Typing tool
|
Complete norovirus genomes
MW661254 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 4..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MW661254 7591 bp RNA linear VRL 28-SEP-2021 DEFINITION Norovirus GII isolate BMH16-074 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MW661254 VERSION MW661254.1 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 7591) 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Hoover,E. and Weedmark,K. TITLE Genomic Analysis of Human Noroviruses Using Hybrid Illumina-Nanopore Data JOURNAL Unpublished REFERENCE 2 (bases 1 to 7591) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Direct Submission JOURNAL Submitted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..7591 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="BMH16-074" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Canada: Ottawa" /collection_date="2016-02-17" /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="QSD58381.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSFTLKKALGARP KQPAPRGEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDVFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIVRRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE 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="QSD58382.1" /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="QSD58383.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPPGALPGRANLRDAVPTRGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgttg cttgcaacaa caacaacgac 61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt ctttcacctt aaagaaagcc 121 ctcggggcta ggcccaaaca gcctgccccg agaggcgaac cacaaaagcc cccaagacca 181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaagaa 241 gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga gctcacaaca 301 gtcccccaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa 361 aacagggagg ccaaggaacc gttaacaggg gcaatattag agatgtggga tggagagata 421 taccactatg gcctgtacgt ggagaaaggc ttagtgttgg gtgtacacaa accacctgca 481 gccataagca tggcaagagt ggagctgacg ccgctgtcat tgtactggcg tgtggtgtac 541 actccccaat acctcatctc ccctgaaact ctcaggaggc tcaacggaga ggcgttccct 601 tacaccgcct ttgacaacaa ctgctatgcc ttttgctgct gggtgttaga cctcaatgac 661 tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcaggcc ttaccaagag 721 tggaacagaa aacccctgcc taccatggac gactccaaaa ttaagaaggt agcaaatata 781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt 841 aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg 901 gagtctctga tattacttgc tgaactcttc ggagttttct ggacaccccc agatgtgtct 961 gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga cctcgccgtt 1021 gaactcgtac ctgtggtaat gggagggatt ggtttggtgt tgggattcac caaagagaaa 1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc 1141 tatggcttag agatactcaa attggtcatg aagtggttct tcccaaagaa agaggaggcc 1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa 1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca 1321 ctggacatgg aggaggagaa agccagaagg ttgtccacaa aatctgcatc ccctgacata 1381 gttggaacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg 1441 gccaaggaag agctatctag caggataaga ccagtagttg ttatgatatc tggcaaacca 1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca 1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa 1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctt 1681 cgcatacagg aattggctga tacgtgtccc cttaccttaa attgtgacag aattgagaat 1741 aagggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc 1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct 1861 gaggcaccag aagtagaaaa ggcaaaacgg gactttcctg gtcagccaga tatgtggaag 1921 gacgtcttca agccggactt ttcacacatc aagctacagc ttgcacctca gggcggtttt 1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct 2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgagtttga actccaaggt 2101 cccacaatca ccaccttcaa tttcgaccgg aacagaatca cagcattcag acaattggct 2161 gcagaaaaca agtatggatt ggtggatacc atgaaagttg gcaaccaact gaaaggagtg 2221 aaaaccatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag gtgccggatc 2281 atctacggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa 2341 aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct gcaccatctc 2401 aaacacgccc gaattaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata 2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgtac gccgcatgaa catacaagaa 2521 ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga ggcccccaag 2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaagggc 2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat 2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag 2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa 2821 gaagacttct gtgaagagga ggaaatcaaa atccgtcaga gaattttccg tcccaccagg 2881 aaacaaagaa aggaagagag ggccacatta gggctagtaa caggttcaga aatcagaaaa 2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt 3001 gactacaatg agaaactaga ctttgaggcc cccccaagca tatggtctag gattgtgagc 3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aactcatgta 3121 atccccgcag gcataacaga agcatttgga gtccccatta aacaaattca gatccacaaa 3181 tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt gacaggaatg 3241 atcttggaag aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa acgccccacc 3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc 3361 cgcatggttg gcggacaaat gggtatgttg ctcactggat caaatgctaa aggaatggat 3421 ttgggaacaa ctcctggtga ctgtggctgt ccttacatct ataaaagggg caatgactat 3481 atagtcattg gggtgcacac tgcagcagcc cgtggcggaa acaccgtcat ctgtgccaca 3541 cagggaagtg agggtgaggc aactcttgaa ggtggagatg acaaaggaac atactgtggg 3601 gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg 3661 tcatcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgat 3721 ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagaccagtt gaagccattc 3781 actgaaccca ggggcaaacc tccaagacca agtgtgttgg aagcagccaa acaaaccatt 3841 atcaatgtcc tcgaacaaac cctggaccct ccacaaaaat ggacatacgc acaggcgtgt 3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgtccgaaa gaatgaattc 3961 tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc aaacctaatg 4021 tttgaggaag ggaaacacat gacaccagtg tatacagcag cactcaagga cgagctagtc 4081 aagactgaga aaatctatgg aaagatcaag aagagactgc tctggggctc tgacttgtcc 4141 accatgatcc ggtgcgctag gtcatttggt gggctcatgg atgagatgaa ggcacactgc 4201 atatcactcc cagtacgagt tggcatgaat atgaatgaag atggcccaat aatatttgag 4261 aaacattcca gatacaaata tcactatgat gcagattact ctcgctggga ttcaacacaa 4321 caaagggcag tactagcagc agccttggaa atcatggtca gattctctgc agaaccacaa 4381 ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt 4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttctca atggaactcc 4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac 4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac 4621 ataaaattgg accctgaaca gttaaccgcc aaattgaagg agtacggcct gaaaccaacc 4681 cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg actcactttc 4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagctca 4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg 4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac 4921 ggaccctctt tctacagtaa aatcagtaaa 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 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa 5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatc atatttgcag cagtcccacc 5461 aaattttcca actgaaggct taagtcctag ccaggtcact atgttccccc acataatagt 5521 agatgttaga caattagaac ctgtgctgat tcccttaccc gatgtcagga ataatttcta 5581 tcattacaat cagtcaaatg actccaccat taagttgata gcaatgttgt atacaccact 5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc 5701 atcccccgat tttgatttta tatttttagt gccacccaca gttgagtcaa gaactaaacc 5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattccttt 5821 ggaaaagttg ttcacgggcc ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg 5881 cacaactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca tctgcacctt 5941 cagaggggat gtcacccaca tcacaggtag tcgcaactac acaatgaatt tggcttctca 6001 aaattggaac aactatgacc caacagaaga aatcccagcc cctctaggaa ctccggattt 6061 tgtggggaag attcaaggca tgctcaccca aaccacaaga acagatggtt caacgcgcgg 6121 ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccagt 6241 cggtgtcatc caagatggta gcaccaccca ccggaacgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcacaatgt acatctggcc 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 gctcacactg gccaacatga 6601 tttggttatc ccccccaatg gttactttag atttgattcc tgggtcaacc agttctacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgta gtataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccagttta gcagcaatct gcaacaggct tcctttcaac atgataaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaggctacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcttagagg gtgggttctc tgagacagat gcggcccgcg gggcaattaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca 7081 tataatgcag gccgcttttc cacccctcaa ccaccggggg cactgccagg aagagctaat 7141 cttagggatg ctgtccctac tcggggaccc tccaacaaat cttctaactc ttctactgcc 7201 acctctgtgt actcaaatca aactatttca acgagacttg gttctacagc tggttctgga 7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaagt 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 attatctttc tttttcttta gtgtctttaa 7561 aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa a //