Typing tool
|
Complete norovirus genomes
LC043167 | GII.17 | ||
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GII.P17 |
ORF1: 1..5092 ORF2: 5073..6689 ORF3: 6689..7468LOCUS LC043167 7534 bp RNA linear VRL 31-OCT-2015 DEFINITION Norovirus Hu/GII/JP/2013/GII.P17_GII.17/Saitama5203 genomic RNA, nearly complete genome. ACCESSION LC043167 VERSION LC043167.1 KEYWORDS . SOURCE Norovirus Hu/GII/JP/2013/GII.P17_GII.17/Saitama5203 ORGANISM Norovirus Hu/GII/JP/2013/GII.P17_GII.17/Saitama5203 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Matsushima,Y., Ishikawa,M., Shimizu,T., Komane,A., Kasuo,S., Shinohara,M., Nagasawa,K., Kimura,H., Ryo,A., Okabe,N., Haga,K., Doan,Y.H., Katayama,K. and Shimizu,H. TITLE Genetic analyses of GII.17 norovirus strains in diarrheal disease outbreaks from December 2014 to March 2015 in Japan reveal a novel polymerase sequence and amino acid substitutions in the capsid region JOURNAL Euro Surveill. 20 (26), 21173 (2015) PUBMED 26159307 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7534) AUTHORS Shimizu,H., Shinohara,M., Matsushima,Y., Ishikawa,M. and Shimizu,T. TITLE Direct Submission JOURNAL Submitted (07-APR-2015) Contact:Hideaki Shimizu Kawasaki City Institute for Public Health, Division of Virology; Tonomachi 3-25-13, Kawasaki-ku, Kawasaki, Kanagawa 210-0821, Japan FEATURES Location/Qualifiers source 1..7534 /organism="Norovirus Hu/GII/JP/2013/GII.P17_GII.17/Saitama5203" /mol_type="genomic RNA" /strain="Hu/GII/JP/2013/GII.P17_GII.17/Saitama5203" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1640678" /country="Japan: Saitama" /collection_date="2013" /note="genotype GII.P17_GII.17" gene <1..5092 /gene="POL" CDS <1..5092 /gene="POL" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BAR63714.1" /translation="DASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGARPKQPPP GETKQIQKPPRPPTPELVKRIPPPPPNGEDEPKIVYKVGEGVSGLPNLTTVAQPDAQN TAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAK IEITPLSLYWRVVYTPQYLIAPETLKNLGGETFPYTAFDNNCYAFCCWVLDLNDSWLS RRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRP LNILNVLATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAV ELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKE EANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA SPDIVGTINSLLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKK VASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLT LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKR DFPGQPDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGL LHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDEL KQAIKNISIKKCQIVYNGCTYTMESDGRSKVVVEKVQNATVQTNNELVGALHHLRSAR IRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDKGGCPKP RDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS EIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLF ITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVV SILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC PYIYKRGNDFVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNRGTYCGAPILGPGN APKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK PPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGE SFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTM IRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ QRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQW NSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYG LKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHE DPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMF RWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5073..6689 /gene="VP1" CDS 5073..6689 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BAR63715.