Typing tool
|
Complete norovirus genomes
LC037415 | GII.17 | ||
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GII.P17 |
ORF1: 1..5107 ORF2: 5088..6710 ORF3: 6710..7489LOCUS LC037415 7555 bp RNA linear VRL 31-OCT-2015 DEFINITION Norovirus Hu/GII/JP/2015/GII.P17_GII.17/Kawasaki308 genomic RNA, nearly complete genome. ACCESSION LC037415 VERSION LC037415.1 KEYWORDS . SOURCE Norovirus Hu/GII/JP/2015/GII.P17_GII.17/Kawasaki308 ORGANISM Norovirus Hu/GII/JP/2015/GII.P17_GII.17/Kawasaki308 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 7555) AUTHORS Shimizu,H., Matsushima,Y., Ishikawa,M. and Shimizu,T. TITLE Direct Submission JOURNAL Submitted (24-MAR-2015) Contact:Hideaki Shimizu Kawasaki City Institute for Public Health, Division of Virology; 3-25-13 Tonomachi, Kawasaki-ku, Kawasaki, Kanagawa 210-0821, Japan FEATURES Location/Qualifiers source 1..7555 /organism="Norovirus Hu/GII/JP/2015/GII.P17_GII.17/Kawasaki308" /mol_type="genomic RNA" /strain="Hu/GII/JP/2015/GII.P17_GII.17/Kawasaki308" /isolation_source="Feces" /host="Homo sapiens" /db_xref="taxon:1634342" /country="Japan: Kanagawa, Kawasaki City" /collection_date="2015" /note="genotype GII.P17_GII.17" gene <1..5107 /gene="POL" CDS <1..5107 /gene="POL" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BAR42288.1" /translation="KMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARS KQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQ PDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAA ISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCDAFCCWVLDLN DSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDII GKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKL STKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR ELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI EKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIA RASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVK TLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHH LRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRG GCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAP EGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP GDCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPI LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFT EPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKND YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS DLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSR WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVP CTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAK LKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTR GPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPR QESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5088..6710 /gene="VP1" CDS 5088..6710 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BAR42289.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6710..7489 /gene="VP2" CDS 6710..7489 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BAR42290.