Typing tool
|
Complete norovirus genomes
MW305711 | GII.21 | ||
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GII.P21 |
ORF1: 1..5069 ORF2: 5050..6672 ORF3: 6672..7430LOCUS MW305711 7459 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate CMH-N117-14 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305711 VERSION MW305711.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7459) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7459) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7459 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="CMH-N117-14" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Thailand" /collection_date="22-Dec-2014" /note="genotype: GII.21[GII.P21]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59469.1" /translation="AAANSNNDNAKSSSDGVLSNMAVTFKRALGARSKQPPPRDKPPK PPRPPTPELVKQIPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQPEESSTAFSVPPL SQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELSPLSL YWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTT GFFRPYQDWNRKPLPTMDDSKVKKVANVLLCALSSLFTRPIKDIIGKLKPLNILNILA TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDEINELAMV RSIEDAVLDLEAIENNHMTALLKDKDSLAAYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIASSLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDM WKDTFKPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEY ELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTMTELKQALKNIT VKKCQLVYGGSTYTLESDGKGNVCVEKVKNTIVQTNNELSGVLHHLRCARIRYYVKCV QEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQVEDLEETSNREGCPKPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNEKLDFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP KGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDNKGTYCGAPILGPGNAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVGGGPSLQQVMREQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPQRWTYAQACASLDKTTSSGHPHHMRKNECWNGEAFTGKLAD QASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTVKLKEYGLKPTRPDK TEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPSETMIP HSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDL 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..6672 /gene="ORF2" CDS 5050..6672 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59470.1" /translation="MKMASNDAAPSNDGAAGLVPEINTETLPLEPVAGAAIAAPVTGQ NNIIDPWIRNNFVQAPNGEFTVSPRNSPGEILMNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVDMLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNVFYHFNNQPAPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFTLPILTIGELTNSRFPAPIDQLYTSPNADVVVQPQNGRCTLDGELQGTT QLLTTAICSYRGTTSNPTSDYWDDHLLHLVHPNGATYDPTEDVPAPFGTQDFRGILYG VLTQNTQNPRDEVSNSRGIYISSTSDKFTPKLGTIGLHQVQGDTASNQQSKFTPVGIA VNQNTPFKQWELPNYSGALTLNTNLAPAVGPNFPGEQILFFRSNVPSVQGDHPTQEID CLIPQEWVSHFYQESAPSQSDVALVRYVNPDTGRTIFEAKLHRQGFITIAATGSNPVV VPPNGYFRFDSWVNQFYALAPMGTGNGRRRAQ" gene 6672..7430 /gene="ORF3" CDS 6672..7430 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59471.1" /translation="MAGAFIAGLAGDMLTNTVGSLVTAGANAINQKVEYDLTKQLQNA SFQHDKDMLQAQVNATKQLQSDMMAIKAGVLTAGGFSPADAARGAVNAPMTKVLDWSG TRYWAPNSTKTTSQSGQFSSVNVHRPFIQSKTVQPSPPRAPSSSGSVRSLSTQSTMLS NSSSSSLGTPSTQSTNLSSSRTADWVRSQRNLSPYMDGALQTAFITPPSSRASSTGTV STVPRGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 ccgctgctgc caacagcaac aacgacaacg caaaatcttc aagtgacggc gtattatcca 61 atatggctgt cacttttaaa cgagccctcg gggcgcggtc caaacaaccg cccccgaggg 121 acaaaccacc aaaacccccg agaccaccca caccagagtt ggttaaacaa atcccccctc 181 ccccacccaa cggggaggac gagccaacca tttcttacaa cgttaaagag ggtgtttctg 241 gtctgcctga actctcaacg gtcacccaac cggaagagag ctctacggca ttcagcgttc 301 cccctcttag tcagagggag aacagagatg cgaaggaacc cctgactgga accatcctgg 361 agatgtggga cggggagatc taccattatg gcttatatgt ggaacgagga ttagtgctcg 421 gtgtacacaa accaccagca gccatcagcc ttgctaaggt tgaactatcc cccttgtctt 481 tgtactggag acctgtgtac accccacagt acctcatttc ccctgacact ctcaaaaagt 541 tgcatgggga gacgttccct tacacagcct ttgacaacaa ctgttatgcc ttctgctgtt 601 gggttcttga cttgaacgat tcatggctga gcagaaggat ggtacagagg acaacgggct 661 tctttcggcc ttaccaggac tggaacagaa aacccctccc cacaatggac gactccaaag 721 tgaagaaggt ggccaatgtt ctcctctgtg ctctctcatc attgttcact agaccaatta 781 aggacattat tggaaagtta aaacccctaa atatcctcaa catcctagcc acatgtgatt 841 ggacttttgc aggcatagta gaatccctga tcctcttggc tgaactgttt ggagttttct 901 ggacaccccc agatgtgtct gcaatgatcg ctcccttact gggtgattat gagctacagg 961 ggcctgagga cctcgctgtg gaactcgtac ctgtagtaat gggagggata ggtttggtgc 1021 tgggattcac caaagagaaa attggcaaaa tgctttcatc tgctgcttca accctgaggg 1081 cgtgcaaaga tctcggagct tatggactgg agatactcaa attggtcatg aagtggtttt 1141 tcccaaagaa agacgagata aacgaattgg caatggtgag atccatcgag gacgcagtgc 1201 tggacctcga ggccatcgag aacaaccata tgacagctct actcaaggat aaggacagcc 1261 ttgcagccta catgaggact cttgacttgg aggaggagaa ggcgaggaag ttgtccacca 1321 agtctgcatc accggacatc gtgggcacga tcaatgccct actggcaagg attgcagctg 1381 cccggtctct agtacacagg gctaaggaag aactgtctag cagacctcga ccggtcgttg 1441 tgatgatttc agggagacca ggtataggga agacccatct agctagagag ttggcaaaga 1501 agattgcctc ctcactcaca ggtgaccaga gggtgggcct catcccacgc aacggggtcg 1561 accactggga tgcatacaaa ggtgaaagag tcgtcctctg ggacgactac ggaatgagca 1621 accctatcca cgacgccctc agactccagg agcttgctga cacctgcccc ctaacactta 1681 attgtgacag gattgaaaac aaaggtaaag tctttgacag tgacgccata ataataacta 1741 ccaatttggc caacccagcg ccactggatt atgtcaactt tgaagcttgc tcaagacgca 1801 tagacttcct cgtctatgct gatgcccctg aagttgagaa ggctaaacga gacttcccag 1861 gccagccaga catgtggaag gacaccttca aacctgactt ctcacacata aaactgacat 1921 tagccccaca aggaggtttt gacaagaacg gcaatacccc tcatgggaag ggtgttatga 1981 agaccctcac tgctagttcc ctcgttgccc gagcatcagg gctcctccac gagagactag 2041 acgagtatga gctgcaaggc ccaactccca caacattcaa cttcgaccgc aacaaggtgc 2101 ttgcttttag gcaactcgct gctgagaaca agtacggtct cgttgataca atgagggtcg 2161 gatcacaact caagaatgtc aaaaccatga cagaactcaa acaggctctc aagaacatca 2221 cagtcaagaa atgccagctt gtgtatggcg ggagcacata cacacttgaa tctgatggca 2281 aaggcaatgt gtgtgttgag aaggtgaaga acacaattgt gcagactaac aacgagctct 2341 ccggcgttct gcaccatctc