Typing tool
|
Complete norovirus genomes
LC421227 | GII.4 Sydney | ||
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GII.P12 |
ORF1: 1..5049 ORF2: 5036..6652 ORF3: 6652..7386LOCUS LC421227 7386 bp RNA linear VRL 28-SEP-2018 DEFINITION Norovirus GII Hu/GII.P12-GII.4sydney_2012/330077/Tokyo/2017/ POL, VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1, small basic protein VP2, partial and complete cds. ACCESSION LC421227 VERSION LC421227.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Nagano,M., Somura,Y., Nagashima,M., Oda,M., Asakura,H., Yaoita,Y., Shinkai,T. and Sadamasu,K. TITLE A food poisoning outbreak by recombinant of norovirus GII.P12_GII.4 sydney_2012 in Tokyo JOURNAL Unpublished REFERENCE 2 (bases 1 to 7386) AUTHORS Oda,M., Nagashima,M., Somura,Y., Nagano,M., Asakura,H., Yoita,Y., Shinkai,T. and Sadamas,K. TITLE Direct Submission JOURNAL Submitted (23-AUG-2018) Contact:Mayuko Oda Tokyo Metropolitan Institute of Public Health, Department of Microbiology; 3-24-1 Hyakunincho, Shinjyuku-ku, Tokyo 169-0073, Japan FEATURES Location/Qualifiers source 1..7386 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.P12-GII.4sydney_2012/330077/Tokyo/2017/" /host="Homo sapiens" /db_xref="taxon:122929" /country="Japan:Tokyo" /collection_date="2017-12" /note="genotype: GII.P12_GII.4" gene <1..5049 /gene="POL" CDS <1..5049 /gene="POL" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BBG06454.1" /translation="NDNAKSSSDGVLSSMAVTFKRALGARQKQPPPREIPQRPPRPPT PELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVWQPDETNTAFSVPPLNQRENR DAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSLFWRPVY TPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLCRRMIQRTTGFFRPY QEWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKVRPLNILNILASCDWTF AGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYVLQGPEDLAVELVPVVMGGIGLVL GFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDA VLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLAR IAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLI PRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFD SDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFS SDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPT PTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTMSELKQALKNVAIKSCQI VYGGCTYRLESDGKGDVKVDRVQNATVQTNNELAGALHHLRCARIRYYVKCVQEALYS IIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEEIASKDGCPKPQDDEEFVVSSDDIK TEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEE VAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKG KLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAQEF FGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPTGELMPL AARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIG VHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSS TAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPKPSVLEAAKKTI VNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKAN LMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMEEL KAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVK FSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLLTLCALS EVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLV ISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIPHSQRPI QLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGD RNLAPSFVNEDGVE" gene 5036..6652 /gene="VP1" CDS 5036..6652 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BBG06455.1" /translation="MASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQQN VIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGGFE VQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPDVR NNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPPTV ESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTTQL SPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVLTQ TTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDGGT THRNEPQQWVLPSYSGRSTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLDCL LPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLVIP PNGYFRFDSWVNQFYTLAPMGNGTGRRRVL" gene 6652..>7386 /gene="VP2" CDS 6652..>7386 /gene="VP2" /codon_start=1 /product="small basic protein VP2" /protein_id="BBG06456.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGASPGRANLRDAVPARGPSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSSARTRSWVEDQNRNLSPFMRGVHNI SFVTPPSSRSSSQGTVSTVPKEILDSW" ORIGIN 1 aacgacaacg caaaatcttc aagtgacgga gtgctttcta gcatggctgt cacttttaaa 61 cgagccctcg gggcgcggca aaaacagcct cccccgaggg aaataccaca aaggcctcca 121 cggccaccca ccccagaact ggtcaaaaag atccctcctc ccccacccaa tggggaggat 181 gaactagtgg tctcttatag cgccaaagat ggcgtttctg gtttgcctga acttaccact 241 gtctggcaac cggatgagac caacacggcg ttcagtgttc cccctctcaa ccagagggag 301 aacagggacg ccaaggagcc gctgaccgga acaatcctgg aaatgtggga cggggagatc 361 tatcattatg gtctgtatgt ggagcgaggc cttgtacttg gtgtgcacaa accaccagct 421 gccatcagcc tcgccaaggt tgaactagca ccactctctc tgttttggag gccagtgtac 481 acaccacagt atctcatctc tccagacact cttaggagac tgcatggaga gtcgttcccc 541 tacacagcct ttgataacaa ctgctatgcc ttctgttgtt gggttctgga cctaaacgac 601 tcgtggttgt gcaggagaat gatccagaga acaactggct tcttcagacc ttaccaagaa 661 tggaacagga aacccctccc caccatggat gactctaaat tgaagaaggt agccaacata 721 ttcttgtgtg cgctatcttc gctattcact aggcccatca aagacataat aggaaaggtg 781 agaccgctca acatccttaa catcctggcc tcatgtgatt ggacttttgc aggcatagtg 841 gaatctttga tcctcttggc agagctcttt ggagttttct ggacaccccc agatgtgtct 901 gcgatgatcg cccccttact aggtgactac gtactgcagg ggcctgagga ccttgcagtg 961 gaactagtac cagtagtgat gggagggatt ggtttggtgt taggattcac caaagagaag 1021 atcggaaaaa tgttgtcatc cgctgcttcc accttaagag cttgtaaaga ccttggtgca 1081 tacgggctgg aaatcctaaa attggtcatg aaatggttct tcccaaagaa agaggaagca 1141 aatgagctag ctatggtgag gtccatcgag gatgcggtac tggacctcga agcaattgag 1201 aacaaccaca tgaccaccct cctcaaagac aaagacagct tggcaaccta catgaggacc 1261 cttgacctcg aggaggagaa agccaggaag ctttcaacca agtctgcttc acctgacatc 1321 gtgggcacaa ttaacgctct tctggcgaga atcgccgctg cacgttccct ggtgcatcgg 1381 gcgaaagagg aactctccag cagaccaaga cctgttgttg tcatgatatc aggtaggcca 1441 gggataggga aaactcacct tgccagggag ctggccaaga agatcgcagc ttcactcaca 1501 ggggaccagc gcgtgggtct catccctcgc aatggcgttg accactggga tgcatataag 1561 ggagaaagag tcgtcctatg ggacgattat ggaatgagca atcccatcca cgacgccctc 1621 aggttacagg aacttgctga cacctgcccc cttacgctaa actgtgacag gattgagaac 1681 aaaggaaagg tctttgacag tgatgccata atcatcacca ctaatctagc caacccagca 1741 ccattggact atgtcaactt tgaagcatgc tcgaggcgca ttgacttcct cgtgtacgca 1801 gaagcccctg aggtcgagaa agcaaagcgt gatttcccag gtcaacctga catgtggaag 1861 aacgcattta gctctgactt ctcgcacata