Typing tool
|
Complete norovirus genomes
LN854566 | GII.4 Sydney | ||
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GII.P4 Yerseke |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS LN854566 7559 bp RNA linear VRL 12-JUN-2015 DEFINITION Norovirus GII/Hu/NL/2014/GII.4/Groningen01, complete genome. ACCESSION LN854566 VERSION LN854566.1 KEYWORDS complete genome. SOURCE Norovirus GII/Hu/NL/2014/GII.4/Groningen01 ORGANISM Norovirus GII/Hu/NL/2014/GII.4/Groningen01 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Bavelaar,H., Rahamat-Langendoen,J., Niesters,H.G.M., Zoll,J. and Melchers,W.J.G. TITLE Whole genome sequencing of faecal samples as a tool for the diagnosis and genetic characterization of norovirus JOURNAL Unpublished REFERENCE 2 (bases 1 to 7559) AUTHORS Zoll,J. TITLE Direct Submission JOURNAL Submitted (18-MAY-2015) Medical Microbiology, RADBOUDUMC, PO Box 9101, 6500 HB Nijmegen, NETHERLANDS FEATURES Location/Qualifiers source 1..7559 /organism="Norovirus GII/Hu/NL/2014/GII.4/Groningen01" /mol_type="genomic RNA" /strain="GII/Hu/NL/2014/GII.4/Groningen01" /host="Homo sapiens" /db_xref="taxon:1665647" /note="genotype:GII.4" gene 5..5104 /gene="POL" CDS 5..5104 /gene="POL" /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="CRL46960.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP KQSPPREKPQRPPRPPTPELVKNIPSPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRGKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5085..6707 /gene="VP1" CDS 5085..6707 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="CRL46961.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVSHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6707..7513 /gene="VP2" CDS 6707..7513 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="CRL46962.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSSKFS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMGGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agtccccccc gagggaaaaa ccacaaagac ccccacgacc 181 acctactcca gaactggtta aaaatattcc ctctccccca cccaacggag aggatgaaat 241 agtggtttct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag 301 gcaaccggaa gaatctaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag 361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggacgggg aaatctacca 421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat 481 cagcctcgct aaggttgagc tagcaccact ctccttgtac tggagacctg tgtacacccc 541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagaaacgt tcccctacac 601 agcctttgac aacaactgtt atgccttttg ttgctgggtt ctggacctaa acgactcgtg 661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa 721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatatttct 781 gtgtgctctg tcctcgctgt tcaccagacc cataaaagat ataataggga agataaggcc 841 tcttaacatc ctcaacatct tagcctcatg tgattggacc tttgcaggca tagtggagtc 901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct 1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg 1081 gaaaatgttg tcatctgctg cgtccacctt gagagcttgt aaagaccttg gtgcatatgg 1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aagaaggagg aggcaaatga 1201 gctggctata gtgaggtcta tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga 1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg 1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcaaa 1441 ggaggagctt tccagcaggc caagacctgt ggtgttgatg atatcaggca ggccaggaat 1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga 1561 ccagcgtgtg ggtctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg attatgggat gagcaaccct attcacgatg ccctcaggct 1681 gcaagaactc gctgacacgt gccccctcac tctaaactgt gacaggattg aaaataaagg 1741 aaaagtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcgccact 1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc 1861 ccctgaagtt gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc 1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa 1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctccctcat 2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactgc agggcccagc 2101 tctcaccacc ttcaatttcg accgcaataa ggtgctcgcc tttagacaac ttgctgctga 2161 aaataaatat gggttgatgg acacaatgag agttgggaaa cagctcaagg atgtcagaac 2221 catgccagaa ctcaaacagg cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta 2281 tagtggttgc acctacatac ttgagtctga tggcaagggc aatgtgaaag ttgacagaat 2341 tcaaagcgcc gccgtacaga ccaacaatga gctggctggt gccctacacc atttgaggtg 2401 cgccagaatc agatactatg tcaagtgtgt ccaggaggcc ctgtattcca tcattcaaat 2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg 2521 gtccaagcca caagtggaaa ataccgaaga gactaccagc aaggacgggt gcccaaaacc 2581 taaggatgat gaggagtttg tcatttcatc tgacgacatc aaaactgagg gtaagaaagg 2641 gaagaacaag actggccgcg gcaagaagca cacagcattt tcaagcaaag gcctcagtga 2701 tgaagagtac gatgagtaca agaggattag agaagaaagg aatggcaagt actccataga 2761 agagtatctt caagacagag gcaaatacta tgaggaggtg gccatcgcca