Typing tool
|
Complete norovirus genomes
MW661259 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 4..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MW661259 7593 bp RNA linear VRL 28-SEP-2021 DEFINITION Norovirus GII isolate BMH19-092 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MW661259 VERSION MW661259.1 DBLINK BioProject: PRJNA396739 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7593) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Genomic Analysis of Human Noroviruses Using Hybrid Illumina-Nanopore Data JOURNAL Unpublished REFERENCE 2 (bases 1 to 7593) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Direct Submission JOURNAL Submitted (23-FEB-2021) Bureau of Microbial Hazards, Health Canada, 251 SIR FREDERICK BANTING, Ottawa ON, Canada COMMENT ##Assembly-Data-START## Assembly Method :: Medaka v. v1.1.3; Pilon v. v1.23 Sequencing Technology :: Illumina; Nanopore ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7593 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="BMH19-092" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Canada: British Columbia" /collection_date="2019" /note="Viral RNA extracted from fecal samples; genotype: GII.4_Sydney_2012_GII.P16" gene 4..5103 /gene="ORF1" CDS 4..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QSD58396.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARS KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEQEPVVRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLMDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVERVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNEPETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVVTVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALDIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 4..999 /gene="ORF1" /product="p48" mat_peptide 1000..2097 /gene="ORF1" /product="NTPase" mat_peptide 2098..2628 /gene="ORF1" /product="p22" mat_peptide 2629..3027 /gene="ORF1" /product="VPg" mat_peptide 3028..3570 /gene="ORF1" /product="Pro" mat_peptide 3571..5100 /gene="ORF1" /product="RdRp" gene 5084..6706 /gene="ORF2" CDS 5084..6706 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QSD58397.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVVLAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6706..7512 /gene="ORF3" CDS 6706..7512 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QSD58398.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPARGPSIKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgttg cttgcaacaa caacaacgac 61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc 121 ctcggggcta ggtccaaaca gcctgccccg agagacgaac cacaaaagcc accaagacca 181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaacaa 241 gaaccagtcg ttaggtatga ggttaagagt gggatctctg gcctgcccga gctcacaaca 301 gtcccccaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa 361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga cggagagata 421 taccactatg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca 481 gccataagca tggcaagagt ggagctgacg ccgctgtcat tgtactggcg tgtggtgtac 541 actccccaat acctcatctc ccctgaaact ctcaggaggc tcaacggaga ggcgtttcct 601 tacaccgcct tcgacaacaa ctgctacgcc ttttgctgct gggtgttaga cctcaatgac 661 tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag 721 tggaacagaa aaccccttcc taccatggat gactccaaaa taaagaaggt agcaaatata 781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt 841 aaaccattaa atatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg 901 gagtctctga tattacttgc cgaactcttc ggagttttct ggacaccccc agatgtgtct 961 gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga cctcgccgtt 1021 gaactcgtac ctgtggtaat gggagggatt ggcttggtgt tgggattcac caaagagaaa 1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc 1141 tatggcttag agatacttaa attggtcatg aagtggttct tcccaaagaa agaggaggcc 1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa 1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca 1321 ctggacatgg aggaggagaa agccagaagg ttatccacaa aatctgcatc ccctgacata 1381 gttgggacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg 1441 gccaaggaag agctatctag caggatgaga ccagtagtcg ttatgatatc tggcaaacca 1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca 1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa 1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctt 1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat 1741 aagggaaagg tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc 1801 ccacttgatt atgtcaactt tgaggcttgt tccaggagaa ttgacttcct ggtgtacgct 1861 gaggcaccag aagtagaaaa ggcaaaacgg gattttcctg gtcagccaga tatgtggaag 1921 gacgctttca agccggactt ttcacacatc aagcttcagc ttgcacctca gggcggcttt 1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct 2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt 2101 cccacaatca ccacttttaa tttcgaccgg aacagaatca cagcattcag acaattggct 2161 gcagaaaaca agtatggact gatggatacc atgaaagttg gcaatcaact aaaaggagtg 2221 aaaaccatgg aagaactcaa acaagcaatc aggaacgtga ccatcaagag gtgccgaatc 2281 atctacggcg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa 2341 agggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct ccaccatctc 2401 aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata 2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa 2521 ctctggtcga agccacaatt agatcaaaat gaaccagaga ctaaggaaga ggcccccaag 2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaagggc 2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat 2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag 2761 gagtaccttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa 2821 gaagacttct gtgaagagga ggagatcaaa attcgtcaga gaattttccg tcccaccagg 2881 aaacaaagaa aggaagagag ggccacatta gggctggtga caggttcaga aatcagaaaa 2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ctgatgacaa cagaagtgtt 3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc 3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aacccatgtg 3121 atccccgcag gcataacaga agcatttgga gtccccatca aacaaattca gatccacaaa 3181 tcaggtgaat tttgccgatt caggttccca aaaccaatta gaccagatgt gacaggaatg 3241 atcttggaag aaggtgcgcc tgaaggcacc gtggtaactg tgctcatcaa acgccccacc 3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc 3361 cgcatggttg gcggacagat gggtatgttg ctcaccggat caaacgctaa aggaatggat 3421 ttgggaacaa ctcctggtga ctgtggctgc ccttacattt ataaaagggg caatgactat 3481 atagtcatcg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca 3541 cagggaagtg agggtgaggc aactctcgag ggtggagacg acaaaggaac atactgtggg 3601 gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg 3661 tcatcgaaca cgccccttcc accagggaca tatgagcctg cctaccttgg tggccgtgat 3721 ccgcgtgtta agggtgggcc ctccttacag caggtaatga gagaccagtt gaagccattc 3781 actgaaccca ggggcaaacc tccaagacca agtgttttgg aagcagccaa acaaaccatt 3841 atcaatgttc tcgaacaaac cctggaccct ccacaaaaat ggacatacgc acaggcgtgt 3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgcccgaaa gaatgaattc 3961 tggaatggtg agaccttcac tggcaaattg gcagaccaag catcaaaagc aaacctaatg 4021 tttgaggaag ggaaacacat gacaccagtg tacacagcag cactcaagga cgagctagtc 4081 aagactgaga aaatctatgg aaagatcaag aagagactgc tctggggctc tgacttgtcc 4141 accatgatcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa ggcacactgc 4201 atatcactcc cagtgcgagt tggcatgaat atgaatgaag atggcccaat aatatttgaa 4261 aaacattcca gatataaata ccactatgat gcagactact ctcgttggga ttcaacacaa 4321 cagagggcag tactggcagc agccttggac atcatggtta gattctctgc agaaccacaa 4381 ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt 4441 aaaatcacaa taaatgaggg gctcccatct ggtgtgccat gcacttctca atggaactcc 4501 atcgcacact ggctgctaac cctctgtgcc ttgtctgaag tcaccaaact gtcccctgac 4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac 4621 ataaaattgg accccgaaca gttaaccgcc aaattgaagg agtacggcct gaagccaacc 4681 cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg actcactttc 4741 ctccgaagga cggtgactcg tgatccagct ggctggtttg gaaaactgga ccaaagttca 4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg 4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac 4921 ggaccctctt tctacagtag aatcagcaaa ttggtcataa ctgaactcaa agaaggtggg 4981 atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg 5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag 5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt 5161 tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg agtttacagt 5281 atcccctaga aacgctccag gcgaaatact atggagcgcg cccctaggcc ctgacctgaa 5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtagttctc gcggggaacg cgttcaccgc cgggaagatt atatttgcag cagtcccacc 5461 aaattttcca accgaaggct taagtcctag ccaggtcact atgttccccc atataatagt 5521 agatgttaga caattagaac ctgtgctaat tcccttaccc gatgttagga ataatttcta 5581 tcattacaat cagtcaaatg actccactat taagttgata gcaatgttgt atacaccact 5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc 5701 atcccccgat tttgatttca tatttttagt gccacccaca gttgagtcaa gaactaaacc 5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccatcccttt 5821 ggaaaagttg ttcacaggcc ccagcagtgc ctttgttgtt caaccacaaa acggcagatg 5881 cacaactgat ggcgtgctcc taggcactac ccaactttct cctgtcaaca tctgcacctt 5941 cagaggggat gtcacccaca tcacaggtag tcgcaactat acaatgaatt tggcttctca 6001 aaattggaac aactatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt 6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt caacacgcgg 6121 ccacaaagcc acagtgtata ctgggagcgc cgactttgct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccggt 6241 cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcacaatgt acatttggcc cccgctgtag cccccacctt 6361 tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgc aagcttcaca aatcaggcta tgttacagtg gctcatactg gccaacatga 6601 tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccaattta gcagcaattt gcaacaggct tctttccaac atgataaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcctagagg gtggtttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc cagatgctag gattacaaca 7081 tacaatgcag gccacttttc cacccctcaa ccatcgaggg cactgccagg aagagctaat 7141 cttagggatg ctgtccctgc tcggggaccc tccatcaaat cttccaactc ttctactgct 7201 acctctgtgt actcaaatca aactatttca acgagacttg gttctacagc tggttctgga 7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaaat 7321 aggaatttgt cacctttcat gaggggggcc cacaacatat catttgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg 7441 actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag 7501 tcacgggtat aatgtgaaaa gacaaaattg attattttct ttttcctttt ctttagtgtc 7561 ttttaaaaaa aaaaaaaaaa aaaaaaaaaa aaa //