Typing tool
|
Complete norovirus genomes
MW661260 | GII.4 Sydney | ||
---|---|---|---|
GII.P16 |
ORF1: 4..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MW661260 7599 bp RNA linear VRL 28-SEP-2021 DEFINITION Norovirus GII isolate BMH19-093 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MW661260 VERSION MW661260.1 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 7599) 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Hoover,E. and Weedmark,K. TITLE Genomic Analysis of Human Noroviruses Using Hybrid Illumina-Nanopore Data JOURNAL Unpublished REFERENCE 2 (bases 1 to 7599) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Direct Submission JOURNAL Submitted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..7599 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="BMH19-093" /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="QSD58399.1" /translation="MKMASNDASAAVACNNSNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEQEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLIRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTTTTFNFDRNKITAFRQLAAENKYGLMDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVERVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVTTVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTTKLK 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="QSD58400.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD 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="QSD58401.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRVLPGRANLRDAVPARGPSIKSP NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgttg cttgcaacaa cagcaacgac 61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc 121 ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc accaagacca 181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaacaa 241 gaaccagtca 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 tcaacgggga ggcgttccct 601 tacaccgcct tcgacaacaa ctgttacgcc ttttgctgct gggtgttaga cctcaatgac 661 tcatggctta tcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag 721 tggaacagaa aacccctgcc taccatggat gactccaaaa taaagaaggt agcaaatata 781 ttcctatgtt cattgtccac gttattcacc agacccataa aagacctcat aggaaaaatt 841 aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg 901 gagtctctga tattacttgc cgaactcttt ggagttttct ggacaccccc agatgtgtct 961 gctatgatcg ctcccttact cggagactac gagttgcaag ggccagaaga cctcgccgtt 1021 gaactcgtac ctgtggtaat gggagggatt ggcttggtgt tgggattcac caaagagaaa 1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc 1141 tatggcttgg agatacttaa attggtcatg aagtggttct tcccaaagaa agaggaggcc 1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa 1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca 1321 ctggacttgg aggaggagaa agccagaagg ttgtctacaa aatctgcatc ccctgacata 1381 gttgggacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg 1441 gccaaggaag agctatctag caggataaga ccagtagtcg ttatgatatc tggcaaacca 1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca 1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa 1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgacgctctt 1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat 1741 aagggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc 1801 ccactcgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct 1861 gaggcaccag aggtagaaaa ggcaaaacgg gattttcctg gtcagccaga tatgtggaag 1921 gacgctttca agccggactt ttcacacatc aagctacagc ttgctcctca gggcggcttt 1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct 2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt 2101 cccacaacca ccacttttaa tttcgaccgg aacaaaatca cagcattcag acaattggct 2161 gcagaaaaca agtatggatt gatggatacc atgaaagttg gcaatcaact aaaaggagtg 2221 aaaaccatgg aagaactcaa acaagcaatc aggaacgtaa ccatcaagag gtgccgaatc 2281 atctacggcg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa 2341 agggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct gcaccatctc 2401 aaacacgccc gtatcaggta ctatgttaaa tgtgtgcaag aagcagtcta ttccatcata 2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa 2521 ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga ggcccccaag 2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaaaggc 2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat 2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag 2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacagaa 2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg ccccaccagg 2881 aaacaaagaa aggaagagag ggccacatta gggctggtga caggttcaga aatcagaaaa 2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt 3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc 3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aacccatgta 3121 atccccgcag gcataacaga agcatttgga gtccccatca aacaaatcca gatccacaaa 3181 tcaggtgaat tttgccgatt caggttccca aaaccaatta gaccagatgt gacaggaatg 3241 atcttggaag aaggcgcgcc tgaaggcacc gtgacaactg tgctcatcaa acgccccacc 3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc 3361 cgcatggttg gtggacagat gggtatgttg ctcaccggat caaatgctaa aggaatggac 3421 ttgggaacaa ctcctggtga ctgtggctgc ccttacatct ataaaagggg caatgactat 3481 atagtcattg gggttcacac tgcagcagct cgtggtggaa acaccgtcat ctgtgccaca 3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg 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 gcaaaccatt 3841 atcaatgttc tcgaacaaac cctggaccct ccacaaaagt ggacatacgc acaggcgtgt 3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgcccgaaa gaatgaattc 3961 tggaatggtg agaccttcac tggcaaattg gcagaccaag catcaaaggc 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 aatatttgag 4261 aaacattcca gatacaaata ccactatgat gcagactact ctcgttggga ttcaacacaa 4321 cagagggcag tactagcagc agccttggaa atcatggtca gattctctgc agaaccacaa 4381 ttggcgcaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt 4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttctca atggaactct 4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac 4561 atcatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac 4621 ataaaattgg accctgaaca gttaaccacc aagttgaagg agtacggtct gaagccaacc 4681 cgcccagaca agaccgaggg acccctgatc atcagtgagg atttgaacgg actcactttc 4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagctca 4801 atcttaaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg 4861 ataccccact ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac 4921 ggaccctctt tctacagtag gatcagcaaa ttggtcataa ctgaactcaa agaaggtggg 4981 atggattttt 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 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa 5341 cccctatcta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatt atatttgcag cagtcccacc 5461 aaattttcca actgaaggct taagtcctag ccaggtcact atgttccccc atataatagt 5521 agatgttaga caattagaac ctgtgttaat tcccttaccc gatgttagga ataatttcta 5581 tcattacaat cagtcaaatg actccactat taagttgata gcaatgttgt acacaccact 5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc 5701 atcccccgat tttgatttca tatttttagt gccacccaca gttgagtcaa gaactaaacc 5761 attctctgtc ccggttttaa ctgttgagga gatgaccaat tcaagattcc ccatcccttt 5821 ggaaaagttg ttcacaggcc ccagcagtgc ctttgttgtc caaccacaaa acggtagatg 5881 cacaactgat ggcgtgctct taggcaccac 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 ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccagt 6241 cggtgtcatc caagatggta gcaccaccca tcgaaacgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcacaatgt acatttggcc cccgctgtag cccccacctt 6361 tccgggtgaa caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctgc tcccccagga gtgggtgcag tacttctacc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgc aaacttcaca aatcaggcta tgttacagtg gctcatactg gccaacatga 6601 tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc tggagctttc 6721 tttgctggat tggcatccga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccaattta gcagcaattt gcaacaggct tcttttcaac atgataaaga gatgctccag 6901 gcacaaattg aggccaccaa aaagttacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc cagatgctag gattacaaca 7081 tacaatgcag gccacttttc cacccctcaa ccatcgaggg tactgccagg aagagctaat 7141 cttagggatg ctgtccctgc tcggggaccc tccattaaat ctcctaactc 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 tcacgggtgt aatgtgaaaa gacaaaactg attattttct ttttcttttc tttagtgtct 7561 tttaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaa //