Typing tool
|
Complete norovirus genomes
OR536473 | GII.3 | ||
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GII.P21 |
ORF1: 5..5104 ORF2: 5085..6731 ORF3: 6731..7495LOCUS OR536473 7547 bp RNA linear VRL 04-MAR-2024 DEFINITION Norovirus GII isolate Hu/NL/2018/GII.3[P21]/Rotterdam/I129S1_P19-d1077, complete genome. ACCESSION OR536473 VERSION OR536473.1 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multi-lineage evolution of human Norovirus in immunocompromised individuals: Implications for treatment JOURNAL Unpublished REFERENCE 2 (bases 1 to 7547) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,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/2018/GII.3[P21]/Rotterdam/I129S1_P19- d1077" /isolation_source="feaces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Netherlands: Rotterdam" /collection_date="31-Oct-2018" /note="genotype: GII.3[P21]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WMX17797.1" /translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP KQPPPRDKPPKPPRPPTPELVKSIPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQPE ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVILCALASLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEKNELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATYMRTLDIEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAESPEVEK AKRDFPGQPDMWKDAFKPDCSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR NARIRYYVKCVQEALYSIIQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETNNVEGC PKPKSDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGSDNKGTYCGAPILG 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="WMX17798.1" /translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLRLELGPEINPYLAHLSRMYNGYAGG FEVQVILAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPLPD IRNNFFHYNQGSDSRMCLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP TVESKTKPFSIPILTISEMSNSRFPVPIDSLHTSPTDNVVVQCQNGRVTLDGELMGTT QLLPSQICAFRGVLTRPANRASDQADTATPRSFNNHWHIQLDNLNGTPYDPSEDIPGP LGTPDFRGKIFGVASQRNSDATTRAHEAKIDTTSGRFTPKLGSLEISTESEDFDQNKP TRFTPVGIGVDNEADFQQWTLPNYAGQLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG GRSDGILDCLVPQEWVQHFYQESAPSQSQVALIRYINPDTGRVLFEAKLHKLGFITIA 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="WMX17799.1" /translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKHLQNA SFNHDKEMLNAQIEATKKLQASMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG TRHWAPGATSTTSLSGGFTNQAVHRSTPNFKTNQTPKPAPSSGSSVRSNSTQITSLSS HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcaacaacga 61 caacgcaaaa tcttcaagtg acggagtact atctaatatg gccgtcactt tcaaacgagc 121 cctcggggcg cggcctaaac agccgccccc gagggacaaa ccaccaaagc ccccaagacc 181 ccccacacca gaattggtta aatcaatccc ccctccccca cccaacgggg aggacgaacc 241 aaccatttct tacaacgtca aagagggtgt ttctggtttg cctgagctct caactgtcac 301 ccaaccggaa gagaactcta cagcatttag cgttccccct cttagtcaga gggagaacag 361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca 421 ttatggctta tatgtggaac gagggctagt actaggtgtg cacaaaccac cagcagccat 481 cagccttgcc aaggttgagc taaccccctt 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 ttacaagacc aattaaggac attattggaa agttgaaacc 841 cctaaacatc ctcaacatcc tagccacatg tgattggact tttgcgggca tagtagaatc 901 cctgatcctc ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat 961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggagct 1021 cgtacccgta gtaatgggag ggataggtct ggtgctggga ttcaccaaag agaaaatcgg 1081 caaaatgctt tcatctgctg cttcaacctt gagggcatgc aaagatctcg gtgcatatgg 1141 gttggagatc ctcaaattgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga 1201 attggaaatg gtgagagcca ttgaggatgc agtgctagat cttgaggcca ttgagaacaa 1261 ccatatgaca actctactca aggatagaga cagccttgca acctacatga gaactcttga 1321 catagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg atattgtggg 1381 cacgataaac tccctactgg caaggattgc agctgcccgg tctctagtgc acagggctaa 1441 ggaggagctg tcaagcaggc ctcgaccggt cgttgtgatg atctcaggga gaccaggtat 1501 agggaaaacc catctagcta gagaggtggc aaagaagatc gcctccacac tcacaggtga 1561 tcagagggtg ggtcttatcc 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 gattgctcac acataaaatt gacattggcc ccacaagggg gttttgacaa 1981 aaatggtaac actccttatg gaaagggtgt catgaagacc ctcactgcca gttccctcgt 2041 tgcccgagca tcagggctcc tccatgagag gttagacgaa tatgagctgc aggggccaac 2101 tcccacgaca ttcaacttcg accgcaacaa ggttctcgct tttaggcaac ttgctgctga 2161 aaacaagtac ggccttgttg acacaatgag ggtcggatcg cagctcaaga atgtcaaaac 2221 catgacagaa ctcaagcagg ctctcaagaa catctcagtc aagaaatgcc agcttgtata 2281 tggtgggagc acgtacacac ttgaatctga tggtaaaggt aatgtgcatg tcgagaaggt 2341 gaacaacacc agtgtgcaaa ctaacaatga gctctccggg gctttgcacc acctcaggaa 2401 tgccagaatc aggtactatg ttaagtgtgt ccaggaagct ctctactcca tcattcaaat 2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg 2521 gtccaaacca caagcagaag atttggagga