Typing tool
|
Complete norovirus genomes
MW661258 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 5..5101 ORF2: 5082..6704 ORF3: 6704..7510LOCUS MW661258 7513 bp RNA linear VRL 28-SEP-2021 DEFINITION Norovirus GII isolate BMH19-090 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MW661258 VERSION MW661258.1 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 7513) 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Hoover,E. and Weedmark,K. TITLE Genomic Analysis of Human Noroviruses Using Hybrid Illumina-Nanopore Data JOURNAL Unpublished REFERENCE 2 (bases 1 to 7513) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Direct Submission JOURNAL Submitted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..7513 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="BMH19-090" /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 5..5101 /gene="ORF1" CDS 5..5101 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QSD58393.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQP DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI SMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND SWLSRRMVQRTTGFFRPYQEWNRKPLPTIDDSKIKKVANIFLCSLSTFFTRPIKDLIG KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE VARKVASTLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT MEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEEA PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKE YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEP MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..997 /gene="ORF1" /product="p48" mat_peptide 998..2095 /gene="ORF1" /product="NTPase" mat_peptide 2096..2626 /gene="ORF1" /product="p22" mat_peptide 2627..3025 /gene="ORF1" /product="VPg" mat_peptide 3026..3568 /gene="ORF1" /product="Pro" mat_peptide 3569..5098 /gene="ORF1" /product="RdRp" gene 5082..6704 /gene="ORF2" CDS 5082..6704 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QSD58394.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6704..7510 /gene="ORF3" CDS 6704..7510 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QSD58395.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKTLDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPARGPPNQSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKQGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga 61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc 121 cctcggggct aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc 181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga 241 gccagtcatt aggtatgagg ttaagagtgg gatctctggc ctgcccgagc tcacaacagt 301 cccccaaccg gacgtggcca acacagcatt cagcgttcca ccactgagcc tgagagaaaa 361 cagggaggcc aaggaaccgc taacaggggc aatattagag atgtgggacg gagagatata 421 ccactatggc ctgtacgtgg agaaaggctt agtgttgggt gtgcacaaac cacctgcagc 481 cataagcatg gcaagagtgg agctgacgcc gttgtcattg tactggcgtg tggtgtacac 541 tccccaatac ctcatttccc ctgaaactct caggaggctc aacggagagg cgttccctta 601 cactgccttc gacaacaact gctatgcctt ttgctgctgg gtgttagacc tcaatgactc 661 atggcttagc aggaggatgg tgcaaagaac aacgggcttc ttcagacctt accaagagtg 721 gaacagaaaa cccctgccca ccatagatga ctccaaaata aagaaggtag caaatatatt 781 cctatgttca ttgtccacat ttttcaccag acccataaaa gacctcatag gaaaaattaa 841 accattaaac atattgaaca tcctggcaac gtgtgactgg acgtttgccg gaatagtgga 901 gtctctgata ttacttgctg aactcttcgg agttttctgg acacccccag atgtgtctgc 961 tatgatcgct cccttactcg gggactacga gttgcaaggg ccagaagacc tcgccgttga 1021 actcgtacct gtggtaatgg gagggattgg tttggtgttg ggattcacca aagagaaaat 1081 tggcaaaatg ttgtcttcag cagcatcaac actcagggct tgtaaagatc ttggtgccta 1141 tggcttagag atactcaaat tggtcatgaa gtggttcttc ccaaagaaag aggaggccaa 1201 tgagctagcc atggtgaggg ccatagagga tgccgtacta gatcttgagg caatagaaaa 1261 taaccacatg