aaactggcgc tggctccgca gggtggtttc 1921 gacaagaacg gaaacacccc acacgggaaa ggcgtcatga aaaccctcac cactggttcc 1981 ctcatcgccc gagcatcagg gctactccat gagaggttgg atgagtacga gctgcagggc 2041 ccaactccca ccacttttaa ttttgaccgc aacaaggtgc ttgcgttcag acaacttgct 2101 gccgaaaaca agtatggatt gttggacaca atgagagttg gaaaacagct caaggacgtt 2161 aagaccatgt cagagctcaa acaggcactc aagaatgtcg caatcaagag ttgtcagata 2221 gtgtatggtg gctgcaccta caggcttgag tctgatggca agggtgatgt aaaagttgac 2281 agagttcaga acgccactgt acagaccaac aatgagcttg ccggcgcatt acaccatctt 2341 aggtgcgcca gaatcagata ttatgtcaag tgtgttcagg aggccctgta ttccatcatc 2401 caaatcgctg gggctgcatt tgttaccaca cgcattgtca agcgcatgaa catacaagat 2461 ctctggtcca agccacaggt ggagaacaca gaggaaatcg ctagcaagga tgggtgccca 2521 aaaccccagg atgatgaaga gtttgttgtc tcatccgatg acatcaaaac cgagggcaag 2581 aaagggaaga acaagtctgg ccgtggcaag aagcacacag cattttcaag taaaggtctc 2641 agtgatgaag agtacgatga gtacaaaaga attagagaag aaagaaatgg caaatactcc 2701 atagaggaat acctccagga cagagacagg tattatgagg aggtggccat cgccagggca 2761 accgaagagg acttctgtga agaagaagag gctaagatcc gacagaggat cttcaggcca 2821 acaaggaaac aacgcaaaga ggagagagcc tctctcggtt tggtcacagg ttctgaaatc 2881 agaaagagga acccagacga cttcaagcct aaaggaaagc tgtgggctga tgatgacagg 2941 agtgttgact acaatgagag actcaacttt gaagccccac caagcatctg gtcgaggata 3001 gtcaactttg gctcaggttg gggcttttgg gtttccccta gcctgttcat aacatcaact 3061 catgtcatac cccagggcgc acaggagttc tttggtgtac ccatcaaaca aatccagata 3121 cacaaatcag gtgaattctg ccgcttgagg tttccaaagc cgatcagaac tgacgtgaca 3181 ggcatgatct tagaagaagg tgcacccgaa ggaaccgtgg tcacattact catcaaaaga 3241 ccaactggag agctcatgcc cctggcagcc agaatgggaa cccacgcaac catgaagata 3301 caagggcgca ctgttggagg tcaaatgggc atgctcctaa caggatccaa cgccaagagt 3361 atggacctgg gcaccacacc aggtgactgt ggctgcccct acatttacaa gagggggaat 3421 gactacgtgg tcattggggt ccatacagct gccgcccgtg gaggaaacac tgtcatttgt 3481 gccacccagg ggagcgaggg agaagccaca cttgaaggcg gtgatagcaa ggggacctac 3541 tgcggagcac caatcttagg tccaggaagt gccccaaaac tcagcaccaa gaccaagttc 3601 tggaggtcat ccacggcacc actcccacct ggtacctatg aaccagctta cctcggtggc 3661 aaggacccca gagttaaggg tggcccttca ctgcaacaag ttatgaggga tcaactgaaa 3721 ccattcactg agcctagggg taggccacca aaaccaagtg tgctagaagc tgccaagaaa 3781 accatcgtca atgtcttaga acagacaatt gacccacctc aaaaatggtc gtttgcgcag 3841 gcatgtgcat ccctagacaa gaccacttct agcggccatc cgcaccacat gcggaagaat 3901 gactgctgga acggggagtc cttcacagga aaattggcag accaggcttc caaggccaac 3961 ctgatgtttg aggagggaaa gaacatgacc ccagtttaca cgggtgcgct taaggacgag 4021 ctggtcaaga ctgacaagat ttatggtaag atcaaaaaga ggcttctctg gggttcggac 4081 ctggcgacca tgattcggtg cgctcgagca ttcgggggtc tgatggagga actcaaagca 4141 cattgcgtca cactacctgt tagggtgggt atgaatatga atgaggatgg ccctatcatc 4201 tttgagagac actccagata taaatatcat tatgatgctg actactcccg gtgggattca 4261 acacaacaaa gagccgtgtt ggcagcagcc ctagaaatca tggtcaagtt ttccccagag 4321 ccacacctgg cccaaaaggt tgcagaagac cttctttctc ccagcgtgat ggacgtgggt 4381 gatttcaaaa tatcaatcaa tgagggtctc ccctccggag tgccctgcac ctcccaatgg 4441 aattccatcg ctcactggct cctcactctc tgtgcactct ctgaggttac aaacctgtcc 4501 cctgacatta ttcaggctaa ctctctcttt tctttctacg gtgatgatga aattgtgagt 4561 acagacataa aattggatcc agaaaaactg acagcaaaac tcaaggaata cgggttgaaa 4621 ccgacccgcc ctgacaaaac tgaagggcct