Typing tool
|
Complete norovirus genomes
OR536477 | GII.3 | ||
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GII.P21 |
ORF1: 5..5104 ORF2: 5085..6731 ORF3: 6731..7495LOCUS OR536477 7547 bp RNA linear VRL 04-MAR-2024 DEFINITION Norovirus GII isolate Hu/NL/2019/GII.3[P21]/Rotterdam/I129S6_P19-d1260, complete genome. ACCESSION OR536477 VERSION OR536477.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7547) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I., Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and de Graaf,M. TITLE Intra-host multi-lineage evolution of human Norovirus in immunocompromised individuals: Implications for treatment JOURNAL Unpublished REFERENCE 2 (bases 1 to 7547) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I., Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and de Graaf,M. TITLE Direct Submission JOURNAL Submitted (11-SEP-2023) Viroscience, Erasmus Medical Center, Dr. Molewaterplein 40, Rotterdam, Zuid-Holland 3015 GD, Netherlands COMMENT ##Assembly-Data-START## Assembly Method :: Spades v. 3.15.4; BWA-MEM v. 0.7.17 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7547 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/NL/2019/GII.3[P21]/Rotterdam/I129S6_P19- d1260" /isolation_source="feaces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Netherlands: Rotterdam" /collection_date="02-May-2019" /note="genotype: GII.3[P21]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WMX17809.1" /translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP KQPPPRDKPPKPPRPPTPELVKSIPPPPPNGEDEPTISYNVKQGVSGLPELSTVTQPE ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVILCALASLFTRPIKDIIGK LKPLNILNILATCDWTFSGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEKNELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATYMRTLDIEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAESPEVEK AKRDFPGQPDMWKDAFKPDGSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLR SARIRYYVKCIQEALYSIIQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETNNVEGC PKPKSDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILG PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..994 /gene="ORF1" /product="p48" mat_peptide 995..2092 /gene="ORF1" /product="NTPase" mat_peptide 2093..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..6731 /gene="ORF2" CDS 5085..6731 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WMX17810.1" /translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLSRMYNGYAGG FEVQVILAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD IRNNFFHYNQGSESRMRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP TVESKTKPFSLPVLTISEMSNSRFPVPIDSLHTSPTDNVVVQCQNGRVTLDGELMGTT QLLPSQICAFRGVLTRPTSRASDQADTATPRSFNNHWHIQLDNLNGTPYDPSEDIPGP LGTPDFRGKIFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLVISTESEDFDQNKP TRFTPVGIGVDQEADFQQWTLPNYAGQLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG GRSDGILDCLVPQEWVQHFYQESAPSQSQVALVRYINPDTGRVLFEAKLHKLGFITIA KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ" gene 6731..7495 /gene="ORF3" CDS 6731..7495 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WMX17811.1" /translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTVDFENNKHLQNA SFNHDKEMLKAQIEATKNLQASMISIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG TRHWAPGATSTTSLSGGFTNQTVHRSTPNFKVNQTPKSAPSGGSSVRSNSTQITSLSS HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcaacaacga 61 caacgcaaaa tcttcaagtg acggagtact atctaatatg gccgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agccgccccc gagggataaa ccaccaaagc ccccaagacc 181 tcccacacca gaattggtta aatcaatccc ccctccccca cccaacgggg aggacgaacc 241 aaccatttct tacaacgtca aacagggtgt ttctggtttg cctgagctct caactgttac 301 ccaaccggaa gagaactcta cagcatttag cgttccccct cttagtcaga gggagaacag 361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca 421 ttatggctta tatgtggaac gagggttagt actaggcgtg cacaaaccac cagcagccat 481 cagccttgcc aaggttgagc tgaccccctt gtccttgtat tggagaccag tgtacacccc 541 acagtacctc atttcccctg atactctcag aaagttgcat ggggaaacgt tcccttatat 601 agcctttgac aacaactgtt