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPSGICAFRGRVTAETDHRDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGV ASQRNVGNDAPGSTRAHEAVISTYSPQFVPKLGSVNFRSNDNDFQLQPTKFTPVGIND DGDHPFRQWELPDYSGLLTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIVDCL IPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6689..7468 /gene="VP2" CDS 6689..7468 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BAR63716.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVKATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVRMPSPNAPQSKPAKPRSLAPSSSSSSVYSMSTQST HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 cgacgcctcc gctgccgttg ctggcaaaaa caacaacaac gacaaggaga aatcttcaag 61 tgacagcttg ttttctaaca tgactgttac ttttaagaaa gccctcgggg cgcggcctaa 121 acaaccgccc ccgggagaaa caaaacaaat acaaaaacca ccaaggccac cgacaccgga 181 attggtgaag agaatacccc cacccccacc caatggcgag gatgaaccaa agatagtgta 241 taaggtggga gagggtgtgt ctgggctgcc caacctaaca actgtggcac agcctgacgc 301 acaaaacaca gcttatagtg ttcccccact tagccagaga gaagtcggcg aagctaaaga 361 accgctgcct ggctccattc tggaaatgtg ggatggtgag atctaccact atgggctgta 421 tgttgagcgg gggcatgtac tcggagtaca caaaccacct gctgcaataa gccttgccaa 481 aattgaaata acaccgctgt ctctctactg gagagtggtc tacacccccc agtatttgat 541 agctccagaa actcttaaga acttgggtgg agagactttc ccatacacgg cctttgacaa 601 caactgttat gccttctgtt gttgggtcct agacctcaac gactcctggc ttagcaggag 661 aatgatccaa agaacaactg gattcttcag accgtatcag gattggaaca gaaaaccctt 721 accaaccatg gatgaaccga aaatcaagaa ggccgcgaat gctgttctgt gcgctctctc 781 ctcactcttc actagaccca ttaaggacat cattggaaag cttagaccac tgaacattct 841 taatgtactg gcaacttgtg actggacttt tgcaggcata gtggaatcca tgatccttct 901 tgctgaactc tttggggtgt tctggacccc cccagatgtg tctgcgatga ttgctccctt 961 actcggtgac tacgagatgc aaggccccga agacctggcc gtggaacttg tgcccgtggt 1021 aatgggagga ataggtttgg tgttaggatt caccaaggaa aagatcggca agatgctttc 1081 atcagctgcg accacactta gggcctgcaa ggatctagga tcttatggat tggagatact 1141 caaattggtc atgaagtggt tcttccccaa gaaggaggag gctaacgaac tagccatggt 1201 gagggccatt gaggatgcag tcctggattt ggaggcaata gaaaacaatc acatgaccac 1261 ccttctcaag gataaagaca gcctggccac atacatgagg actcttgact tggaagaaga 1321 gaaagcaagg aaactgtcaa ccaaatcggc gtcacctgac atcgtgggta caataaactc 1381 attattggca aggatagcag ccgccaggtc actggtccac aaggctaagg aggagctctc 1441 gagcagacag agacctgttg ttgtaatgat atcaggtaga ccaggtatag gaaagaccca 1501 tctggccaga gagctagcca agaaagttgc gtcaacactg tcaggcgacc aaaggattgg 1561 actgatacct agaaatggcg tcgaccattg ggacgcctac aagggagaaa gggtggttct 1621 gtgggatgat tatggtatga gcaaccctat acaggacgca ctgaggctcc aagaattggc 1681 tgacacctgt cctctgaccc taaattgtga caggattgaa aacaaaggaa aagtgttcga 1741 cagtgatgcc ataattataa caaccaacct tgcaaaccca gcaccactag actatgtcaa 1801 ctttgaggcc tgctctagac gcatagactt cttggtgtat gcagacgcac ctgacatcga 1861 gaaggctaag cgtgatttcc ctggccaacc agatatgtgg aaagaccatt acagaccaga 1921 cttcacacac attaaacttc agctggcacc acagggaggt tttgacaaaa atggcaacac 1981 