cttgtcattt ccgaagacct gaatggccta 4681 accttcctgc ggaggaccgt gactcgcgac ccagcaggct ggtttggaaa gttggaacag 4741 agctcaatac tcagacaaat gtactggact aggggcccca accatgagga tccatctgaa 4801 acaatgatac cacactccca gagacccata caattgatgt ctttgctggg tgaggcagca 4861 ctccacggcc cagcattcta cagcaaaatc agtaaactgg tcattgcaga gttgaaggag 4921 ggtggcatgg atttttacgt gccaagacaa gagccaatgt tcagatggat gagattctcg 4981 gatctgagca cgtgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc 5041 gtcgagtgac gccaacccat ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa 5101 tgaggttatg gctctggagc ccgttgttgg tgccgccatt gcggcacctg tagcgggcca 5161 acagaatgta attgacccct ggattagaaa taattttgta caagcccctg gtggagagtt 5221 cacagtatcc cctagaaacg ctccaggtga aatactatgg agcgcgcccc tgggccctga 5281 tctaaatccc tacctatccc atttggccag aatgtacaat ggttatgcag gtggttttga 5341 agtgcaggta attctcgcgg ggaacgcgtt caccgccggg aaggtcatat ttgcagcagt 5401 cccaccaaat tttccaactg aaggcttgag ccccagccag gtcaccatgt tcccccatat 5461 agtagtggat gttagacaac tagaacctgt gttgattccc ttacccgatg ttaggaataa 5521 tttctatcat tacaatcaat caaatgaccc caccattaag ttgatagcaa tgttatatac 5581 accacttagg gctaataatg ctggggatga tgtcttcaca gtttcctgcc gagttctcac 5641 gagaccatcc cccgattttg atttcatatt tctagtgcca cccacagttg agtcaagaac 5701 caaaccattc tctgtcccag ttttaactgt tgaggagatg accaattcaa gattccccat 5761 ccctttggaa aaattgttca cgggtcccag cagtgccttt gttgtccaac cacaaaacgg 5821 caggtgcacg actgatggcg tgctcctagg caccacccaa ctgtctcctg tcaacatctg 5881 caccttcaga ggagatgtca cccatatcac aggtagtcat aactacacaa tgaatttggc 5941 ttctcaaaat tggagcaatt atgacccaac agaagaaatc ccagcccctc taggaactcc 6001 agattttgtg gggaagattc agggcgtgct cacccaaacc acaaggacag atggctcaac 6061 acgcggccac aaagccacag tgtacactgg gagcgccgac tttgctccaa aactgggtag 6121 agttcaattt gaaactgaca caaaccatga ttttgaggct aaccaaaaca caaagttcac 6181 cccagttggt gtcatccaag atggtggcac cacccatcga aatgaacccc aacagtgggt 6241 gctcccaagt tactcaggca gaagtactcc caatgtgcat ctggctcccg ctgtagcccc 6301 cacttttccg ggtgagcaac ttctcttctt cagatccacc atgcccggat gcagcgggta 6361 ccccaacatg gatttggact gtctgctccc ccaggaatgg gtgcagtact tttaccaaga 6421 ggcggcccca gcacaatctg atgtggctct gctgagattt gtgaatccag acacaggtag 6481 ggttctgttt gagtgtaagc ttcataaatc aggctatgtt acagtggctc acactggtca 6541 acatgatttg gttattcccc ccaatggtta ttttaggttt gattcctggg tcaaccagtt 6601 ttacacgctt gcccccatgg gaaatggaac ggggcgtaga cgtgtactat aatggctgga 6661 gctttctttg ctggattggc atctgatgtc cttggctctg gacttggttc ccttatcaat 6721 gctggggctg gggccattaa ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa 6781 gcatccttcc aatttagcag caatctacaa caggcttcct ttcaacatga caaagagatg 6841 ctccaagcac aaattgaggc caccaaaagg ctacaacagg aaatgatgaa agttaagcag 6901 gcaatgctcc tggagggtgg attctctgag acagatgcag cccgcggggc aatcaacgcc 6961 cccatgacaa aagctttgga ctggagcggg acaagatact gggctcccga tgctaggact 7021 acaacataca atgcaggccg cttttccacc cctcaaccat cgggggcatc gccaggaaga 7081 gctaatctca gggatgctgt ccctgctcgg ggtccctcca gtaagtcttc taattcttct 7141 actgctactt ctgtgtactc aaatcaaaca acttcaacga gacttggttc tacagctggt 7201 tctggcacca gtgtctcgag cttcccgtca tctgcaagga ctaggagctg ggttgaggat 7261 caaaacagga atttatcacc tttcatgagg ggggtccaca acatatcgtt tgtcacccca 7321 ccatctagca gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac 7381 tcctgg //