acgccttctg ctgttgggtg cttgacttga acgattcatg 661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa 721 taggaagccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttatcct 781 ctgtgctctc gcatcattgt tcacaagacc aattaaggac attattggga agttgaaacc 841 cctaaacatc ctcaacatcc tagccacatg tgattggact ttttcgggca tagtagaatc 901 cctgatcctc ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat 961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggagct 1021 cgtacccgta gtaatgggag ggataggtct ggtgctggga ttcaccaaag agaaaatcgg 1081 caaaatgctt tcatctgccg cttcaacctt gagggcatgc aaagacctcg gtgcatatgg 1141 gttggagatc ctcaaattgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga 1201 attggaaatg gtgagagcaa tcgaggatgc agtgctagat cttgaggcca ttgagaacaa 1261 ccatatgaca actctactca aggacagaga cagccttgca acctacatga ggactcttga 1321 catagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg acattgtggg 1381 cacgataaac tccctactgg caaggattgc agctgcccgg tctctagtgc acagggctaa 1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atctcaggga gaccaggtat 1501 agggaaaacc catctagcta gagaggtggc aaagaagatc gcctccacac tcacaggtga 1561 tcagagggtg ggtctaatcc cacgcaacgg ggtcgatcac tgggattcat acagaggtga 1621 aagaatcgtt ctctgggacg actatggaat gagcaacccc atccacgacg ccctcagact 1681 ccaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg 1741 caaagttttt gacagtgacg tcataatgat aaccaccaat ttggcaaacc cagcgccact 1801 ggactacgtc aactttgaag cgtgctcaag acgcatagac ttcctcgttt atgctgaatc 1861 ccctgaagtt gagaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagatgc 1921 cttcaaacct gacggctcac acataaaatt gacattggcc ccacaagggg gttttgacaa 1981 aaatggtaac actccttatg ggaagggtgt catgaagacc ctcactgcca gttccctcgt 2041 tgcccgagca tcagggctcc tccatgagag gttagacgag tatgagctgc aggggccaac 2101 tcccacgaca ttcaacttcg accgcaacaa ggttctcgct tttaggcaac ttgctgctga 2161 aaacaagtac ggccttgttg acacaatgag ggtcggatca cagctcaaga atgtcaaaac 2221 catgacagaa ctcaagcagg ctctcaagaa catctcagtc aagaaatgcc agcttgtata 2281 tggtgggagc acgtacacac ttgaatctga tggtaaaggt aatgtgcatg tcgagaaggt 2341 gaacaacacc agtgtgcaaa ctaacaatga actctccggg gttttgcacc acctcaggag 2401 tgccagaatc aggtactatg ttaagtgtat ccaggaagct ctctattcca tcattcaaat 2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg 2521 gtccaaacca caagcagaag atttggagga gactaacaac gtggagggtt gtccaaaacc 2581 taaaagtgat gaagaatttg tcatctcctc cgacgacatc aaagccgagg gcaagaaagg 2641 taagaacaag actggccgtg gcaagaagca cacagccttt tccagcaaag ggcttagtga 2701 tgaggagtac gatgagttca aaagaatcag ggaagagaga aatggcaaat actccataga 2761 ggaataccta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga 2821 ggaagacttc tgtgaagaag aagaggcaaa aatccgacaa aggatattta gaccaacaag 2881 gaaacagcgc aaagaagaaa gggcctctct cggtttggtc acaggttctg agattaggaa 2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gccgatgatg acaggaatgt 3001 tgactacaat gagaaactca gtttcgaggc cccaccaagc atttggtcac gaatagtcaa 3061 ctttggctcg gggtggggtt tctgggtctc gcccagcctc ttcataacat caacccatgt 3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aagcaaattc aaattcacaa 3181 gtcgggtgag ttctgccggc ttagattccc aaagccaatc aggacagatg ttacaggcat 3241 gattttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agaggccaac 3301 tggggaactc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg 3361 acgcactgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agagcatgga 3421 cttgggcaca actcccggcg attgtggttg tccctatatc tacaaaagag ggaatgacta 3481 cgttgtcatt ggggttcaca cagccgccgc tcgtggagga aacaccgtca tctgtgcaac 3541 ccaaggaagc gagggtgagg ctgtgctaga aggtggtgac aacaagggaa cttattgtgg 3601 agcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag 3661 gtcttccacc acccccctgc cacccggaac ctatgaacca gcttatctgg gtggcaagga 3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggaccagc taaaaccgtt 3781 cactgagccc agaggcaagc caccaaaacc aagtgtgctg gaagccgcta aaaagactat 3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaggcgtg 3901 tgcatcatta gataagacca cctccagcgg ccacccccac cacatgcgga agaacgactg 3961 ctggaatggg gagaccttca caggaaaact ggcagaccaa gcatcaaaag ctaacctaat 4021 gtttgaggaa ggaaagaaca