aggtgtgcca ggattaggta ctatgttaag tgtgtccagg 2401 aagctctcta ctccatcttg caaattgccg gggctgcatt catcaccacg cgcattgcaa 2461 agcgcatgaa catacaaaac ctatggtcca aaccacaagt ggaagatttg gaggagacta 2521 gcaacaggga gggctgtcca aaacctaaag atgatgagga atttgttatc tcctctgatg 2581 acatcaaaac cgagggcaag aaaggaaaga acaagactgg ccgtggcaag aagcacacag 2641 ccttttccag caaaggtctc agcgatgagg agtacgatga gtacaagaga atcagagaag 2701 agagaaatgg caagtactcc atagaggaat acctacagga cagagacaag tactatgagg 2761 aggtggccat agccagggca actgaggaag atttctgtga agaagaggag gccaaaatcc 2821 ggcaaaggat atttagacca acaagaaagc aacgcaaaga ggaaagggcc tctcttggtt 2881 tggtcacagg ttctgagatt aggaagagaa atccagatga cttcaaacct aaagggaagc 2941 tatgggctga tgatgacagg agtgttgact acaatgagaa acttgacttc gaggctccac 3001 caagcatttg gtcacgaata gttaactttg gttcagggtg gggcttctgg gtctcgccta 3061 gcctcttcat aacatcaacc cacgtcattc ccaaaggtgc acaggagttc tttggagtgc 3121 ctatcaagca aatacaaatt cataaatcag gagagttctg ccggctaaga tttccaaaac 3181 caatcaggac agatgtcacg ggcatgatct tagaggaagg tgctccagaa ggaactgttg 3241 ccacacttct catcaagaga ccaactgggg aactcatgcc cttggcagcc agaatgggta 3301 cccacgcgac catgaaaatc cagggtcgca ctgttggtgg gcagatgggc atgctactca 3361 cggggtctaa cgccaagagt atggacttgg gcacaactcc tggtgactgt ggctgtccct 3421 acatctacaa gagggggaac gactacgtgg tcattggagt ccacaccgcc gctgcccgtg 3481 gaggaaacac tgtcatctgt gcaacccaag gaagtgaggg tgaagccatg ctagagggtg 3541 gcgacaataa gggaacctac tgtggagcac caatattagg ccctggaaat gcccctaaac 3601 tcagtaccaa aaccaaattc tggagatctt ctaccacccc cctgccaccc ggaacctatg 3661 aaccagctta tctgggtggc aaggacccca gagtgggggg tggtccctca ctgcaacagg 3721 ttatgaggga gcaactaaaa ccattcactg agcccagagg caaaccacca aaacctagtg 3781 tgctagaagc tgccaagaag actataatca atgtgcttga acagacaata gacccacctc 3841 aaagatggac atacgcacag gcgtgtgcat cactagataa gaccacttcc agcggccacc 3901 ctcaccacat gcggaagaac gagtgctgga acggagaggc tttcacagga aaattggcag 3961 accaagcatc aaaagctaat ttaatgtatg aggaaggaaa gaacatgacc ccagtataca 4021 caggagctct gaaggacgaa ctagtcaaga ctgataagat ctatgggaag atcaagaaga 4081 gactcctatg gggttcagac ctatcaacca tgatacggtg tgcacgagct ttcggtgggc 4141 tgatggacga gctcaaggcc cattgcgtca cactaccagt tagggttggc atgaacatga 4201 atgaggatgg acccataata tttgagaaac attccagata cagataccat tatgatgcag 4261 attactctcg ctgggactcg acacagcaaa gagcagtgct ggctgcagcc ctggaaataa 4321 tggtcaaatt ttcaccagaa cctcatctgg cccaagtagt tgcagaagac ctcttgtccc 4381 ccagtgtgat ggatgtgggt gatttcaaga tttcaatcaa cgaggggtta ccctctggtg 4441 tgccttgcac ctcacaatgg aactccattg ctcactggct cctcacactg tgtgcactgt 4501 ctgaagttac agatctgtcc cctgacatca tccaggcaaa ctccctattc tccttttatg 4561 gtgatgatga aatagtgagc acagacatca aattggaccc agagaaactg acagtaaagt 4621 tgaaggaata cgggttaaaa ccaacccgtc ctgataaaac agaaggaccc ttaattatct 4681 ctgaagattt ggatggcctg accttcttac ggagaacggt gactcgcgat ccggctgggt 4741 ggtttggcaa actggaccaa agttcaatac tcaggcaaat gtactggacc aggggaccaa 4801 accatgagga cccctctgaa acaatgatac cacactccca gagacccata caactgatgt 4861 cactactagg tgaagctgca ctacatggcc catcattcta tagtaaaatc agcaagttgg 4921 tcatctcaga attgaaagag ggtgggatgg acttttacgt gcccagacaa gaaccaatgt 4981 ttaggtggat gagattctca gatttgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccgctccat ctaatgatgg tgctgcaggt 5101 ctcgtaccag agatcaacac tgagaccttg cccctcgagc ccgtggccgg agcggcaatt 5161 gctgcccctg ttacgggcca aaataatata attgatccct ggattagaaa caattttgtg 5221 caggccccta atggtgagtt tacagtctcc cctagaaatt cccctggtga aattttaatg 5281 aatttggagc tagggccaga tcttaatcca tatttggctc acctttcaag aatgtacaat 5341 ggttatgctg gaggagtgga agtgcaagtg ctcctagctg ggaatgcgtt cacggcagga 5401 aagatccttt ttgcagcagt ccccccaaat ttccccgttg atatgcttag tcctgctcaa 5461 atcacaatgc ttccccattt aattgtagat gtcagaactt tggagcccat tatgatccct 5521 ctgcctgatg ttaggaacgt tttctatcac tttaataacc agcctgcccc aagaatgaga 5581 ttggttgcta tgctctacac tcctttaaga tccaatgggt ccggtgatga tgtattcact 5641 gtctcctgca gggtgctaac cagacctact ccggactttg agtttacata tttagttccc 5701 ccctcggtag agtccaaaac caagcctttc accctaccca tcctaacaat tggagagttg 5761 acaaattcta gattcccagc cccgatcgat cagttgtaca cttcacccaa cgctgatgta 5821 gttgtccaac cccaaaatgg ccggtgcaca ctggacggtg agctacaagg cacaacacaa 5881 cttctgacaa cggcaatatg ttcatacagg ggcacaacat caaaccccac tagtgactac 5941 tgggatgatc acctcctgca cttggtccac cccaatgggg caacatatga cccgaccgag 6001 gacgtgccag ctccttttgg cacgcaggac tttcggggca ttctgtatgg ggtgttgact 6061 caaaacaccc aaaatcccag ggacgaagtc tccaactccc gtgggatcta catctcatcc 6121 actagtgaca agttcactcc aaaattgggt acaattggct tacaccaagt gcaaggcgac 6181 acagccagca accaacaatc aaaattcaca ccagtaggga tagcggtgaa tcaaaacact 6241 cctttcaaac agtgggaact cccaaactac tctggtgccc tcaccctcaa cacaaacctt 6301 gcaccagcgg ttgggcccaa cttccctggg gagcaaatcc ttttcttcag gtcaaacgtc 6361 ccaagtgttc aaggtgacca ccctactcaa gagattgatt gcctgatccc acaagaatgg 6421 gtttcccact tctatcaaga atcagctccc tctcagagtg atgtggcttt ggtcaggtat 6481 gtcaatcctg acacagggcg cacaatcttt gaggccaaac tgcataggca ggggtttatc 6541 accatagcgg ccactggaag caaccccgtg gtcgtgcccc ccaatgggta cttcagattt 6601 gattcctggg tcaaccagtt ttatgcactc gcccccatgg gaactgggaa tgggcgcaga 6661 agagctcaat aatggctgga gcttttatag caggattggc aggtgacatg ctcaccaata 6721 ctgttggttc cctggtaaca gcgggggcta atgctataaa ccaaaaagtt gaatatgacc 6781 tcaccaaaca actgcaaaat gcctccttcc aacatgacaa ggacatgctt caagcccagg 6841 tcaacgcaac aaaacaattg cagagtgaca tgatggccat caaagcaggg gttttgaccg 6901 ctggcggctt ttcccctgct gatgcagcca gaggggcagt caatgctcca atgacaaaag 6961 tcttagactg gtcagggacg cgttactggg cacccaattc aaccaaaaca acaagccaat 7021 ctggtcagtt ctcctctgta aatgtgcata gaccctttat tcaatcaaaa actgtccaac 7081 catctcctcc gcgggcgccc tcatcttcgg gtagcgttcg cagcctttct actcaatcaa 7141 caatgctttc aaattctagc tcttcttcac ttgggactcc ttcaactcag tcaacaaatc 7201 tttcttcttc tcgaacggcg gactgggttc gaagtcagag gaacctgagc ccctacatgg 7261 acggggctct gcagacagcc tttatcaccc caccatcaag cagagcttct tctacaggca 7321 ccgtctcaac agtgcctaga ggggttttgg actcctggac acctgcgttc aacacccgca 7381 ggcagccgct tttcgcacac ctcaggaaga ggggggagtc acaagcctag tgaaaagaat 7441 cattttaata aattctttt //