Typing tool
|
Complete norovirus genomes
MH218736 | GII.2 | ||
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GII.P2 |
ORF1: 5..5104 ORF2: 5085..6713 ORF3: 6713..7492LOCUS MH218736 7537 bp RNA linear VRL 11-JUN-2018 DEFINITION Norovirus GII isolate NORO_97_02_05_2015, complete genome. ACCESSION MH218736 VERSION MH218736.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7537) AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H., Hartley,J., Harris,K. and Breuer,J. TITLE Norovirus transmission dynamics in a paediatric hospital using full genome sequences JOURNAL Clin. Infect. Dis. (2018) In press PUBMED 29800111 REMARK Publication Status: Available-Online prior to print REFERENCE 2 (bases 1 to 7537) AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H., Hartley,J., Harris,K. and Breuer,J. TITLE Direct Submission JOURNAL Submitted (17-APR-2018) Division of Infection and Immunity, University College London, 90 Gower St, London, London WC1E 6BT, United Kingdom COMMENT ##Assembly-Data-START## Assembly Method :: CLC Genomics Workbench v. 10.1 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7537 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="NORO_97_02_05_2015" /host="Homo sapiens" /db_xref="taxon:122929" /country="United Kingdom" /collection_date="02-May-2015" /note="genotype: GII.P2_GII.2" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AWR17866.1" /translation="MKMASNDASAAAAVNSNNDNTKSSSDGMFNNMAVTLKRALGARP KQPAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTAGGVSGLPELTTVGQLP EANTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS IAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDS WLSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGK LKPLNILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPED IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREL AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEK AKRDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA SGLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTM DELKKAIKNITIRKCQIVYGGNTYTLESDGKGRVVVERVQNASVQINNEIAGAVHHLR CARIRYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEDADEATTKEGC PKPRDEEEFVVSSEDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEG TVATILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGFPHHVRKNEHW NGESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDL ATMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWD STQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLR EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGP NHEDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSLVNEDGVE" 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..6713 /gene="ORF2" CDS 5085..6713 /gene="ORF2" /codon_start=1 /product="VP1" /protein_id="AWR17867.