cccacatggc aaaggtgtgg tgaagtctct gacgattggt tctctgatcg ccagggcttc 2041 tggcttgctc cacgagagaa tggatgaatt cgagctccag ggctctgacc tgccaacctt 2101 caattttgac cgcaacaaag tcgccgcctt cagacaatta gcagctgaaa acaaatatgg 2161 tcttatggac acactgaggg tcggcaacca actgaaaagt gtcaagaccc tggatgagct 2221 gaagcaggcc ataaagaaca tcagtatcaa gaagtgccag atagtgtata acggatgcac 2281 ttataccatg gaatctgatg ggaggagcaa ggttgtggtt gaaaaggtac aaaacgcaac 2341 agttcaaacc aacaatgaac ttgtaggggc actccaccac ctgagatctg caaggataag 2401 atactatgtt aaatgtttcc aagaagccat ttactctcta ctccaaattg ctggtgcagc 2461 cttcgtcacc tcacgcatcg tgaggcgcat gaacatctca aacctctggt cgaagccacc 2521 catcgaggag ggtgatgagc ctgaagacaa aggaggatgc cccaagccca gggatgaaga 2581 tgacctcact attgactcta gagacattaa agtggaaggg aagaagggca agaacaagtc 2641 tggccggggc aagaaacaca cagccttctc atccaagggc ctcagtgatg aagagtacga 2701 tgagtacaag agaatcagag aggagaggaa tggcaaatac tcaatagagg aatacctcca 2761 agatagggac agatactatg aagagcttgc cattgctaag gccactgagg aggacttctg 2821 tgaagaggag gagatcaaaa tccgccagag aatcttccga cccaccagga agcagcggaa 2881 agaggaaagg gccacgcttg ggcttgtcac aggatcggag atcagaaaga ggaatccaga 2941 tgactttaaa ccaaaaggaa aattgtgggc tgatgacaac aggagcgtgg attacaatga 3001 gaggatagat tttgaggctc ccccgagtgt ttggtctagg atagtcaact ttggcacagg 3061 ctggggattc tgggtttctc caagtctctt tataacttca acacacgtca taccaaaagg 3121 aatcactgag gcctttggag tgcccataaa ccaaatccaa attcacaaat ctggagaatt 3181 ttgccgcttg cggtttccaa agccaatcag accagacgtg agtgggatga tcttggaaga 3241 gggtgcccct gaaggcactg ttgtgtctat tctcatcaaa aggacaacag gggagctgat 3301 gcctcttgca gtcagaatgg ggactcatgc cacaatgaaa atccaaggta gaacggtggg 3361 tggtcagatg ggtatgcttc tcactggctc aaatgctaaa agcatggatc taggcacaac 3421 gccaggtgac tgcgggtgtc catacatata caagaggggc aatgacttcg tggccattgg 3481 ggtgcacact gcagcagcac gtggaggcaa cacggtcata tgtgccacac agggaagtga 3541 aggtgaagcc actcttgaag gaggtgacaa caggggtacc tattgtggag cccccatttt 3601 gggacctggc aatgcaccaa aattgagcac aaaaactaaa ttctggagat cctctaacgc 3661 accgcttccc ccaggtactt atgaaccagc atacctcggt gggagagacc cgcgcgtgaa 3721 gggaggccca tctctgcaac aagttatgag agaccaactt aaacctttta cagagcccag 3781 agggaagcca ccaaacccaa atgtcctaga gtcagcaaag aagactatca tcaatgttct 3841 ggaacaaacc attgaccccc ctcaaaagtg gtcatatgcc caagcttgtg catccctcga 3901 caagacgacc tccagtggat acccgcacca cgtccggaag aatgactatt ggagtggtga 3961 gtccttcaca gggaaacttg cagaccaggc ttcaaaagca aatctcatgt atgaggaagg 4021 caagcacatg caaccagttt acaccgcagc actcaaagac gagctcgtga aaactgacaa 4081 aatttatggc aagatcaaga aaagactcct gtggggttct gacctctcca ccatgattcg 4141 atgtgccaga gcatttggtg gtctcatgga tgagctcaaa gcaaattgta ttacactccc 4201 tatcagagtt ggtatgaata tgaatgaaga cggtcccata atatttgaga aacattccag 4261 gtacaggtac cactatgatg ctgattactc ccgctgggac tccacacaac agcgggcagt 4321 gctggaagcg gcacttgaaa tcatggtgag attttctgct gagccacagc tggcacaaat 4381 agtggcagag gacctgctgt caccaagtgt ggttgatgtg ggcgatttca aaatcgctat 4441 caatgaaggc ctaccatctg gcgtgccttg cacctcacaa tggaattcta ttgcccactg 4501 gttactcacc ctgtgtgctc tttctgaagt gacaggacta ggtcctgaca tcatacaagc 4561 caactccatg tactctttct atggtgatga tgagattgtg agcacagaca taaaattgga 4621 cccagagaaa ttgaccgcaa agctcaaaga atatggcctt aaacccactc ggcccgacaa 4681 aactgagggg ccgctggtga ttagtgaaga cctgaatggg ttgactttcc tccgccgaac 4741 agtcacccgt gatccagcag