatacaag ggagaaaggg tggtcctatg ggatgactac ggaatgagca 1621 accccatcca tgacgccctc aggttgcagg agcttgctga cacttgtccc ctcacgctga 1681 actgtgacag gattgagaac aaaggaaaag tttttgacag tgatgctata attatcacca 1741 ccaatctggc caacccagca ccactagatt atgtcaactt tgaagcgtgt tcgaggcgca 1801 ttgacttcct cgtgtacgca gatgctcctg atgtagagaa ggcaaaacgc gacttcccag 1861 gccagcccga catgtggaag aacgctttca gtcccgactt ctcacacata aaactgtcac 1921 tggccccaca gggtggcttc gataagaacg gaaacacccc acatgggaaa ggcgtcatga 1981 aaaccctcac cactggctcc ctcatcgccc gagcatcagg gttgctccat gagaggctag 2041 atgaatatga gttacagggc ccgcctctca ccactttcaa ctttgaccgc aataaggtcc 2101 ttgctttcag acagcttgct gctgaaaaca agtatgggtt gatggacaca atgagagttg 2161 gaaaacagct caaggatgtc aagaccatgc cagacctcaa gcaagctctc aaaaatgtct 2221 cgatcaagaa gtgtcaaata gtgtacaatg gtagcaccta cacacttgag gccgatggca 2281 agggtaatgt gaaggttgac aaagtacaaa gtgccaccgt gcaaaccaac aatgaactaa 2341 ctggtgccct acaccatcta aggtgcgcca gaattaggta ctatgtcaag tgtgtccagg 2401 aggcactgta ttccatcatc caaattgctg gggctgcgtt cgtcaccgcg cgcatcacta 2461 agcgcatgaa tatacagaat ctctggtcca agccacaggt agaagacaca gaggagacgg 2521 ccaacaaaga aggttgccca aaacccaaag atgatgaaga gtttgtcatt tcatccgacg 2581 atataaaaac tgagggtaag aaagggaaga acaagactgg ccgtggtaag aagcacacag 2641 ccttttcaag taaagggctc agtgatgagg agtacgatga gtacaaaagg atcagagatg 2701 aaaggaatgg taagtattcc atagaagagt accttcagga cagagaaaag tactatgagg 2761 aggtggccat tgccagggca accgaagagg acttctgtga agaagaagaa gccaaaatcc 2821 ggcagaggat tttcaggcca acaaggaaac aacgcaaaga agagagggcc tctcttggtt 2881 tagtcacagg atctgagatc aggaaaagaa acccagaaga cttcaaaccc aagggaaaac 2941 tgtgggctga tgatgacaga agtgttgact acaatgagaa acttaatttt gaagctccac 3001 caagcatctg gtcgcggata gtcaattttg gctcgggttg gggtttttgg gtttccccca 3061 gcctgttcat aacatcaact catgtcatac cccaaggtgc aaaagagttc ttcggaaccc 3121 ccatcaaaca aattcagata cacaaatcag gcgaattctg ccgattgagg ttcccaaaac 3181 caatcaggac tgatgtgacg ggcatgatcc tagaagaggg tgcacccgaa gggaccgtgg 3241 tcacactact aatcaagagg ccaactggag aactcatgcc tctggcagct agaatgggga 3301 cccatgcaac catgaggatt caagggcgca cagttggggg gcaaatgggc atgcttctga 3361 cagggtccaa cgccaaaagt atggacctag gcacaacacc gggtgactgt ggctgtccct 3421 acatctacaa aaggggaaat gactacgtgg tcattggagt ccatacggct gctgcccgtg 3481 gaggaaacac tgtcatatgt gccacccagg ggagtgaggg agaagccaca cttgaaggtg 3541 gtgacaacaa gggaacctac tgtggtgcgc caatcttggg tccaggaagt gccccaaaac 3601 tcagtaccaa gaccaagttt tggagatcat ccacaacacc actcccacct ggcacctatg 3661 aaccagccta cctcggtggt aaggacccca gagtcaaagg tggcccttca ttgcaacaag 3721 ttatgaggga ccagctaaaa ccatttacag aacccagggg caagccgcca agaccaagtg 3781 tgttggaagc tgccaagaag accatcatca atgttcttga gcaaacaatt gacccacccc 3841 agaaatggtc attcgcacag gcttgcgcgt cccttgacaa gaccacctcc agtggccacc 3901 cgcaccacat gcggaaaaac gactgctgga acggggactc ctttacaggc aaattggcag 3961 atcaggcttc caaggccaac ctgatgtttg aagaggggaa gaacatgacc ccagtctaca 4021 caggtgcact taaggatgaa ttggtcaaaa ctgataaaat ttatggcaag atcaagaaga 4081 ggctcctgtg gggctcagac ctggcgacca tgatccggtg cgctcgagcc tttggaggcc 4141 ttatggatga acttaaggca cactgtgtta cgcttcctgt tagagttggt atgaacatga 4201 atgaggatgg ccctatcatc tttgagaagc actccagata taaatttcac tatgatgctg 4261 attattcccg gtgggactca acacaacaaa gagatgtgct agcggcagcc ctagaaatca 4321 tggtcaaatt ctctccagaa ccacacctgg cccaggtagt tgcagaagac ctcctctccc 4381 ccagtgtaat ggatgtgggt gattttcaaa tctcaataag tgaggggctc ccctccgggg 4441 tgccttgcac ctcccaatgg aattccattg cccattggct cctcactctt tgcgcactct 4501 ctgaagtcac ggacctgtcc cctgacatca ttcaggccaa ttcccttttc