Typing tool
|
Complete norovirus genomes
OR536467 | GII.3 | ||
---|---|---|---|
GII.P21 |
ORF1: 5..5104 ORF2: 5085..6731 ORF3: 6731..7495LOCUS OR536467 7542 bp RNA linear VRL 04-MAR-2024 DEFINITION Norovirus GII isolate Hu/NL/2016/GII.3[P21]/Rotterdam/I78S32_P19-d69, complete genome. ACCESSION OR536467 VERSION OR536467.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7542) 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multi-lineage evolution of human Norovirus in immunocompromised individuals: Implications for treatment JOURNAL Unpublished REFERENCE 2 (bases 1 to 7542) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,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..7542 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/NL/2016/GII.3[P21]/Rotterdam/I78S32_P19-d69" /isolation_source="feaces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Netherlands: Rotterdam" /collection_date="27-Jan-2016" /note="genotype: GII.3[P21]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WMX17779.1" /translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP KQPPPRDKPPKPPRPPTPELVKAIPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQPE ESSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVILCALASLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEKNELAMVRAIEDAVLDLEAIENNHMTALLKDRDSLATYMRTLDIEEEKARKLST KSASPDIVGTINSLLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV ARKIASSLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKDTFKPDCSHIKLTLAPQGGFDKNGNTPHGKGIMKTLTASSLVARA SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR CARIRYYVKCIQEALYSILQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETNNEEGC PKPKNDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAVLEGGDNKGTYCGAPILG PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPYHMRKNDCW NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL STMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSRISKLVISELKEGGMDFYVPRQE 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="WMX17780.1" /translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLSLELGPEINPYLAHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD IRNNFFHYNQRSESRVRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP TVESKTKPFSLPVLTISEMSNSRFPVPIDSLHTSPTDNVVVQCQNGRVTLDGELMGTT QLLPSQICAFRGVLTGSTSRASDQADTATPRLFNNRWHIQLDNLNGTPYDPSEDIPGP LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSDRFTPKLGSLEISTESDDFDQNKP TRFTPVGIGVDHEADFQQWTLPNYAGRLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG 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="WMX17781.1" /translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKHLQNA SFNHDKEMLNAQIEATKRLQASMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG TRHWAPGATSTTSMSGGFTNQAVHRSTPNFKTNQTPKPAPSSGSSVRSNSTQITSLSS HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcaacaacga 61 caacgcaaaa tcttcaagtg acggagtact atctaatatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agccgccccc gagggataaa ccaccaaagc ccccaagacc 181 ccccacacca gaattggtta aagcaatccc ccctccccca cccaacgggg aggacgaacc 241 aaccatttct tacaacgtca aagagggtgt ttctggtttg cctgaactct caactgttac 301 ccaaccggaa gagagctcta cagcatttag cgttccccct cttagtcaga gggagaacag 361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca 421 ttatggctta tatgtggaac gagggttagt actaggtgtg cacaaaccac cagcagccat 481 cagccttgcc aaggttgagc tgaccccctt gtccttgtat tggagaccgg tgtacacccc 541 acagtacctc atttcccctg atactctcag aaagttgcat ggggaaacgt tcccttatat 601 agcctttgac aacaactgtt acgccttctg