gttggtttgg aaagttggac caaaactcca tcctcaggca 4801 gttgtactgg acaagaggac ccaaccatga agaccccagt gagaccatga taccacacgc 4861 acagagacct gtgcagctca tggcactact aggagaatcc tccctacatg gaccctcatt 4921 ttacagcaag gttagcaaac tggtcatatc tgaacttaaa gagggaggaa tggattttta 4981 tgtgcccaga caagagtcaa tgttcagatg gatgaggttc tcagatctaa gcacatggga 5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgaat gacgccgctc 5101 catctaatga tggtgctgct ggtctcgtac cagagggcaa caacgagacc cttcccctag 5161 aaccagttgc gggcgcagct atagccgcac ccgtcactgg ccaaaacaac ataattgacc 5221 cctggattag aacaaatttt gtgcaagcac caaatggaga gttcacagtg tcacccagaa 5281 actcccctgg agaaatttta ctaaacctag agttgggccc tgatttgaac ccttatttgg 5341 ctcatttatc aaggatgtac aatgggtatg ctggtggagt ggaagttcag gttctcctgg 5401 cagggaacgc gttcactgcc ggaaagatcc tcttcgccgc cgtcccgcca aatttcccag 5461 tggaattctt aagcccagcc cagattacaa tgctcccaca tttaatagta gatgtaagga 5521 ctcttgaacc aattatgatc ccactccctg atgttaggaa tacattcttc cattataaca 5581 accagcctaa cagccgcatg agattagtgg ctatgctcta cacccccctt agatctaatg 5641 gctcaggtga tgatgtcttt actgtctctt gcagggtttt gactaggcct actcctgatt 5701 ttgagttcac ttatttagtg ccaccttctg ttgaatctaa gactaagcct ttttccttac 5761 ctattttaac cctttctgag ctcacaaatt cgaggttccc agtccccatc gattcgcttt 5821 tcaccgccca gaataatgtg ttgcaggtgc agtgtcaaaa tggcaggtgc acacttgatg 5881 gtgagttaca aggcacaacc cagttgctcc catctggcat ctgtgcattc agaggacggg 5941 tgacagcaga aactgaccat cgtgacaagt ggcacatgca actgcaaaac ctcaatggca 6001 caacatatga cccaactgat gatgtgccag ccccgctggg tacacctgac ttcaagggcg 6061 tcgtgtttgg ggtagcaagc caaagaaatg tgggtaatga tgcgcctggc tcaaccaggg 6121 cccatgaggc ggtgatttca acctatagcc cccaatttgt ccccaaatta ggttctgtca 6181 attttagaag taatgataat gatttccaat tgcagccgac aaaattcaca ccagtgggca 6241 tcaatgacga tggtgaccac ccgttcagac aatgggaact accagactat tcagggctgc 6301 ttaccttgaa tatgaacctt gcccccccgg ttgctccaaa tttccctggt gaacaattat 6361 tattcttcag atcttttgtg ccatgctcag gaggttataa ccaaggcatt gtagattgtc 6421 ttatacccca agaatggatc caacacttct atcaggaatc agcgccctcc cagtcagacg 6481 tggccctaat caggtatgtt aaccccgaca cgggacgtac actgtttgaa gcaaaattgc 6541 acagatctgg ttacattact gtggctcact ctggagacta tcctcttgtt gttccggcta 6601 atggatactt tagatttgat tcttgggtaa atcagtttta ctcactcgcc ccaatgggaa 6661 ctgggaatgg gcgaaggagg gctcagtaat ggctggagct ttcattgcag gattggcagg 6721 cgacatgctc acgtcatctg tgggctccct ggtgaacgca ggggcaaacg ccatcaacca 6781 aaagatagac tttgaaaaca acaaacaact ccagtctgct tcctttcagc atgataaaga 6841 gatgctccaa gcgcaggtga aggcaaccaa gcagctgcaa tctgaaatga tagccctaaa 6901 acagggggtt ttggccgcag gcggcttttc ccccactgat gcagcaaggg gagccattgg 6961 tgcacccatg acaaaggtgc ttgactggtc tggcactcga tactgggcac ccaattccac 7021 aaagacaact ggttattcgg gacaattcac ctcttcacct gtgcgcatgc ctagcccaaa 7081 tgctccacaa tcaaaacctg caaagcctag gtctctagct ccttcctctt cttctagtag 7141 tgtctatagt atgtctactc aatcaactca tttaacatct ggctcttcta gtaatgcttc 7201 ttctgcctct acaaaattga caaacttaag ctctggctcc tctcaaaaca gaacagcaga 7261 gtgggtgaac caacagagaa gtcttagccc ttttatgagt ggcgcactca atatctcaca 7321 tgtcacgcca ccctcaagta gggcttccag ttctgggacg gtctcgaccg tgcccaagga 7381 agttttggac tcctggacgt ctgcgtttaa cacacacaga cagccgctct tcgcacacct 7441 cagagtgagg ggggagtcac gtgtttagtg aaaagaaata attggctata atgtgatttc 7501 ttttaaaatt tggctaattt gtatctttta aaaa //