gactaacaac gtggagggtt gtccaaaacc 2581 taaaagtgat gaagaatttg tcatctcctc tgacgacatc aaagccgagg gcaagaaagg 2641 taagaacaag actggccgtg gcaagaagca cacagccttt tccagcaaag ggcttagtga 2701 tgaagagtac gatgagttca aaaggatcag 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 tccaccaagc atttggtcac gaatagtcaa 3061 ctttggctcg gggtggggtt tctgggtctc gcccagcctc ttcataacat caacccatgt 3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aagcaaattc aaattcacaa 3181 gtcgggtgag ttctgccggc ttagattccc aaaaccaatc aggacagatg ttacaggcat 3241 gattttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agaggccaac 3301 tggggaactc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg 3361 acgcactgtt ggtggacaga tgggcatgct gctcacaggg tctaacgcta agagcatgga 3421 cttgggcaca actcccggcg attgtggttg tccctatatc tacaaaagag ggaacgacta 3481 cgttgtcatt ggggttcaca cagccgccgc tcgtggagga aacaccgtca tctgtgcaac 3541 ccaaggaagc gagggtgagg ctgtgctaga aggtagtgac aacaagggaa cttactgtgg 3601 agcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag 3661 gtcttccacc acccccctgc cacccggaac ctatgaacca gcttacctgg gtggcaagga 3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggatcagc taaaaccgtt 3781 cactgagccc agaggcaagc caccaaaacc aagtgtgcta gaagccgcta aaaagactat 3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaagcgtg 3901 tgcatcatta gataagacca cctccagcgg ccaccctcac cacatgcgga agaacgactg 3961 ctggaatggg gagaccttca caggaaaact ggcagaccaa gcatcaaagg ctaacctaat 4021 gtttgaggaa ggaaagaaca tgaccccagt atacacaggg gccctaaaag atgagctagt 4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc 4141 aaccatgata cggtgtgcac gagccttcgg tggattgatg gacgaactca aggcccactg 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 aatggaactc 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 ccatacaact gatgtcatta ttgggtgaag ctgcgttgca 4921 tggtccgtca ttttacagta aaatcagcaa attggtcatc tcagaattga aagagggtgg 4981 aatggatttt tacgtgccca ggcaagaacc aatgttcaga tggatgagat tttcagactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg 5161 caatggcgct agaaccagtg gcgggtgcag cgttagcagc gcccctcact ggtcagcaaa 5221 atataattga tccctggatt atgaacaatt ttgtacaagc acctggtggt gagttcacag 5281 tatcccctag aaattcccct ggtgaagttc tccttaggtt ggaactgggt ccagaaataa 5341 atccctattt ggcccatctt tctaggatgt ataatggtta tgcaggtgga tttgaagtgc 5401 aggtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc 5461 ccaattttcc aatcgacaac ctgagtgcag cacagatcac aatgtgtcca catgtgatcg 5521 tggacgtcag acagctggaa ccaatcaacc tcccgttgcc tgacattcgc aacaatttct 5581 ttcattataa tcaagggtct gattcaagaa tgtgcttagt tgcaatgttg tatacacctc 5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgcagagtg ttgactagac 5701 ctagtcctga cttcgcattt aatttccttg tgccacccac tgtggagtca aagacaaaac 5761 ccttttccat ccctattcta accatctctg aaatgtccaa ttcgaggttc ccagtgccaa 5821 ttgattccct gcacaccagc cctactgata atgttgttgt ccagtgtcaa aatgggcgcg 5881 tcacccttga cggtgagttg atgggcacca cccaactctt acctagtcaa atctgtgctt 5941 tcaggggcgt gctcaccaga ccagcaaaca gggccagtga ccaggccgat acagcaaccc 6001 ccagatcgtt caataatcat tggcacatac aattggataa tctaaatgga actccttatg 6061 acccttcaga agatatacca ggccccttgg ggacaccaga tttccggggc aaaatctttg 6121 gcgtggccag ccagagaaat tctgatgcta caactagggc acatgaagca aagatagaca 6181 caacatctgg ccgtttcacc ccaaaattag gttcattaga aatttccact gaatccgaag 6241 actttgacca aaataaacca acaagattca ccccagttgg cattggggtc gacaatgagg 6301 cagactttca acaatggact cttcccaact atgctggcca gctcacccac aacatgaact 6361 tagccccagc tgttgctcct aacttccctg gtgagcaact ccttttcttc cgctcacagt 6421 tgccatcttc tggtgggcga tccgacggga tcctagactg cctggtcccc caagaatggg 6481 tacagcactt ctaccaagaa tcagccccct cccaatctca agtggccctg attaggtata 6541 tcaatcctga cactggtaga gtgttatttg aggccaaatt gcacaaattg ggtttcataa 6601 ctatagccaa aaatggtgat tctccaataa cagtcccccc aaatggatat ttcaggtttg 6661 aatcttgggt gaaccccttt tatacacttg cccccatggg aacagggaat gggcgtagaa 6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac 6781 tgtagggtct ttagttaatg caggggctaa tgccattaat caaacaattg attttgaaaa 6841 taataaacat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat 6901 tgaggcaaca aagaagttac aggccagcat gattgctatc aaacaagggg ttttgaccgc 6961 tggcggcttt tcccctactg atgcggcccg cggggcaatc aacgccccca tgacaaaagt 7021 cctagattgg aatggcacga gacactgggc accaggtgcc acctccacaa cctcgttgtc 7081 gggtggcttc acaaatcaag ctgtgcacag atctacacca aattttaaaa cgaaccagac 7141 ccccaaaccc gcacccagta gtgggtcttc agtaaggtca aattcaaccc aaatcactag 7201 cttgagctca cactcgtccg ggtcgtctcg atccagcggg tctacagttg tcagctcaat 7261 accatcctct aacaggacta gggactgggt cacccaacaa aattttaatt tggaaccaca 7321 catgcctggg tctcttagga cagcttttgt cactccacca tctagcacag cctctagctc 7381 aggcacagtc tcaactgtac ctaaaaatgt tttggactcc tggacatctg cgtttaacac 7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa 7501 agattattat aaatttgatt taaattagat ttaatttgga atctttt //