tgaccccagt atacacaggg gctctaaaag atgagctagt 4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc 4141 aaccatgata cggtgtgcac gagccttcgg tggattgatg gacgaactca aggcccattg 4201 tgtcacacta ccagtcagag ttggcatgaa catgaatgag gatggaccca taatatttga 4261 gaaacattcc agatataaat atcattatga tgcagattac tcccgctggg actcaacaca 4321 acaaagagca gtactggctg cagccctgga aataatggtc aaattctcac cagaacccca 4381 tctggctcaa gtggttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt 4441 caagatatca atcaacgagg gattaccctc tggtgttccc tgcacctcac agtggaactc 4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga 4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga 4621 cattaaactg gatccagaga aattaacaac aaaattgaag gaatacggac taaaaccaac 4681 ccgtcctgac aaaacagaag gacccttgat tatctctgaa gatttgaatg gcctaacatt 4741 cttacggaga acggtaaccc gtgatccggc cgggtggttt ggcaaactgg atcaaagctc 4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct ttgaaacaat 4861 gataccacac tcccaaagac ccatacaatt gatgtcatta ttgggtgaag ctgcattgca 4921 tggtccgtca ttttacagta aaatcagcaa attagtcatc tcagaattga aagagggtgg 4981 aatggatttt tacgtgccca ggcaagaacc aatgttcaga tggatgagat tttcagactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctaac gatggtgccg ccggcctcgt cccagagatc aacaatgagg 5161 caatggcgct agaaccagtg gcgggtgcag cgttagcagc acccctcact ggtcagcaaa 5221 atataattga tccctggatt atgaataatt ttgtacaagc acctggtggt gagtttacag 5281 tgtcccctag aaattcccct ggtgaagttc ttctcaattt ggaattaggt ccagaaataa 5341 atccctattt ggcccatctt tctagaatgt ataatggtta tgcaggtgga tttgaagtgc 5401 aggtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc 5461 ccaattttcc aattgacaac ctaagtgcag cacagatcac aatgtgtcca catgtgatcg 5521 tggacgtcag acagctggaa ccagtcaacc tcccgttgcc tgacattcgc aacaatttct 5581 ttcattacaa tcaagggtct gaatcaagaa tgcgcttaat tgcaatgttg tatacacctc 5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgcagagtg ttaactagac 5701 ctagtcctga ctttgcattt aatttccttg tgccacctac tgtggagtca aagacaaaac 5761 ccttttccct ccctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtaccaa 5821 ttgattccct gcacaccagc cctactgata atgttgttgt ccagtgtcag aatgggcgcg 5881 tcacccttga cggtgagttg atgggcacta cccagctctt acctagtcaa atctgtgctt 5941 tcaggggcgt gctcaccaga ccaacaagca gggccagtga ccaggccgat acagcaaccc 6001 ccagatcgtt caataatcat tggcacatac aattggataa tctaaatgga actccttatg 6061 atccttcaga agatatacca ggccccttgg ggacaccaga ttttcggggc aaaatctttg 6121 gcgtggccag ccagagaaat cctgatgcta caactagggc acatgaagca aagatagata 6181 caacatctgg ccgtttcacc ccgaaattag gttcattagt aatttccact gaatccgaag 6241 actttgacca aaataaacca acaagattca ccccagttgg cattggggtc gaccaggagg 6301 cagactttca acaatggact cttcccaact atgctggcca gctcacccac aacatgaact 6361 tagccccagc tgttgctccc aacttccctg gtgagcaact ccttttcttc cgctcacagt 6421 tgccatcttc tggtgggcga tccgatggaa ttctggactg cctggtcccc caagaatggg 6481 tacagcactt ctaccaagaa tcagccccct cccaatctca agtagccctg gttaggtata 6541 tcaatcctga cactggtaga gtgttatttg aggccaaact gcacaaattg ggtttcataa 6601 ctatagccaa aaatggtgac tctccaataa cagtccctcc caatggatac ttcagatttg 6661 aatcttgggt gaaccccttt tacacacttg cccccatggg aacagggaat gggcgtagaa 6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaacac 6781 tgtgggatct ttagttaatg caggggctaa tgccattaat caaacagttg attttgaaaa 6841 caataaacat ttgcaaaatg cttcttttaa tcatgataag gaaatgttga aagcacaaat 6901 tgaggcaaca aagaatttac aggccagcat gatttctatc aaacaagggg ttttgaccgc 6961 tggcggcttt tcccctactg atgcggcccg cggggcaatc aacgccccca tgacaaaagt 7021 cctagattgg aatggcacga gacactgggc accaggtgcc acctccacaa cctcgttgtc 7081 gggtggcttt acaaatcaaa ctgtgcacag atctacacca aattttaaag tgaaccagac 7141 ccccaaatcc gcacccagtg gtgggtcttc agtaaggtca aattcaaccc aaatcactag 7201 cttgagctca cactcgtccg ggtcgtctcg gtccagcggg tctacagttg tcagctcaat 7261 accatcctct aacaggacta gggattgggt cacccaacaa aactttaatc tggaaccaca 7321 catgcctggg tctcttagga cagcttttgt cactccacca tctagtacag cctctagctc 7381 aggcacagtc tcaactgtac ctaaaaatgt tttggactcc tggacatctg cgtttaacac 7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa 7501 agattattat aaatttgatt taaattagat ttaatttgga atctttt //