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST HLTSGSSSNASSASTKLTSLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 gaagatggcg tctaacgacg cttccgctgc cgttgctggc aaaaacaaca acaacgacaa 61 ggaaaaatct tcaagcgaca gcttgtttgc taacatgtct gtcactttta agaaagccct 121 cggggcgcgg tctaaacaac cgcccccggg agaaacaaaa caaatacaaa aaccaccaag 181 gccaccgaca ccggaattgg tgaagagaat acctccaccc ccacccaatg gcgaggatga 241 accagggata gtgtacaagg tgggagaggg tgtgtctggg ctgcccgacc taacaactgt 301 ggtacaacct gacgcacaaa acacagctta tagtgttccc ccacttagcc agagagaagt 361 cggcgaagct aaagaaccgc tgcctggctc cattcttgaa atgtgggatg gtgagatcta 421 ccactatggg ctgtatgttg agcgggggca tgtgctcgga gtacacaaac cacctgctgc 481 aataagcctt gccaaaattg aaataacacc gctgtctctc tactggagag tggtctacac 541 tccccagtat ttgatagatc caggaactct taagaacttg agtggagaga ctttcccata 601 cacggccttt gacaacaact gtgatgcctt ctgttgttgg gtcctagacc tcaacgactc 661 ctggcttagc aggagaatga tccaaagaac aactggattc ttcaaacctt atcaggattg 721 gaacagaaaa cccttaccaa ccatggatga accgaaaatc aagaaggccg cgaatgctgt 781 cctatgcgct ctctcctcac tcttcactag acccattaag gacatcattg gaaagcttag 841 accactgaac attcttaata tactggcaac ctgcgattgg acttttgcag gcatagtgga 901 atccttgatc cttcttgctg aactctttgg ggtgttctgg acacccccag atgtgtctgc 961 gatgattgct cccttactcg gtgactacga gatgcaaggc cccgaagacc tggccgtgga 1021 acttgtgccc gtggtgatgg gaggaatagg tttggtgtta ggattcacca aagaaaagat 1081 cggcaagatg ctttcatcag ctgcgaccac acttagggcc tgcaaggatc taggatctta 1141 tggattggag atactcaaat tggtcatgaa gtggttcttc cccaagaagg aggaggctaa 1201 cgaactagcc atggtgaggg ccattgagga tgcagtcctg gatttggagg caatagaaaa 1261 caatcacatg accacccttc tcaaggataa agacagcctg gccacataca tgaggactct 1321 tgacttggaa gaagagaaag caaggaaact gtcaaccaaa tcggcgtcac ctgatatcgt 1381 gggtacaata aacgcattat tggctaggat agcagccgcc aggtcactgg tccacaaggc 1441 taaggaggag ctctcgagca gacagagacc tgttgttgta atgatatcag gtagaccagg 1501 tataggaaag acccatctgg ccagagagct agccaagaaa gttgcgtcaa cactgtcagg 1561 cgaccaaagg attggactgg tacctagaaa tggcgtcgac cattgggacg cctacaaggg 1621 agaaagggtg gtcctgtggg atgattatgg tatgagcaac cctatacagg acgcactgag 1681 gctccaagaa ttggctgaca cctgtcctct gaccctaaat tgtgatagga ttgaaaacaa 1741 aggaaaagtg ttcgacagtg atgccataat tataacaacc aaccttgcaa acccagcacc 1801 actagactat gtcaactttg aggcctgctc tagacgcata gacttcttgg tgtatgcaga 1861 cgcacctgac attgagaagg ctaagcgtga cttccctggc caaccagata tgtggaaaga 1921 ccatttcaga ccagacttct cacacattaa gcttcagctg gcaccacagg gaggttttga 1981 caaaaatggc aacaccccac atggcaaagg tgtggtgaag tccctgacga ttggttctct 2041 gatcgccagg gcctccggct tgctccacga gagaatggat gaattcgagc tccaaggctc 2101 tgacctgcca accttcaatt ttgaccgcaa caaagtcgcc gccttcagac aattagcagc 2161 tgaaaacaaa tatggtctta tggacacatt gagggtcggc aaccaactga aaagtgttaa 2221 gaccctggat gagctgaagc aggccataaa gaacatcagt atcaagaagt gtcagatagt 2281 gtataatgga tgcacctata ccatggaatc tgatgggagg ggcaaggttg tggttgaaaa 2341 ggtacaaaac gcaacagttc aaaccaacaa tgaacttgta ggggcgctcc accacctgag 2401 atctgcaagg ataagatact atgttaaatg tttccaagaa gccatttact ctctactcca 2461 aattgctggt gcagccttcg