Typing tool
|
Complete norovirus genomes
MW661261 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS MW661261 7517 bp RNA linear VRL 28-SEP-2021 DEFINITION Norovirus GII isolate BMH19-094 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MW661261 VERSION MW661261.1 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 7517) 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Hoover,E. and Weedmark,K. TITLE Genomic Analysis of Human Noroviruses Using Hybrid Illumina-Nanopore Data JOURNAL Unpublished REFERENCE 2 (bases 1 to 7517) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Direct Submission JOURNAL Submitted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..7517 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="BMH19-094" /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 1..5100 /gene="ORF1" CDS 1..5100 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QSD58402.1" /translation="MALWTNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPRKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGMPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELIPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTTTTFNFDRNRIAAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEVVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE TPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYEDYKRIREERNG KYSIEEYLQDRDRYYEELAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKSIRPDVTGLILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRNQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 1..996 /gene="ORF1" /product="p48" mat_peptide 997..2094 /gene="ORF1" /product="NTPase" mat_peptide 2095..2625 /gene="ORF1" /product="p22" mat_peptide 2626..3024 /gene="ORF1" /product="VPg" mat_peptide 3025..3567 /gene="ORF1" /product="Pro" mat_peptide 3568..5097 /gene="ORF1" /product="RdRp" gene 5081..6703 /gene="ORF2" CDS 5081..6703 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QSD58403.1" /translation="MKMASSDANPSDGSAASLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPELNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNESTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIRGTQHYTMNLASQNWNNYDPTEETPAPLGTPDFVGKIQGVL TQTTRTNGSTRGHKATVYTGSADFAPKLGRVQFETDTDNDLDANQNTKFTPVGVIQDG GTTPRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAYTGEHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAV" gene 6703..7509 /gene="ORF3" CDS 6703..7509 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QSD58404.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN APMTKVLDWNGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSTKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTSAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ttggccctgt ggactaacga cgcttccgct gccgttgctt gcaacaacaa caacgacaag 61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggctaggc ccaaacagcc tgccccgaga gacgaaccac gaaaaccccc aagaccacca 181 actcctgaat tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa 241 ccagtcatta ggtatgaggt taagagtggg atctctggca tgcccgagct cacaacagtc 301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac 361 agggaggcca aggaaccgct aacaggggca atattagaga tgtgggatgg agagatatac 421 cactacggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc 481 ataagcatgg caagagtgga gctgataccg ctgtcattgt actggcgtgt ggtgtacact 541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc attcccttac 601 accgccttcg acaacaactg ctatgccttt tgctgctggg tgttggacct caatgactca 661 tggcttagca ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg 721 aacagaaaac ccctgcctac catggatgac tccaaaatca agaaggtagc aaatatattc 781 ctatgttcat tgtccacatt attcaccaga cccataaaag atctcatagg aaaaattaaa 841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggaa 901 tctctgatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa 1021 ctcgtacctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt 1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat 1141 ggcttagaga tactaaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggctaat 1201 gagctagcca tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg 1321 gacatggagg aagagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt 1381 gggacaatca acgctctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc 1441 aaggaagagc tatctagcag gatgagacca gtagttgtta tgatatctgg taaaccagga 1501 ataggcaaaa ctcatctggc cagggaggtg gcaaggaagg tggcatccac tctcacaggg 1561 gatcaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt 1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgcccttcgc 1681 atacaagaac tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag 1741 ggaaaagttt ttgacagtga agtcataata attacaacaa acctcgccaa cccagcccca 1801 cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag 1861 gcaccagaag tggaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac 1921 gccttcaagt cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg 2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc 2101 acaaccacca ccttcaattt cgaccggaat agaatcgcag cattcagaca actggctgca 2161 gaaaacaagt atggattggt ggataccatg aaagttggca atcaactaaa aggagtgaaa 2221 accatggaag aactcaaaca ggcaatcagg aatgtgacca tcaagaggtg ccggatcatc 2281 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gggccctgca ccatctcaaa 2401 cacgcacgaa tcaggtacta tgtcaaatgt gtgcaagaag tagtctattc catcatacaa 2461 attgccggcg ctgcgtttgt caccacacgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaattaga tcaaaatgaa tcagagacta aggaagagac ccccaagtca 