tccttttatg 4561 gtgatgatga gattgtgagc acagacataa agttggaccc agagaaactg acagcaaaac 4621 tcaaagagta cgggctgaaa ccaacccgcc ccgacaaaac tgaaggaccc cttgttatct 4681 ctgaagatct ggatggcctg acattcttac ggagaactgt gacccgtgac ccagctggct 4741 ggtttggaaa actggagcag agctcaattc tcaggcaaat gtactggacc aggggcccca 4801 accatgaaga tccatctgaa acaatgatac cacactccca aagacccata caactgatgt 4861 ccttgctggg cgaggctgca ctccacggcc cggcgtttta tagcaaagtt agcaagttag 4921 tcattgcaga gctgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt 4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcacaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccgctccat ctaatgatgg tgctacgggc 5101 ctcgtcccag agatcaacaa cgagaccctt cctctggaac cagtggcggg tgcagctatt 5161 gccgcgcctg ttactggcca aaataatata attgatccct ggattagaac aaattttgta 5221 caagcaccca atggggagtt tacagtctca cccagaaact ctcctggaga aattctctta 5281 aatctggaat tgggtcctga tttgaatccg tatttggcac atctatctag aatgtataat 5341 gggtatgctg gtggcgtaga agttcaagtc ctcctagcag ggaatgcgtt cactgcagga 5401 aagattctct tcgctgccgt tccaccaaat ttcccagttg aattcttgag tcctgcacaa 5461 atcaccatgt tgccacattt aatagttgat gttagaaccc ttgaacctat catgatacca 5521 ctcccagatg tcaggaacac cttcttccat tacaacaatc aacctgccaa tcgcatgcga 5581 ttggtggcca tgctgtatac ccccttgaga tctaatggtt ctggtgatga tgtcttcaca 5641 gtgtcatgta gagtgctaac taggcccacc ccagattttg agtttacata tttggtcccc 5701 ccttcggtag agtccaagac caagcccttt tctctgccca tattgaccat ttctgaattg 5761 accaactcaa gattccctgt accggtggat tcattgttca cagcccaaaa caacaatctc 5821 aatgtccagt gtcaaaatgg tcgttgcaca ctggatggtg agttgcaggg aaccactcag 5881 ttacaaccat caggcatctg cgcctttaga ggcaaaataa cggcagatgt gcaccagagc 5941 cacgatgaca gatggcacat gcaactgaca aatctcaatg gaaccccctt cgatccaaca 6001 gaggatgtgc cagctccact gggcactcca gacttcacag gccttctcta cggagttgcg 6061 agccaaagga atgttcaacc caacccaaac accaccaggg cacatgaagc tgtgatctcc 6121 acaaccagtt cgcagttcgt gccaaagtta gggtcaatca actttggtag cacaagtgaa 6181 gacttcgtcg tgggccaacc caccaaattc acaccagttg gtattaagat tgagactgga 6241 catgatttcg atcaatggac cctacctaga tattcaggcc atttgacact caatatgaac 6301 cttgccccac ccgttgctcc aaatttccct ggtgaacagt tacttttctt cagatcaaac 6361 gtcccctgtg ccggtggcgt cagtgatggc atcatcgact gcctgttgcc tcaggagtgg 6421 atacagcact tctaccagga gtctgctccc tcccaatctg atgtggccct gatcagatat 6481 gtcaaccctg acacgggtcg cacactcttt gaggcgaaac tccacagaac gggctacatc 6541 actgttgctc attcaggtga ctatcccctt gttgtcccct ccaatggata tttcagattt 6601 gattcttggg tgaaccagtt ttactcactc gcccccatgg gaactgggaa tgggcgcagg 6661 cgggtgcagt aatggcagga gctttcatag caggtctagc aggtgacacg ctcaccaaca 6721 cagttggttc actggtgaac gccggggcca atgctatcac ccaaaaggtg gactttgaaa 6781 ataacaaaca gctccaatct gcctccttcc aacatgacaa agacatgctc caagcacaag 6841 tggctgccac caagcagtta caggctgaaa tgatcgccat caagcagggg atattgaccg 6901 caggcggctt ttcccccact gacgcggcga gaggagcagt gggtgcaccc atgaccaaag 6961 tccttgattg gtccggtact cgttactggg ctccaaattc cacgcggaca actggctatt 7021 cagggcagtt cacatcaaca cccgtgcata tgcccacaaa gataactcag cctgctcctg 7081 caaaaaggac tcaaccccct tcttcctctt caggtagcat ttatagtctt tcaacacaga 7141 gtactgtttt gaccaagcct tcttcaggct cctcttctgt ttcttctgct tttacacaat 7201 ctacacaatt gagttcaatt ccttcaatgg atagaacagc aaattgggta aatcagcaaa 7261 gaagcctcag cccctacatg agtggtgcac ttaacatatc tcatgtaaca cctccatcga 7321 gcagggcttc gagttcagga acagtctcaa ctgtacccaa agaagttttg gactcctgga 7381 catctgcatt caacacacac agacagccgc tcttcgcaca cctcagagtg aggggggagt 7441 cacgtgttta gtgaaaagaa ccaattaatt ttaattagtt gtgattgaat tcaaaattgg 7501 atctttt //