acaaccctgt tgaaagacaa agacagctta gcaacataca tgaaaacact 1321 ggacatggag gaggagaaag ccagaaggtt gtccacaaaa tctgcatccc ctgacatagt 1381 tgggacaatc aacgccctgc tggcccgaat agcagcagcc aggtcattag tccacagggc 1441 caaggaagag ctatctagca ggataagacc agtagttgtt atgatatctg gcaaaccagg 1501 gataggcaaa acccatctgg ccagggaggt ggcaagaaag gtggcatcca ctctcacagg 1561 ggatcaaaga gtcggactcg taccaagaaa cggtgtggac cattgggatg catacaaagg 1621 tgagagagtc gtgctgtggg acgactatgg catgagtaac cccattcatg atgctcttcg 1681 catacaagaa ttggctgata cgtgtcccct taccttaaat tgtgacagaa ttgaaaataa 1741 gggaaaagtt tttgacagtg aagtcataat aattacaaca aaccttgcca acccagcccc 1801 acttgattat gtcaacttcg aggcctgttc caggagaatt gatttcctgg tgtacgctga 1861 ggcaccagaa gtagaaaagg caaaacggga ttttcctggt cagccagata tgtggaagga 1921 cgccttcaag ccggactttt cacacatcaa gctacagctt gcacctcagg gcggctttga 1981 caagaatggc aacaccccac atgggaaagg ggtgatgaag accctcacta ccggttctct 2041 gattgcccgt gcatcaggcc tgctgcatga gaggatggat gaatttgaac tccaaggtcc 2101 cacaatcacc acctttaatt tcgaccggaa cagaatcaca gcatttagac aattggctgc 2161 agaaaacaag tatggattgg tggataccat gaaagttggc aatcaactaa aaggagtgaa 2221 gaccatggaa gaactcaaac aagcaattag gaatgtgacc atcaagaggt gccggatcat 2281 ctacggtggc tccacgtatg accttgaatc tgatggcaag ggcaaagttt tggtggaaaa 2341 ggtcaagaac acctctgtac agaccaacaa cgagttggcc ggggccctgc accatctcaa 2401 acacgcccga atcaggtact atgtcaaatg tgtgcaagaa gcagtctatt ccatcataca 2461 aattgccggc gctgcgtttg tcaccacgcg cattgcacgc cgcatgaaca tacaagaact 2521 ctggtcgaag ccacaattag atcaaaatga atcagaggct aaggaagagg cccccaagtc 2581 agaagatgac gagttcatca tatcttctaa ggacatcaag gaggaaggaa agaagggcaa 2641 aaacaaaact ggccgtggca agaaacacac tgcattctcc agcaagggct tgagcgatga 2701 ggagtatgac gagtacaaga ggataagaga agagagaaat gggaagtact ctatagagga 2761 gtatctccag gacagagaca ggtactacga ggagctcgcc attgccaagg ccacggaaga 2821 agacttctgt gaagaggagg agatcaaaat ccgtcagaga atttttcgac ccaccaggaa 2881 acagagaaag gaagagaggg ccacattagg gctggtaaca ggttcagaaa tcagaaaaag 2941 aaaccctgat gacttcaaac ccaaagggaa gctgtgggcc gatgacaaca gaagtgttga 3001 ctacaatgag aaactggact ttgaggcccc cccaagcata tggtctagga ttgtaagctt 3061 tggttctggc tggggcttct gggtatcacc aagcctgttc ataacatcaa ctcatgtaat 3121 ccccgcaggc ataacagaag catttggagt ccccatcaaa caaattcaga tccacaaatc 3181 aggtgaattt tgccggttca gattcccaaa accgattaga ccagatgtga caggaatgat 3241 cttggaagag ggtgcgcctg agggcaccgt ggcaactgtg ctcatcaaac gccccaccgg 3301 agagctcatg cctcttgcag ccagaatggg gacacatgca accatgaaaa ttcagggccg 3361 catggttggc gggcagatgg gtatgctgct cactggatca aatgctaaag gaatggattt 3421 gggaacaacc cctggtgact gtggctgtcc ttacatctat aaaaggggca atgactatat 3481 agttattggg gtgcacactg cagcggcccg tggtggaaac accgtcatct gtgccacaca 3541 gggaagtgag ggtgaggcaa ctcttgaggg tggagatgac aaaggaacat actgtggggc 3601 acccatttta ggccctgggg gtgcaccaaa attgagcacc aaaaccaaat tttggaggtc 3661 atcgaacacg ccccttccac cagggacata tgaacctgcc tacctcggtg gccgtgatcc 3721 gcgtgttaaa ggtgggccct ccttgcagca ggtaatgaga gaccagttga agccattcac 3781 tgaacccagg ggcaaacctc caagaccaag tgtattggaa gcagccaaac aaaccattat 3841 caatgttctc gaacaaaccc tggaccctcc acaaaaatgg acatacgcac aggcgtgtgc 3901 ctcacttgac aaaaccacct ccagcgggca tccccatcac gtccgaaaga atgaattctg 3961 gaatggtgag accttcactg gtaaattggc agaccaagca tcaaaagcaa acctaatgtt 4021 tgaggaaggg aaacacatga caccagtgta tacagcagca ctcaaggacg agctagtcaa 4081 gactgagaaa atctatggaa agatcaagaa aaggctgctc tggggctctg acttgtccac 4141 catgatccgg tgcgctaggt catttggtgg gctcatggac gagatgaagg cacactgcat 4201 atcactccca gtacgagttg gcatgaatat gaatgaagat ggcccaataa tatttgagaa 4261 acattccaga tacaaatacc actatgatgc agactactct cgttgggatt caacacaaca 4321 gagggcagta ttagcagcag ccttggaaat catggtcaga ttctctgcag aaccgcaatt 4381 ggcacaaata