tcacctcacg catcgtgagg cgcatgaaca tatcaaacct 2521 ctggtcgaag ccacccatcg aggagggtga tgagcctgaa gacagaggag gatgccccaa 2581 gcccagggat gaagatgacc tcactattga ctctagagac attaaagtgg aagggaagaa 2641 gggcaagaac aagtctggcc ggggcaagaa acacacagcc ttctcttcca agggcctcag 2701 tgatgaagag tacgatgagt acaagagaat cagagaggag aggaatggca aatactcaat 2761 agaggaatac ctccaagata gggacagata ctatgaagag cttgccattg ctaaggccac 2821 tgaggaggac ttctgtgagg aggaggagat caaaatccgc cagagaatct tccgacccac 2881 caggaagcag cggaaagagg aaagggccac gcttgggctt gtcacaggat cggaaatcag 2941 aaagaggaat ccagatgact ttaaaccaaa aggaaaattg tgggctgatg acaacaggag 3001 cgtggattac aatgagagga tagattttga ggctcccccg agtgtttggt ctaggatagt 3061 caactttggc acaggctggg gattctgggt ttctccaagt ctctttataa cttcaacaca 3121 cgtcatacca aaaggaatca ctgaggcctt tggagtgccc ataaaccaaa tccaaattca 3181 caaatctgga gaattttgcc gcttgcggtt tccaaagcca attagaccag acgtgagtgg 3241 gatgatcttg gaagagggcg cccctgaagg cactgttgtg tctattctca tcaaaaggac 3301 aacaggggag ctgatgcctc ttgcagtcag aatggggact catgccacaa tgaaaatcca 3361 aggtagaacg gtgggtggtc agatgggtat gcttctcact ggctcaaatg ctaaaagcat 3421 ggatctaggc acaacgccag gtgactgcgg atgtccatac atatacaaaa ggggcaatga 3481 ccttgtggtc attggggtgc acactgcagc agctcgtgga ggcaacacgg tcatatgtgc 3541 cacacaggga agtgaaggtg aagccactct tgaaggaggt gacaacaagg gtacctattg 3601 tggagccccc attttgggac ctggcaatgc accaaaattg agcacaaaga caaaattctg 3661 gagatcctct aacgcaccgc ttcccccagg tacttatgaa ccagcatacc ttggtgggag 3721 agacccgcgc gtgaagggag gcccatctct gcaacaagtt atgagagacc aacttaaacc 3781 ttttacagag cccagaggga agccaccaaa cccaaatgtc ttagagtcag caaagaagac 3841 tatcatcaat gttctggaac aaaccattga cccccctcaa aagtggtcat atgcccaagc 3901 ttgtgcatcc ctcgacaaga caacctccag tggatacccg caccacgtcc ggaagaatga 3961 ctattggagt ggtgaatcct tcacaggaaa acttgcagat caggcttcaa aagcaaatct 4021 catgtatgag gaaggcaagc acatgcaacc agtttacacc gcagcactca aagacgagct 4081 cgtgaaaact gacaaaattt atggcaaaat caagaaaaga ctcctgtggg gttctgacct 4141 ctccacaatg atccgatgcg ccagagcatt tggtggtctc atggatgaat tcaaagcaaa 4201 ttgtattaca ctccctatca gagttggtat gaatatgaat gaagatggtc ccataatatt 4261 tgagaaacac tccaggtaca ggtaccacta tgatgctgat tactcccgct gggactccac 4321 acaacagcgg gcagtgctgg aagcggcact tgaaatcatg gtgagatttt ctgctgagcc 4381 acagctggca caaatagtgg cagaggacct gctgtcacca agtgtggttg atgtgggcga 4441 tttcaaaatc gctatcaatg aaggcctacc atctggcgtg ccttgcacct cacaatggaa 4501 ttctattgcc cattggttac ttaccttgtg tgccctttct gaagtgacag gattaggtcc 4561 tgacatcata caagctaact ccatgtactc tttctatggt gatgatgaga ttgtgagcac 4621 agacataaaa ttggacccag agaaattgac cgcaaagctc aaagaatatg gccttaaacc 4681 cactcggccc gacaaaactg aggggccgtt ggtgattagt gaggacctga atgggttgac 4741 tttcctccgc cgaacagtca cccgtgatcc agcaggttgg tttggaaagt tggaccaaaa 4801 ctccatcctc aggcagttgt actggacaag aggacccaac catgaagacc ccagtgagac 4861 catgatacca cacgcacaaa gacctgtgca gctcatggca ctactaggag aatcttccct 4921 acatggaccc tcattttaca gcaaggttag caaattagtc atatctgaac ttaaagaggg 4981 aggaatggat ttttatgtgc ccagacaaga gtcaatgttc