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNGHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKQNSPGYNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6713..7492 /gene="ORF3" CDS 6713..7492 /gene="ORF3" /codon_start=1 /product="VP2" /protein_id="AWR17868.1" /translation="MAGAFVAGLAGDVLSSGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPGSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTNEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc tgctgccgct gctgttaaca gcaacaacga 61 caacacaaaa tcttcaagtg acggaatgtt taacaacatg gccgtcaccc ttaaacgagc 121 ccttggggcc cggcccaaac agccggcccc gagggaaaaa cccccaagac cccctagacc 181 accaacacca gaattaatta aaagaatccc ccccccacca cctaacgatg gggatgaacc 241 aaccgtgatg tttagcactg caggtggtgt gtctggccta cctgagctca caacagtcgg 301 tcaactacct gaagctaaca cggcctttag cgtgcctccc ctcagccaaa gggaaaacag 361 ggacgccaag gagccgctaa ctggaactat tctggaaatg tgggacgggg agatttatca 421 ctatggactg tatgtggaaa aagggcttgt gttaggcgtg cacaagccac cggctgccat 481 cagcatagcc aaagtggaat taacgcctct ctcactgtat tggaggcctg tgtacacgcc 541 tcagtacctc atatctccag acaccttgag gaaactccac ggtgaactat ttccctatac 601 agcctttgaa aacaactgtt atgccttctg ctgttgggtt ttggacctta acgattcatg 661 gctaagcagg aggatgatta gtaggactac tggctttttc aggccctacc aagagtggaa 721 caggaagccc ctcccaacca tggatgactc aaaattgaaa aaggtcgcaa acatcgttct 781 atgtgcattg tcatcattgt tcactagacc cattaaggat ataattggca agcttaaacc 841 cctcaacatc ctgaacattc tggcctcgtg cgactggacc ttcgctggca tagttgagtc 901 actaatcctc ttggctgaac tctttgatgt gttctggaca cccccagatg tgtctgcaat 961 gatcgcaccc ctcctcggtg actatgagct acaaggccct gaagacatcg ctgtggagct 1021 cgtacccgtt gtgatgggtg ggataggtct ggtgttggga ttcaccaaag agaaaatagg 1081 taagatgctc tcttctgcag catcaacttt gagggcatgc aaagatcttg gagcctatgg 1141 actggagata ctgaaactag tcatgaaatg gttcttccca aagaaggatg aggccaacga 1201 actggctatg gttagagcca ttgaagacgc tgtattggac ctggaggcca ttgagaacaa 1261 ccatatgacc actctattga aagacaagaa cagccttgca gcctacatga agaccctgga 1321 catggaagag gaaaaagcta ggaagttatc caccaaatca gcctcccctg acattgtggg 1381 caccataaac gccctgttgg ctaggatcgc tgccgcgcgt tccttagttc atagggccaa 1441 ggaggagctc tccagcaggc caaggccggt cgtcttgatg atctctggca agccagggat 1501 aggaaagacc cacttggcca gagaactggc aaagaaaatc gcctcaacac tcacaggaga 1561 ccagagagtg ggcctcatcc cacggaatgg agttgaccat tgggatgcct acaaaggtga 1621 gagagtggtg ctctgggatg attacgggat gagcaacccc atccacgatg cgttgaggtt 1681 gcaagaactg gcagacacat gtccattgac tctaaattgt gacaggattg aaaacaaggg 1741 gaaagtcttc gacagcgatg cgatcataat taccaccaat ttggtcaatc ccgcgccgct 1801 ggattatgtc aactttgagg cctgctccag acgtatagac ttccttgtgt atgctgatgc 1861 cccagaagtc gagaaagcaa agcgggactt ccccggccaa ccagacatgt ggaaggacgc 1921 ttatcgctct gacttctcac acatcaaact acaacttgca ccacaaggtg ggtttgacaa 1981 aaatggtaac acccctcatg gtaaaggagt gatgaagact ctcactgcca gctcactggt 2041 tgcgcgtgcc tctggtctct tgcacgagag gctagatgag tacgaattgc aaggtccacc 2101 cctctcaacc ttcaactttg accgcaacaa aatcgcagcg ttcagacaac tcgctgctga 2161 aaacaagtat ggtctggtag acacgatgag ggtgggtaac cagctcagaa atgtcacgac 2221 catggatgaa ctcaagaagg ctatcaagaa catcacaatc agaaagtgcc agatagtcta 2281 tggtggcaac acttacacgc ttgagtctga cggcaagggt agagttgtgg ttgagagggt 2341 gcagaacgcc agcgtgcaaa tcaacaatga gatcgctggt gcagtacacc accttagatg 2401 tgccagaata