ctgttgggtg cttgacttga acgattcatg 661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa 721 taggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtagcca atgttatcct 781 ctgtgctctc gcatcattgt ttacaagacc aattaaggac attattggga 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 ggataggttt ggtgctggga ttcaccaaag agaaaatcgg 1081 caaaatgctt tcatctgctg cttcaaccct gagggcatgc aaagatctcg gtgcatatgg 1141 gttggagatc ctcaagttgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga 1201 attggcaatg gtgagagcca tcgaggatgc agtgctagat cttgaggcca ttgagaacaa 1261 ccatatgaca gctctactca aggatagaga cagccttgca acctacatga gaactcttga 1321 catagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg atattgtggg 1381 cacgataaac tccctactgt caaggattgc agctgcccgg tctctagtgc acagggctaa 1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atctcaggga gaccaggtat 1501 agggaaaacc catctagcta gagaggtggc aaggaagatc gcctcctcac tcacaggtga 1561 tcagagggtg ggtcttatcc cacgcaacgg ggtcgatcac tgggattcat acagaggtga 1621 aagaatcgtt ctctgggacg actatgggat gagcaacccc atccacgacg ccctcagact 1681 ccaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg 1741 caaagttttc gacagtgacg ccataataat aaccaccaat ttggccaacc cagcgccact 1801 ggactacgtc aactttgaag cgtgctcaag acgcatagac ttcctcgttt atgctgaagc 1861 ccctgaagtt gagaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagacac 1921 ctttaaacct gactgctcac acataaaatt gacattggcc ccgcaagggg gttttgacaa 1981 aaatggtaac actcctcatg ggaagggtat catgaagacc ctcactgcca gttccctcgt 2041 tgcccgagca tcagggctcc tccacgagag gttagacgaa 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 tggcaaaggt aatgtgcatg tcgagaaggt 2341 gaacaacacc agtgtgcaaa ctaacaatga gctctccggg gctttgcacc atctcaggtg 2401 tgccagaatc aggtactatg ttaagtgtat ccaggaagct ctctactcca tcttgcaaat 2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg 2521 gtccaaacca caagcagaag atttggagga gactaacaac gaggagggtt gtccaaaacc 2581 taaaaatgat gaagaatttg tcatctcctc tgatgacatc aaagccgagg gcaagaaagg 2641 aaagaacaag actggccgtg gcaagaagca cacagccttt tccagcaaag ggctcagtga 2701 tgaggagtac gatgagttta aaaggatcag ggaagagaga aatggcaagt actccataga 2761 ggaataccta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga 2821 ggaagacttc tgtgaagaag aagaggcaaa aatccggcaa aggatattta gaccaacaag 2881 gaaacagcgc aaagaagaaa gggcctctct cggtttggtt acaggttctg agattaggaa 2941 gagaaaccca gacgacttca agcccaaagg gaaactatgg gccgatgatg acaggagtgt 3001 tgactacaat gagaaactta gtttcgaagc tccaccaagc atttggtcac gaatagtcaa 3061 ctttggctcg gggtggggtt tttgggtctc gcccagcctc ttcataacat caacccatgt 3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aaacaaattc aaattcacaa 3181 gtcgggtgag ttctgccggc ttagattccc aaaaccaatc aggacagatg tcacaggcat 3241 gattttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agaggccaac 3301 tggggaactc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg 3361 acgcactgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agagcatgga 3421 cttgggtaca actcctggcg attgtggttg tccctatatc tacaagagag ggaacgacta 3481 cgttgtcatt ggggttcaca ctgccgccgc tcgtggagga aacaccgtca tctgtgcaac 3541 ccaaggaaac gagggtgagg ctgtgctaga aggtggtgac aacaagggaa cttattgtgg 3601 agcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag 3661 gtcttccacc acccccctgc cacccggaac ctatgagcca gcttatctgg gtggcaagga 3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggatcaac taaaaccgtt 3781 cactgagccc agaggcaagc cacccaaacc aagtgtgcta gaagccgcta aaaagactat 3841 aatcaatgta cttgaacaaa caatagaccc acctcaaaaa tggacatacg cacaggcgtg 3901 tgcatcacta