agatggatga ggttctcaga 5041 tctaagcaca tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt 5101 cgaatgacgc cgctccatct aatgatggtg ctgctggtct cgtaccagag ggcaacaacg 5161 agacccttcc cctagaacca gttgcgggcg cagctatagc cgcacccgtc actggccaaa 5221 ataatataat tgacccctgg attagaacaa attttgtgca agcaccaaat ggagagttca 5281 cagtgtcacc cagaaactct cctggagaaa ttttattaaa tttagagttg ggccctgatt 5341 tgaaccctta tttggctcat ttgtcaagga tgtacaatgg gtatgctggt ggagtggaag 5401 ttcaggttct cctggcaggg aacgcgttca ctgccggaaa gatcctcttc gccgccgtcc 5461 cgccaaattt cccagtggaa ttcttaagcc cggcccagat cacaatgctc ccacatttaa 5521 tagtagatgt taggactctt gaaccaatta tgatcccact ccctgatgtt aggaatacat 5581 tcttccatta tagtaaccag cctaacagcc gcatgagatt agtggctatg ctctataccc 5641 cactcagatc taatggctca ggtgatgatg tctttactgt ctcttgcagg gttttgacta 5701 ggcctactcc tgattttgag ttcacttatt tagtgccacc ttctgttgaa tctaaaacta 5761 agcctttttc cttacctatt ttaacccttt ctgagctcac aaattcgagg tttccagtcc 5821 ccatcgattc gcttttcacc gcccagaata atgtgttgca ggtgcagtgt caaaatggca 5881 ggtgtacact tgatggtgag ttacaaggca caacccagtt gctcccaact ggcatctgtg 5941 cattcagagg acgggtgaca gcacaaatta accaacgtga caggtggcac atgcaactgc 6001 aaaacctcaa tggtacaaca tatgacccaa ctgatgatgt gccagccccg ctgggtacac 6061 ctgacttcaa gggcgtcgtg tttgggatgg taagccaaag aaatgtgggt aatgatgcgc 6121 ctggctcaac cagagcccaa caggcgtggg tttcaaccta tagcccccaa tttgtcccca 6181 aattaggttc tgtcaatctt agaattagtg ataatgatga tttccaattc cagccgacaa 6241 aattcacacc agtgggcgtc aatgatgacg atgatggcca cccgttcaga caatgggaac 6301 taccaaacta ttcaggggag cttaccttga atatgaatct tgccccccca gttgctccaa 6361 attttcctgg tgaacaattg ttattcttca gatctttcgt gccatgctca ggaggttaca 6421 accaaggtat tatagattgt cttattcccc aagaatggat ccaacacttc tatcaggaat 6481 cagcaccctc ccagtcagac gtggccctaa tcaggtatgt caaccccgat acgggacgta 6541 cactgtttga agcaaaattg cacagatctg gttacattac tgtggctcac tctggagact 6601 atcctcttgt tgttccggct aatggacact ttagatttga ttcttgggta aatcagtttt 6661 actcactcgc cccaatggga actgggaatg ggcgaaggag ggctcagtaa tggctggggc 6721 tttcattgca ggattggcag gcgacatgct cacgtcatct gtgggctccc ttgtgaacgc 6781 aggggcaaac gccatcaacc aaaagataga ctttgaaaac aacaaacaac tccagtctgc 6841 ttcctttcag catgataaag agatgctcca agcgcaggtg agggcaacca agcagctgca 6901 atctgaaatg atagccctaa aacagggggt tttggccgca ggcggctttt cccccactga 6961 tgcagcaagg ggatccattg gtgcacccat gacaaaggtg cttgactggt ctggcactcg 7021 atactgggcg cccaattcca caaagacaac tggctattcg ggacaattca cctcttcacc 7081 tgtgcatatg tctagcccaa atgctccaca atcaaaacct gcaaagccta ggtctctagc 7141 tccttcctct tcttctagca gtgtctatag tatgtatact caatctactc atttaacatc 7201 tggctcttct agtaatgctt cttctgcctc cacaaaattg acaagtttaa gctctggctc 7261 ctctcaaaac agaacggcag agtgggtaaa tcaacagaga agtcttagcc ctttcatgag 7321 tggcgcactt aacatctcac atgtcacgcc accctcaagt agggcttcca gttctgggac 7381 ggtctcgacc gtgcccaagg aagttttgga ctcctggacg tctgcgttta acacacacag 7441 acagccgctc ttcgcacacc tcagagtgag gggggagtca cgtgtttagt gaaaagaaat 7501 aattggctat aatgtgattt ctttctaaat ttggctaatt tgtatctttt aaaaa //