2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa 2641 aacaaaactg gccgtggcaa gaaacacacc gcattctcca gcaagggctt gagcgatgag 2701 gagtatgaag attacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag 2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccagggc cacggaagaa 2821 gacttctgtg aagaggagga ggtcaaaatc cgtcagagaa ttttccgtcc caccaggaaa 2881 caaaggaagg aagagagggc cacattaggg ctagtgacag gttcagaaat cagaaaaaga 2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgat 3001 tacaatgaga aactggattt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt 3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc 3121 cccgctggca taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca 3181 ggtgaatttt gtcgattcag attcccaaaa tcaattagac cagatgtgac aggattgatc 3241 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga 3301 gaactcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc 3361 atggttggcg gacagatggg tatgttgctc actggatcaa atgctaaagg aatggatttg 3421 ggaacgactc ctggtgactg tggctgtcct tacatctaca aaaggggtaa tgactatata 3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgttatctg tgccacacag 3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca 3601 cccattctag gccctggggg tgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgacccg 3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagaa accagttgaa gccattcact 3781 gaacccaggg gtaaaccccc aagaccaagt gtattggaag cagccaaaca aaccattatc 3841 aatgtcctcg aacaaaccct ggaccctcca caaaaatggt catacgcaca ggcgtgtgcc 3901 tcactcgaca aaaccacttc cagcgggcac ccccatcacg tccgaaagaa tgaattctgg 3961 aatggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt 4021 gaggaaggga aacatatgac accagtgtat acagcagcac tcaaggacga gctagtcaag 4081 actgagaaaa tttatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc 4141 atgatccggt gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata 4201 acactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa 4261 cattccagat acaaatatca ctatgatgca gactactctc gttgggattc aacacaacag 4321 agggcagtac tagcagcagc cttggaaatc atggtcaggt tctctgcaga accacaattg 4381 gcacaaatag tcgctgagga cctgctggcc cctagtgtag tagatgtagg agactttaaa 4441 atcacaataa atgaagggct cccatctggt gtgccgtgca cttcccaatg gaactccatc 4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaagctgtc ccctgacatt 4561 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata 4621 aaattggacc ctgaacagtt gaccgccaaa ttgaaggagt acggcctgaa gccaacccgc 4681 ccagacaaga ccgagggacc cctgatcatt agtgaagatt tgaacggact cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggatca aagctcaatt 4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag atcccaatga gacaatgata 4861 ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tctccacgga 4921 ccctctttct acagtaaaat cagtaaattg gtcataactg aactcaaaga aggtgggatg 4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga 5101 cgccaaccca tctgatgggt ccgcagccag cctcgtacca gaggtcaaca atgaggttat 5161 ggctttggag cctgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc 5281 ccctagaaac gctccaggtg aaatactgtg gagcgcgccc ctaggccctg aactaaatcc 5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aattctcgcg gggaacgcgt tcaccgccgg gaagatcata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttaa gtcctagcca ggtcactatg ttcccccata taatagtaga 5521 tgttagacaa ttagaacctg tgctgattcc cttacccgat gttaggaata atttctatca 5581 ttacaatcag tcaaatgaat ccactattaa gttgatagca atgttgtata caccacttag 5641 agctaataat gctggggatg atgttttcac agtttcgtgc cgagttctca cgagaccatc 5701 ccccgatttt gatttcatat ttttagtgcc acccacagtt gaatcaagaa ctaaaccatt 5761 ctctgtccca gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga 5821 aaaattgttc acgggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac 5881 aactgatggc gtgctcctag gcaccaccca gttgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacatca gaggtactca acactacaca atgaacctgg cttctcaaaa 6001 ttggaataac tatgacccaa cagaagaaac cccagcccct ctaggaactc cagattttgt 6061 ggggaagatt caaggtgtgc tcacccaaac cacaaggaca aatggttcaa cacgcggcca 6121 caaagctaca gtgtacactg ggagcgccga ttttgctcca aaactgggta gagttcaatt 6181 tgaaactgac acagacaatg atcttgatgc taatcaaaac acaaagttca ccccagtcgg 6241 tgtcatccaa gatggtggca ccaccccccg aaacgaaccc caacagtggg tgctcccaag 6301 ttactcaggc aggaatactc acaatgtaca tctggccccc gctgtagccc ccacctttcc 6361 aggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat 6421 ggacttggac tgtctactcc cccaggaatg ggtgcagtac ttctatcaag aggcagcccc 6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacactggta gggttttgtt 6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct tacactggtg aacatgattt 6601 ggttattccc cccaatggtt attttaggtt tgattcctgg gtcaaccagt tctacacgct 6661 tgcccccatg ggaaatggag cggggcgtag acgtgcggta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct 6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc 6841 caatttagca gcaatctgca acaggcttcc tttcaacatg acaaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcagtgctc 6961 ctagagggtg ggttttctga gacagatgca gcccgcgggg caattaacgc tcccatgaca 7021 aaagttttgg actggaacgg gacaaggtac tgggctcccg atgctaggac tacaacatac 7081 aatgcaggcc gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaacctt 7141 agggatgctg tccctgctcg gggaccctcc accaaatctt ctaactcttc tactgctacc 7201 tctgtgtact caaatcaaac catttcaacg agacttggtt ctacagctgg ttctggaacc 7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagt 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact 7441 agcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca 7501 cgggtgtaat gtgaaaa //