Typing tool
|
Complete norovirus genomes
MW661263 | GII.1 | ||
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GII.P16 |
ORF1: 5..5104 ORF2: 5085..6692 ORF3: 6692..7465LOCUS MW661263 7469 bp RNA linear VRL 28-SEP-2021 DEFINITION Norovirus GII isolate BMH19-096 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MW661263 VERSION MW661263.1 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 7469) 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Hoover,E. and Weedmark,K. TITLE Genomic Analysis of Human Noroviruses Using Hybrid Illumina-Nanopore Data JOURNAL Unpublished REFERENCE 2 (bases 1 to 7469) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Direct Submission JOURNAL Submitted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..7469 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="BMH19-096" /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.1_GII.P16" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QSD58408.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGVSGLPDLTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPDTLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKPEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..1000 /gene="ORF1" /product="p48" mat_peptide 1001..2098 /gene="ORF1" /product="NTPase" mat_peptide 2099..2629 /gene="ORF1" /product="p22" mat_peptide 2630..3028 /gene="ORF1" /product="VPg" mat_peptide 3029..3571 /gene="ORF1" /product="Pro" mat_peptide 3572..5101 /gene="ORF1" /product="RdRp" gene 5085..6692 /gene="ORF2" CDS 5085..6692 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QSD58409.1" /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPFLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKLVFAAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQQPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGVVVQPQNGRSTLDGELLGTT QLVPSNICALRGRINARVPDDHHQWNLQVTNANGTPFDPTEDVPAPLGMPDFLANIYG VTSQRNPDNTCRAHDGVLATWSPKFTPKLGSVVLGTWEEQDLDLNQPTRFTPVGLYDT NHFDQWILPNYSGRLTLNMNLAPSVAPLFPGEQILFFRSHIPLKGGTSNGAIDCLLPQ EWIQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG YFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6692..7465 /gene="ORF3" CDS 6692..7465 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QSD58410.1" /translation="MAGAFVAGLAGDIVTNSIGSLVNAGANAVNQKVDFENNKQLQQA SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG TRYWAPGATKTTAFSGGFTSSPNTRTVDLPRKTSTTPAPTPMSRPNSSASTVSTRSTI VSGTSGLSSLIRSSFNSQPTSSSSRTSEWVRSQNEALEPYMRGALQTAYVTPPSSRAS SNGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV" 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 agaaccagtc attaggtatg aggttaagag tggggtctct ggcctgcccg atctcacaac 301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga 361 aaacagggag gccaaggaac cgctaacagg ggcgatatta gagatgtggg atggagagat 421 ataccactac ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccataagc atggcaagag tggagttgac accgctgtca ttgtactggc gtgtagtgta 541 cactccccaa tacctcattt cccctgatac tcttaggagg ctcaacggag aggcattccc 601 ttacaccgcc ttcgacaata actgctatgc cttttgctgt tgggtgttgg acctcaatga 661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga 721 gtggaacaga aaacccctgc ctactatgga tgactccaaa attaagaagg tagcaaacat 781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat 841 taaaccatta aacatattga acatcctggc gacgtgtgac tggacgtttg ccggaatagt 901 ggagtctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc 961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccggaag acctcgccgt 1021 tgagctcgtg cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa 1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc 1141 ctatggctta gagatattaa aattggtcat gaagtggttc ttcccaaaga aagaggaggc 1201 caatgagcta gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga 1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac 1321 actggacatg gaggaagaga aagccagaag gttgtccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgctc tgctggctcg aatagcagcg gccaggtcat tagttcacag 1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc 1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac 1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct 1681 tcgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa 1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc 1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc 1861 tgatgcacca gaagtggaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa 1921 ggacgccttc aagccggact tttcacacat caagctacaa cttgcacctc agggcggctt 1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc 2041 tctgattgcc cgtgcgtcag gcctactgca tgagaggatg gatgaatttg aactccaagg 2101 tcccacaatc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc 2161 tgcagaaaac aagtatggat tggtggatac catgaaagtt ggcaatcaac taaaaggagt 2221 gaaaaccatg gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgccggat 2281 catctacggt ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga 2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct 2401 caaacacgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat 2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga 2521 actctggtcg aagccacaat tagatcaaaa cgaatcagag actaaggaag aggctcccaa 2581 gccagaagat gacgagttca tcatatcttc taaggatatc aaggaggaag gaaagaaggg 2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga 2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actctataga 