cggtattatg ttaagtgtgt ccaagaggcc atctactcac tcctccaaat 2461 tgctggcacg gtgtttgtca cttcacgcat cgtaagccgc atgaacatcc aaaatttatg 2521 gtccaggcca ttaactgaag atgcagatga ggccaccacg aaagaggggt gccctaaacc 2581 tagggatgaa gaagaatttg tcgtctcctc agaagatatc aagccagagg gcaagaaagg 2641 taaaaacaag agtggccggg gcaagaaaca cacggcattc tcaagcaaag gtctcagtga 2701 tgaggagtac gaagagtaca aaaggattag agaggagaga aatggaaaat actccataga 2761 ggaataccta caggacagag acaagtacta tgaagaggtg gccattgcca gggcaactga 2821 agaagacttc tgtgaagaag aagaggttaa gattcgtcag aggatcttca ggccaactag 2881 aaagcaacgc aaggaagaaa gagccaacct tggcctcgtc accggatctg agatcaggaa 2941 gaggaaccca gatgacttta aaccaaaagg aaagctgtgg gccgacgatg ataggagcgt 3001 tgactacaac gaaagaatca gctttgaggc cccaccaagc atttggtcta gaattgtcaa 3061 ctttggttct ggatgggggt tttgggtgtc acctagcctc ttcataacat caacacatgt 3121 cataccccaa ggcataactg aagcctttgg tgtacccata aggcaagtgc aaatacacaa 3181 atcgggcgaa ttctgtcgcc tgagattccc aaaacccatc aggacagatg tgtcaggtat 3241 gatactggag gagggagcgc ctgaaggcac tgttgccacc atactcatca agagaaccac 3301 tggagaactg atgccccttg cagcaaggat gggcacccac gcgaccatga ggatacaagg 3361 acgcacggtg ggcggccaaa tgggaatgct gctcactggg tccaatgcaa agagcatgga 3421 tcttggcacc acgcctggtg actgtgggtg tccctatatt tacaaaaggg gcaatgatta 3481 catagtcatt ggagttcaca cagcagctgc ccgtggcgga aacactgtca tctgcgccac 3541 acaaggtagt gagggtgagg ccacactcga gggtggtgac aacaaaggga catactgtgg 3601 ggcaccaatc ctaggacccg ggagtgcccc gaaactgagc actaagacca aattctggag 3661 gtcctctaca acaccactcc ctcccggcac atacgagccg gcatatctgg gaggaaaaga 3721 cccccgagtc aaaggtggac catctctgca acaagtcatg cgagaccaac tgaagccatt 3781 caccgaaccc cgtggtaagc caccaaaacc aagtgtcctt gaagctgcca aaaagacaat 3841 tatcaatgtg ctagagcaaa caatagaccc cccacagaag tggacgtacg cgcaagcgtg 3901 cgcgtctctt gacaaaacca catctagtgg gtttccccac cacgtgcgca aaaacgagca 3961 ctggaatggg gaatctttca caggaaaatt ggctgatcag gcatcaaaag caaacctaat 4021 gtttgaagag ggaaagcaca tgaccccagt ttacacagct gcccttaagg atgagttggt 4081 caaaactgag aaggtgtatg ggaagataaa gaagaggttg ctttggggct ctgatctggc 4141 cacaatggtg cggtgcgcgc gctcttttgg tggtttgatg gacgaactta aggcccactg 4201 tgtaacactt ccgataaggg ttggcatgaa tatgaatgaa gatggaccaa tagtctttga 4261 gaaacactcc agatacaggt atcactatga tgcagactat tccaggtggg actcaacaca 4321 gcagagagcc gttctggctg cggccatgga gattatggtt aaattttcag cagaaccaca 4381 actagcccaa atagttgcag aggatctact gtcgcctagt gtagttgatg tgggcgactt 4441 caaaatttcc atcaacgaag ggttaccatc aggtgtccct tgcacctctc aatggaactc 4501 cattgcacac tggctcctca ccttgtgtgc cctttctgaa gttacagatc tctctcccga 4561 tattgtgcaa gccaactccc tcttctcctt ctatggtgat gatgaaattg tgagtacaga 4621 cattaaatta gacccagaaa aattgacggg gaagttgaga gaatacggcc tcaaacccac 4681 tcggcctgac aagactgagg gccccctgat cattagcgag gatttgaatg gcctgacctt 4741 cttgaggaga accgtcaccc gcgaccctgc aggatggttt ggcaaactgg accagagctc 4801 tatactcagg caattgtatt ggaccaaggg tcctaatcat gaagacccct ttgagtcaat 4861 gattccacac tcccagaggc ccatacaact catgtcactc ttgggcgaag cagcactgca 4921 tgaaccatcg ttttacagca agatcagcaa