gtcgctgagg atctactggc ccctagtgta gtagatgtag gagactttaa 4441 aatcacaata aatgaagggc tcccatctgg tgtgccatgc acttctcaat ggaactccat 4501 cgcacactgg ctgctaactc tctgtgcctt gtctgaagtc accaaactgt cccctgacat 4561 tatacaagca aattccatgt tctcatttta cggtgatgac gagattgtca gcaccgacat 4621 aaaattggat cctgaacagt taaccgccaa gttgaaggag tacggcctga aaccaacccg 4681 cccagacaag accgagggac ctctaatcat cagtgaagat ttgaacggac tcactttcct 4741 ccgaaggacg gtgactcgtg acccagctgg ctggtttgga aaactggacc aaagttcaat 4801 tttgaggcag atgtactgga ctagaggacc aaatcatgaa gatcccaatg agacgatgat 4861 accacactct caaagaccca tacagctcat ggcactgctt ggtgaagcct ctcttcacgg 4921 accctctttc tacagtagaa tcagtaaatt ggtcataact gaactcaaag aaggtgggat 4981 ggatttctac gtgccaaggc aggaacccat gttcaggtgg atgaggtttt ctgacttgag 5041 cacgtgggag ggcgatcgca atctggctcc caattttgtg aatgaagatg gcgtcgagtg 5101 acgccaaccc atctgatggg tccgcagcca acctcgtacc agaggttaac aatgaggtta 5161 tggctttgga gcccgttgtt ggtgccgcta ttgcggcacc tgtagcgggc caacaaaatg 5221 taattgaccc ctggattaga aataattttg tacaagcccc tggtggggag tttacagtgt 5281 cccctagaaa cgctccaggt gaaatactat ggagcgcgcc cctaggccct gacctaaacc 5341 cctacctatc ccatttggcc agaatgtaca atggttatgc aggtggtttt gaagtgcagg 5401 taattctcgc ggggaacgcg ttcaccgccg gaaagattat atttgcagca gtcccaccaa 5461 attttccaac tgaaggctta agtcctagcc aagtcactat gttcccccat ataatagtag 5521 atgttagaca attagaacct gtgctgattc ccttacccga tgttaggaat aatttctatc 5581 attataatca gtcaaatgat tccactatta agttgatagc aatgttgtac acaccactta 5641 gggctaataa tgctggagat gatgttttca cggtttcgtg ccgagttctc acgagaccat 5701 cccccgattt tgatttcata tttttagtgc cacccacagt tgagtcaaga actaaaccat 5761 tctctgttcc agttttaact gttgaggaga tgaccaattc aagattcccc atccctttgg 5821 aaaagttgtt cacaggcccc agcagtgcct ttgttgttca accacaaaac ggcaggtgca 5881 caactgatgg cgtgctccta ggcaccaccc aactttctcc tgtcaacatc tgcaccttca 5941 gaggggatgt cacccacatc acaggtagtc gcaactacac aatgaatttg gcttcacaaa 6001 attggaataa ctatgaccca acagaagaaa tcccagcccc tctaggaacc ccagattttg 6061 tggggaagat tcaaggcgtg ctcacccaaa ccacaaggac agatggttca acacgcggcc 6121 acaaagctac agtgtacact gggagcgccg actttgctcc aaaactgggt agagttcaat 6181 ttgaaactga cacagaccat gattttgagg ctaatcaaaa cacaaagttc accccagtcg 6241 gtgtcatcca agatggtagc accacccacc gaaacgaacc ccaacagtgg gtgctcccaa 6301 gttactcagg cagaaatact cacaatgtac atttggcccc cgctgtagcc cccacctttc 6361 cgggtgagca acttctcttc ttcaggtcca ccatgcccgg atgcagcggg taccccaaca 6421 tggatttgga ctgtctgctc ccccaggaat gggtgcagta cttctaccaa gaggcagccc 6481 cagcacaatc tgatgtggct ctgctaagat ttgtgaaccc agacacaggt agggttttgt 6541 ttgaatgcaa gcttcacaaa tcaggctatg ttacagtggc tcacactggc caacacgatt 6601 tggttatccc ccccaatggt tactttagat ttgattcctg ggtcaaccag ttctacacgc 6661 ttgcccccat gggaaatgga acggggcgta gacgtgtagt ataatggctg gagctttctt 6721 tgcaggattg gcatctgacg tccttggctc tggacttggt tcccttatca atgctggagc 6781 tggggccatc aaccaaaaag ttgaatttga aaataacaga aaattacaac aagcatcctt 6841 ccaatttagc agcaatctgc aacaggcttc ctttcaacat gataaagaga tgctccaagc 6901 acaaattgag gccaccaaaa agctacaaca ggaaatgatg aaagtcaagc aggcaatgct 6961 cctagagggt gggttctctg agacagatgc agcccgcggg gcaattaacg cccccatgac 7021 aaaaactttg gactggagcg ggacaaggta ctgggctcca gatgctagga ttacaacata 7081 caatgcaggc cacttttcca cccctcaacc atcgagggca ctgccaggaa gagctaatct 7141 tagggatgct gtccctgctc ggggaccccc caaccaatct tctaactctt ctactgccac 7201 ctctgtgtac tcaaatcaaa ctatttcaac gagacttggt tctacagctg gttctgggac 7261 cagtgtctcg agtctcccgt caactgcaag gactaggagc tgggttgagg atcaaaatag 7321 gaatttgtca cctttcatga ggggggccca caacatatca tttgtcaccc caccatctag 7381 cagatcctcc agccaaggca cagtctcaac cgtgcctaaa gagattttgg actcctggac 7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcac attcgtaagc aaggggagtc 7501 acgggtgtaa tgt //