2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga 2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag 2881 gaaacaaagg aaggaagaga gggccacatt agggctagtg acaggctcag aaattagaaa 2941 aagaaaccct gatgacttca aacccaaagg gaagctatgg gccgatgaca acagaagtgt 3001 tgattacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag 3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt 3121 aatccccgct ggcataacag aagcatttgg agtccccatc aaacaaattc agatccacaa 3181 atcaggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat 3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac 3301 aggagagctc atgcctcttg cagccagaat gggaacacac gcaactatga aaattcaagg 3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga 3421 tttgggaaca actcctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta 3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac 3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg 3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag 3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga 3721 tccgcgtgtt aagggtgggc cctccttgca gcaggtaatg agagatcagt tgaagccatt 3781 cactgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat 3841 tatcaatgtc cttgaacaaa ccctggaccc tccacaaaaa tggtcatacg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg gcatccccat cacgtccgaa agaatgaatt 3961 ctggaatggt gagaccttca ccggtaaatt ggcagaccaa gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacata tgacaccagt gtatacagca gctctcaagg acgagctagt 4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc 4141 caccatgatc cggtgcgcca gatcatttgg tgggctcatg gacgagatga aggcacactg 4201 cataacactc ccagtgcgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga 4261 gaaacattcc agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca 4321 acagagggca gtattagcag cagccttgga aatcatggtc agattctctg cagaaccaca 4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt 4441 taaaatcaca ataaatgaag ggctcccatc tggtgtgccg tgcacttccc agtggaactc 4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga 4561 cattatacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga 4621 cataaaattg gaccctgaac agttaaccgc caaattgaag gagtacggcc tgaaaccaac 4681 ccgtccagac aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt 4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc 4801 aattttgagg cagatgtact ggactagagg accaaatcac gaagacccca atgagacaat 4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctctcca 4921 cggaccctct ttctacagta aaatcagtaa attggttata actgaactca aagagggtgg 4981 gatggatttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctaat gatggtgcag ccggtctcgt accagaggtc aacaacgaga 5161 cgatggcact tgagccggtg gccggggcct ctatagctgc ccctttgacc ggccaaaata 5221 atgtgataga cccctggatt agaatgaatt ttgtccaagc tccaaatggt gaatttacag 5281 tgtccccccg taattcccca ggtgaagtgt tgttgaattt ggaattgggc cctgaactaa 5341 atccattctt ggcacatctt tcaagaatgt ataatggtta tgctggtggg gttgaagtgc 5401 aggtgctact tgctgggaat gcgttcacag caggaaaact agtgttcgcg gcaatccccc 5461 cgcatttccc tcttgagaat ctgagtcctg gtcaaattac aatgttccct cacgtgatta 5521 ttgatgttag aactctagaa cctgttctct tgcctttacc agatgttagg aataatttct 5581 ttcactacaa tcagcagcct gagccccgta tgaggcttgt ggctatgttg tatactcctc 5641 ttagatctaa tggctctggt gatgatgtgt tcacagtctc ttgtagggtt ctcacccgcc 5701 cctctccaga ttttgatttc aattatttgg ttcccccaac tgtggaatct aaaactaaac 5761 cattcaccct gccaatattg accattggag agttgtcaaa ttctaggttc ccagtgccaa 5821 tagatgaatt gtataccagc cccaatgaag gagtggttgt gcaacctcaa aatggcagat 5881 caacacttga tggtgaactg cttggtacaa cacaacttgt gccatcaaac atctgtgcct 5941 tgcgagggcg catcaacgcc cgagtgccag acgaccacca tcaatggaac ttgcaggtta 6001 caaacgcaaa tgggactccc ttcgacccca ctgaagatgt ccctgcacca ttgggcatgc 6061 cagacttctt ggcaaacatc tatggagtta ctagccagag gaaccctgac aacacttgcc 6121 gtgcccatga tggggtcttg gcaacctgga gccctaaatt tacacctaag ttagggtctg 6181 tggttttggg tacttgggaa gaacaagatc ttgatctcaa ccaacctacc agattcacac 6241 ctgttggttt gtatgataca aaccactttg atcagtggat tctacccaac tattctggaa 6301 gattaacctt aaacatgaat ttggcgccct ccgttgctcc ccttttccca ggtgaacaaa 6361 tactcttctt taggtcccac attccactta aaggaggcac ttccaatggt gccattgact 6421 gtctactccc tcaggagtgg atccagcatt tctaccagga atcagccccg tcacccacag 6481 atgttgctct gattaggtac accaaccctg acacgggtcg tgtccttttt gaggccaaac 6541 tacataggca ggggtttatc acagtagcaa attctggttc tagacctatt gttgtccccc 6601 ctaatggtta ttttaggttt gattcctggg ttaatcagtt ttattctctc gcccccatgg 6661 gaactgggaa tgggcgcaga agggtgcagt aatggctgga gcttttgtag caggtcttgc 6721 cggtgacata gtcaccaata gcattggttc acttgtaaac gctggagcca atgcagtaaa 6781 ccaaaaagta gactttgaaa acaacaaaca actacagcag gcctctttca accatgataa 6841 ggaaatgttg caagctcaaa ttcaggctac aaaacaatta caggctgaca tgattgcgct 6901 cagacaaggg gtgttgaccg caggcggctt ctcccctact gatgcagcaa gaggggcggt 6961 taatgcgccc atgacgcaag tcttggactg gaatgggact aggtactggg cccccggagc 7021 caccaaaaca actgctttct ccggtgggtt cacaagctct cccaatacca ggactgttga 7081 tttgcctagg aaaacatcaa ccacaccagc ccccacacct atgtccagac ctaattcttc 7141 tgcttctact gtttctaccc gctcaacaat tgttagcggg acttctggcc tttcttcttt 7201 gattaggagc tcttttaatt cccagcccac ctcctcttct tctcggacta gcgaatgggt 7261 gcgtagtcaa aacgaggcgc tggagcccta catgagggga gcgctgcaaa ctgcttacgt 7321 gacgcctccc tctagtagag cgtctagcaa tggcacagtc tcaaccgtgc caaaagaagt 7381 tttggactcc tggacatctg tgttcaacac ccacagacaa ccgcttttcg ctcatctccg 7441 tcggagaggg gagtcacagg tttagtgaa //