gataagacca cctccagcgg tcacccttac cacatgcgga agaacgactg 3961 ctggaatggg gagactttca caggaaaact ggcagaccaa gcatcaaagg ctaacctaat 4021 gtttgaggaa ggaaagaaca tgaccccagt atacacagga gctctgaaag atgagctagt 4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc 4141 aaccatgata cggtgtgcac gagccttcgg tggattaatg gacgaactca aggcccactg 4201 tgtcacacta ccaatcaggg ttggcatgaa catgaatgag gatggaccca taatatttga 4261 gaaacattcc agatataaat accattatga tgcagattac tcccgctggg actcaacaca 4321 acaaagagca gtgctggctg 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 gaatacgggc taaaaccaac 4681 ccgccctgac aaaacagaag gacccttagt tatctctgaa gatttggatg gcctaacatt 4741 cttacggaga acggtgaccc gtgatccggc cgggtggttt ggcaaactgg atcaaagttc 4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct tcgaaacaat 4861 gataccacac tcccaaagac ccatacaact gatgtcatta ttgggtgaag ctgcattgca 4921 tggtccgtca ttttacagca gaatcagcaa attagtcatc tcagaattga aagagggtgg 4981 aatggatttt tacgtgccca gacaagaacc aatgtttaga tggatgagat tttcagattt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg 5161 caatggcgct agaaccagtg gcgggtgcag cgttagcagc acccctcact ggtcagcaaa 5221 atataattga tccctggatt atgaataatt ttgtgcaagc acctggtggt gagtttacag 5281 tatcccctag aaattcccct ggtgaagttc ttcttagttt ggaattgggt ccagaaataa 5341 atccctattt ggcccatctt gctagaatgt ataatggtta tgcaggtgga tttgaagtgc 5401 aggtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc 5461 ccaattttcc aatcgacaac ctaagtgcag cacagatcac aatgtgtcca catgtgatcg 5521 tggacgtcag acagctggaa ccagtcaacc tcccgttgcc tgacattcgc aacaatttct 5581 ttcattacaa tcaaaggtct gaatcaagag tgcgcttaat tgcaatgttg tatacacctc 5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgcagagtg ttaactagac 5701 ctagtcctga cttcgcattt aatttccttg tgccacctac tgtggagtca aagacaaaac 5761 ccttttccct ccctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtgccaa 5821 ttgattccct gcacaccagc cctactgata atgttgttgt ccagtgtcag aatgggcgcg 5881 tcacccttga cggtgagttg atgggcacta cccaactctt acctagtcaa atctgtgctt 5941 tcaggggcgt gctcaccgga tcaacaagca gggccagtga ccaggccgat acagcaaccc 6001 ccagattgtt taataatcgt tggcacatac aattggataa tctaaatgga actccttatg 6061 acccttcaga agatatacca ggccccttgg ggacaccaga tttccggggc aaagtctttg 6121 gcgtggccag ccagagaaat cctgatgcta caactagggc acatgaagca aagatagaca 6181 caacatctga ccgtttcacc ccgaaattag gttcattaga gatttccact gaatccgatg 6241 actttgatca aaataaacca acaagattca ccccagttgg cattggggtc gaccatgagg 6301 cagactttca acaatggact cttcccaact atgctggccg gctcacccac aacatgaact 6361 tagccccagc tgttgctccc aacttccctg gtgagcaact ccttttcttc cgctcacagt 6421 tgccatcttc tggtgggcga tccgacggga tcctagactg cctggtcccc caagaatggg 6481 tacagcactt ctaccaagaa tcagccccct cccaatctca agtggccctg gttaggtata 6541 tcaaccctga cactggtaga gtgttatttg aggccaaact gcacaaattg ggtttcataa 6601 ctatagccaa aaatggtgac tctccaataa cagtccctcc aaatggatac tttaggtttg 6661 aatcttgggt gaaccccttt tatacacttg cccccatggg aacagggaat gggcgtagaa 6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac 6781 tgtggggtct ttagttaatg caggggctaa tgccatcaat caaacaattg attttgaaaa 6841 taataaacat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat 6901 tgaggcaaca aagaggttac aggccagcat gattgctatc aaacaagggg ttttgaccgc 6961 tggcggcttc tcccctactg atgcagcccg cggggcaatc aacgccccca tgacaaaagt 7021 cctagattgg aatggaacga gacactgggc accaggtgcc acctccacaa cctcgatgtc 7081 gggtggcttc acaaatcaag ctgtgcacag atctacacca aattttaaaa cgaatcagac 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 agattatttt aaatttgatt taaattagat ttaatttgga at //