gcttgtgata tctgagttga aagaaggtgg 4981 aatggatttt tacgtgccca ggcaagaacc catgttcagg tggatgagat tctcggattt 5041 gagcacgtgg gagggcgatc gcaatcttgc tcccagtctt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aacaatgagg 5161 tcatggctct tgaacccgtg gctggtgccg ccttggcagc cccagtcacc ggtcaaacaa 5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag 5281 tctctccccg taatgcccct ggtgaagtgc tattgaatct agagttgggt ccagaattaa 5341 atccttatct ggcacattta gcaagaatgt ataacgggta tgccggtggg atggaggtgc 5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gctgtaccac 5461 ctcacttccc ggttgaaaac cttagcccac agcaaattac catgttccct catgtgatta 5521 tagatgtaag gaccttagaa cctgttttat taccacttcc tgatgttagg aacaatttct 5581 tccactataa tcagaaagat gatcctaaaa tgagaattgt ggctatgctt tacacccccc 5641 ttaggtctaa tggttcaggt gatgatgtgt tcacagtctc ctgcagggtg ttgactagac 5701 cctcccctga ttttgatttc acatatttgg tgccaccaac agtggaatct aaaacaaaac 5761 cattcactct cccaatcctc acacttgggg aactttccaa ttctaggttc ccagtgtcca 5821 tagaccagat gtacaccagc cccaatgagg ttatatcagt gcagtgtcaa aatggtaggt 5881 gcacattgga cggggagctt caggggacaa cacaactcca agtcagtggc atttgtgctt 5941 tcaaggggga agtgaccgcc catttacatg acaatggcca cctatataat gtcaccatca 6001 caaacctgaa tgggtccccc tttgacccct ccgaggacat ccctgcccct ctgggcgtgc 6061 ctgatttcca gggaagggtc tttggcatca tctcccaaag agataaacag aatagccctg 6121 ggtacaatga accagcaaac aggggacacg acgctgtggt ccctacttac acagcacagt 6181 acaccccaaa attgggtcag attcaaattg gcacatggca gaccgacgat ctcacagtca 6241 accaaccagt caaatttacc ccagttggtc tcaatgacac tgaacatttt aatcaatggg 6301 tggtccccag atacgctggt gccctaaacc tcaatacaaa tcttgcccct tctgttgctc 6361 cagtgtttcc aggagagcgc ctgcttttct tcagatcata tattcctctc aagggtggtt 6421 atggaaatcc agccattgat tgcctactgc cacaagagtg ggtgcaacac ttctatcagg 6481 aggctgcccc atcaatgagt gaggtggccc ttgtcagata catcaacccg gacactggtc 6541 gggcactgtt tgaggccaag ctccacagag ctggtttcat gacagtctcg agtaacacca 6601 gtgccccggt ggttgtgcct gccaatggat acttcagatt tgactcttgg gtgaatcaat 6661 tctattctct cgcccccatg ggaactggaa atgggcgtag aagggttcaa taatggctgg 6721 agcttttgta gctggtcttg caggggacgt gctcagcagt gggctcagtt cattgattaa 6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattacagca 6841 aaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct 6901 gcaggcagac atgatggcta ttaaacaggg ggtcctgacc gctggcggtt tttcccctgc 6961 tgatgcagcc agaggtgctg tgaatgcgcc catgacacag gcgctggact ggaacggtac 7021 aaggtattgg gcaccaggct ctatgaggac cacatcttat tctgggaaat tcacatcaac 7081 cgccccagtg aggcaggccg actttcagca cacccaaaac cggccatcga gtggctcttc 7141 tgtgtcctcc tttgccactc aatcttcaag gccaactctg accacaacca ctgggtcctc 7201 acatggtaca gcctcatcaa attcaactcg cagcacgagc ctctcccaat caacggtctc 7261 tagagctaca tctagaacta atgagtgggt tagagatcaa aatagaaatt tggaacccta 7321 catgcatggt gccttacaga cagcctttgt caccccaccc tccagcaggg cgtctgatgg 7381 gacagtctca accgtcccaa agggtgtttt ggactcctgg acacctgcgt tcaacacccg 7441 caggcagccg ctctttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg 7501 tggaaaattt gtttagaata aattgatttt acctttt //