gggcgactga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag 2881 gaaacaacgc aaggaggaaa gagcctctct cggtctggtc acaggctctg agatcaggaa 2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt 3001 ggactacaat gagaaactca gttttgaggc tcctccaagc atctggtcga gaatagtcaa 3061 ctttggttca ggctgggggt tctgggtctc ccccagtctg ttcataacat caacccatgt 3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtgcacaa 3181 gtcaggcgag ttctgtcgct tgcgattccc aaaaccaatc aggactgatg tgacgggcat 3241 gatcttagaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatta aaaggtccac 3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg 3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga 3421 cctgggtact acaccaggtg attgtggctg cccctatatc tacaagagag gtaatgacta 3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac 3541 ccaggggagt gaaggagagg ccacacttga aggtggcgac aacaagggga catactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag 3661 atcgtccaca gcgtcactcc cacctggcac ctatgaacca gcctatcttg gtggcaaaga 3721 ccctagagtc aagggtggcc cttcactaca gcaagtcatg agggagcagt tgaagccatt 3781 cacagagccc aggggcaagc caccaaaacc aagtgtgtta gaagctgcca agaagaccat 3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg 3901 tgcgtccctt gacaagacca cttccagtgg tcatccgcac cacatgcgga aaaacgactg 3961 ctggaacggg gagtccttca caggcaagct agcagaccag gcttccaagg ccaacctgat 4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt 4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctttggggct cggacttggc 4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacattg 4201 tgtcacactt cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga 4261 gaggcattcc aggtacacat atcactatga tgctgattac tctcgatggg attcaacaca 4321 acagagagct gtgttggcag cagctctaga aatcatggtt aaattctccc cagaaccaca 4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgattt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc agtggaactc 4501 catcgcccac tggctgctca ctctctgtgc gctctctgaa gtcacaaacc tgtcccctga 4561 taccatacag gctaactccc tcttctcctt ttatggtgat gatgaaattg ttagcacaga 4621 cataaaattg gatccagaaa aattgacagc aaagctcaga gaatatgggt taaaaccaac 4681 ccgccctgat aaaactgaag gacctctcgt catctctgaa gacctgaatg gcctaacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc 4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat 4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctcttca 4921 cggcccagca ttttacagca aaatcagcaa attggttatt gcagagctaa aagaaggtgg 4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagattt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg 5161 ttatggctct ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tgtcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctaa 5341 atccctacct atcccactta gctagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaattct cgcggggaac gcgttcaccg ctgggaagat catatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttaagcccca gccaggttac tatgttcccc catataatag 5521 tagatgttag acaactagaa cctgtgctga ttcccttacc cgatgtcagg aataatttct 5581 atcattacaa tcaatcaaat gactccacta ttaagttgat agcaatgttg tatacaccac 5641 ttagggctaa taatgctggg gacgatgtct tcacagtttc ttgccgagtt ctcacgagac 5701 catcccccga ttttgatttt atatttttag tgccacccac agttgagtca agaactaagc 5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt 5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggcaggt 5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc ccctgtcaac atctgcacct 5941 tcagagggga tgttagccac atcacaggta gtcgtaacta cacaatgaat ttggcttctc 6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga actccagatt 6061 ttgtggggaa gattcaaggc atgctcactc aaaccacaag ggcagatggt tcaacacgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc 6181 aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccgg 6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc 6301 caagttactc aggcagaaat actcacaatg tgcatctggc ccccgctgta gcccccactt 6361 ttccgggtga acaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag 6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg taagcttcac aaatcaggtt atgttacagt ggctcacact ggtcaacatg 6601 atttggttat tccccccaac ggttacttta ggtttgattc ctgggtcaac cagttctaca 6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt 6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttctctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcatc 6841 cttccaattt agcagcaatc tgcaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta aacaggcaat 6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat 7021 gacaaaagct ttggactgga gcgggacaag gtattgggct cccgatgcta ggactacaac 7081 atacaatgca ggccgctttt ccacccctca accatcgggg gcattgccag gaagagctaa 7141 tcttagggat gctgtccctg ctcggggtcc ctccagcaaa ttttctaact cttctactgc 7201 tacttctgtg tactcaaatc aaactatttc aacgaggctt ggttctacag ctggttctgg 7261 aaccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag 7321 taggaatttg tcacctttca tggggggggc ccacaacata tcgtttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttt //