Typing tool
|
Complete norovirus genomes
LC209471 | GII.2 | ||
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GII.P16 |
ORF1: 1..5087 ORF2: 5068..6696 ORF3: 6696..7475LOCUS LC209471 7514 bp RNA linear VRL 14-DEC-2017 DEFINITION Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Hiroshima-26 RNA, nearly complete genome. ACCESSION LC209471 VERSION LC209471.1 KEYWORDS . SOURCE Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Hiroshima-26 ORGANISM Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Hiroshima-26 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Mizukoshi,F., Nagasawa,K., Doan,Y.H., Haga,K., Yoshizumi,S., Ueki,Y., Shinohara,M., Ishikawa,M., Sakon,N., Shigemoto,N., Okamoto-Nakagawa,R., Ochi,A., Murakami,K., Ryo,A., Suzuki,Y., Katayama,K. and Kimura,H. TITLE Molecular Evolution of the RNA-Dependent RNA Polymerase and Capsid Genes of Human Norovirus Genotype GII.2 in Japan during 2004-2015 JOURNAL Front Microbiol 8, 705 (2017) PUBMED 28487679 REMARK DOI:10.3389/fmicb.2017.00705 Publication Status: Online-Only REFERENCE 2 (bases 1 to 7514) AUTHORS Mizukoshi,F., Matsushima,Y., Ishikawa,M. and Kimura,H. TITLE Direct Submission JOURNAL Submitted (12-JAN-2017) Contact:Mariko Ishikawa 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..7514 /organism="Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Hiroshima-26" /mol_type="genomic RNA" /strain="Hu/GII/JP/2011/GII.P16_GII.2/Hiroshima-26" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1934297" /country="Japan: Hiroshima" /collection_date="2011" /note="genotype: GII.P16_GII.2" gene <1..5087 /gene="POL" CDS <1..5087 /gene="POL" /codon_start=3 /product="nonstructural polyprotein" /protein_id="BBB87031.1" /translation="SNDANVAVAYNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQSA PRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQPDVAN TAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAK VELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLN RRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKP LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLENYELQGPEDLAV ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE EANELAMVRAIEDAVLDLEAIENNHMTPLLKDKDSLATYMKTLDMEEEKARRLSTKSA SPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARK VASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLT LNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR DFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL LHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEEL KQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHHLKHAR IRYYVRCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEEAPKSE DDEFIISSKDIKEEGKKGKNKTGRGRKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE EYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTGSEI RKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFIT STHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATV LIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPY IYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAP KLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPP RPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETF TGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLSTMIR CARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQR AVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNS IAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKEYGLK PTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDP NETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRW MRFSDLSTWEGDRNLAPNFVNEDGVE" gene 5068..6696 /gene="VP1" CDS 5068..6696 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BBB87032.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLSLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6696..7475 /gene="VP2" CDS 6696..7475 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BBB87033.1" /translation="MAGAFMAGLAGDVLSNGLSSLINAGANVINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPGSMRTTSYSGKFTSIAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGAASSNSTRSTGLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESHA" ORIGIN 1 cgtctaacga cgctaacgtt gccgttgctt acaacaacaa caacgacaag gaaaaatctt 61 caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc ggggcccggc 121 ccaaacagtc cgccccgagg gacaactcac aaaagccccc aagaccacca actcccgagt 181 tggttaagag gataccccct cccccaccta atggtgaaga agaagagcca gtcattaggt 241 atgaggttaa gagtgggatc tctggcctgc ccgagctcac aacagtcccc caaccggatg 301 tggccaacac ggcattcagt gtcccaccgc tgagcttgag agaaaacagg gaggccaagg 361 aaccgctgac aggggcaata ttagagatgt gggatggaga gatataccac tatggcctgt 421 acgtggagaa aggcttagtg ttgggtgtgc acaaaccacc tgcagctata agcatggcaa 481 aagtggagct gacgccgttg tcattgtact ggcgtgtggt ctacaccccc caatacctca 541 tctcccctga aactctcagg aggctcaacg gagaggcatt cccttacacc gcctttgaca 601 acaattgcta tgccttttgc tgctgggtat tagacctcaa tgactcatgg cttaacagga 661 ggatggtaca aagaacaaca ggcttcttca gaccttacca agagtggaac agaaaacccc 721 tgcctactat ggatgactcc aaaatcaaga aggtggcaaa catattcctg tgttcattgt 781 ccacgttgtt caccagacct ataaaagacc tcataggaaa aattaaacca ttaaacatct 841 tgaacatcct ggcaacgtgt gactggacat tcgccggaat agtggagtct ctgatattac 901 ttgctgaact ctttggagtt ttctggacac ccccagatgt gtctgctatg atcgctccct 961 tacttgaaaa ctacgagttg caagggccag aagacctcgc cgttgagctc gtacctgtgg 1021 taatgggagg gattggtttg gtgttggggt tcaccaaaga gaaaattggc aaaatgttgt 1081 cctcagcagc atcaacactc agggcttgta aggatcttgg tgcctatggc ttagagatac 1141 tcaaattggt catgaagtgg ttcttcccaa agaaagaaga ggccaatgag ctagccatgg 1201 tgagagctat agaggatgct gtgttggatc ttgaggcaat agaaaataat cacatgacac 1261 ctctgttgaa agacaaagac agcctagcaa cctacatgaa aacactagac atggaagagg 1321 agaaagccag aagattgtcc acaaagtctg catcccctga catagttggg acgatcaacg 1381 ccctgctggc tcgaatagca gcggctaggt cattagtcca cagggccaag gaggagttgt 1441 ctagcaggat aagaccagta gttgttatga tatctggcaa accagggata ggtaaaactc 1501 atttggccag ggaggtggca agaaaggtgg catccactct cacaggggat caaagagtcg 1561 ggctcatacc gagaaacggt gtggaccact gggatgcata caaaggtgag agagtcgtgc 1621 tgtgggacga ctatggcatg agcaacccca ttcatgatgc tttgcgcata caagaattgg 1681 ctgatacgtg tccccttacc ttaaattgcg acagaattga gaataaggga aaagtctttg 1741 acagtgaagt cataataatt acaacaaacc ttgccaatcc agctccactt gattatgtca 1801 actttgaggc ctgttccagg agaattgatt tcctggtgta cgccgaggca ccagaagtag 1861 aaaaggctaa acgagacttt cctggtcaac cagatatgtg gaaggacgcc ttcaagtcgg 1921 acttttcaca tatcaagttg caacttgcac ctcagggcgg ctttgacaag aatggtaaca 1981 ccccacatgg gaaaggagtg atgaagaccc tcaccaccgg ttccctgatt gcccgtgcat 2041 caggcttact gcatgagagg atggatgaat ttgaactcca aggccccaca gttaccacct 2101 tcaatttcga ccggaacaga atcaccgcat tcagacaatt ggccgcagaa aacaagtatg 2161 ggttggtgga caccatgaga gttggcaatc aattaaaagg ggtgaaaacc atggaagaac 2221 tcaaacaagc aatcaagaat gtgatcatca agaggtgccg gatcatctac ggtggctcca 2281 cgtatgacct tgaatctgat ggcaagggca aagttttggt ggaaaaggtt aagaacacct 2341 ctatacagac caacaacgag ttggctggag ccctgcatca cctcaaacat gcccgaatca 2401 ggtattatgt cagatgtgtg caagaagcag tttactctat catacaaatt gccggcgctg 2461 cgtttgtcac cacacgcatt gcacgccgca tgaacataca agagctttgg tcgaagccac 2521 cattagacca aaatgaatca gaggctaagg aagaggcccc caagtcagaa gatgacgagt 2581 tcatcatatc ttctaaggac atcaaggagg aaggaaagaa gggcaaaaac aaaactggcc 2641 gtggcaggaa acacactgca ttctctagca agggcttgag cgatgaggag tatgacgagt 2701 acaagaggat aagagaagag agaaatggga agtactctat agaggagtat cttcaagaca 2761 gagacaggta ctatgaggaa ctcgccatcg ccaaggccac ggaagaagac ttctgtgagg 2821 aggaggaggt caaaatccgt cagaggatct tccgtcccac caggaaacaa aggaaggaag 2881 agagggctac actaggacta gtaactggtt cagaaatcag aaaaagaaac cctgatgact 2941 tcaaacctaa agggaaactg tgggccgatg acaacagaag tgttgactac aatgagaaac 3001 tggactttga ggccccccca agcatatggt ctaggattgt gagttttggt tctggttggg 3061 gcttctgggt atcaccaagc ctgttcataa catcaactca tgtaatccct gcaggcataa 3121 cagaggcatt tggagtcccc atcaaacaaa tccaggtcca caaatcaggt gaattttgcc 3181 ggttcagatt cccaaaacca attagaccag atgtgacagg aatgatattg gaagaaggtg 3241 cgcctgaggg caccgtggca accgtactca tcaaacgccc taccggagag ctcatgcccc 3301 ttgcagccag aatggggaca cacgcaacca tgaagattca aggccgcatg gttggcggac 3361 agatgggtat gttgctcact ggttcaaatg ctaaaggaat ggatttggga acaactcctg 3421 gtgattgtgg ctgtccctac atctacaaaa ggggcaatga ctatatagtc attggggtgc 3481 acacagcagc agcccgtggt ggaaacaccg tcatctgtgc cacacaggga agtgagggtg 3541 aggcaactct tgagggtgga gatgacaaag gaacatactg tggagcaccc attctaggcc 3601 ccgggggggc accaaaattg agcaccaaaa ccaaattttg gaggtcatcg aacacgcctc 3661 ttccaccagg gacatatgag cctgcctacc tcggtggccg tgacccgcgt gttaagggtg 3721 ggccctcctt gcagcaggta atgagagacc agttgaaacc attcactgaa cccaggggta 3781 aacctccaag accaagtgtg ttggaggcag ccaaacaaac catcatcaat gtcctcgaac 3841 aaaccctgga ccctccacaa aaatggacat acgcacaggc gtgtgcttca cttgacaaaa 3901 ccacctccag cgggcatccc caccacgtcc gaaagaatga attctggaat ggtgagacct 3961 tcactggtaa attggcagac caagcatcaa aagcaaatct gatgtttgag gaagggaaac 4021 acatgacacc agtgtataca gcagccctca aggacgagct ggtcaagact gacaaagtct 4081 atggaaagat caagaagaga ctgctctggg gctctgattt gtccaccatg atccggtgcg 4141 ccaggtcctt tggtgggctt atggatgaga tgaaggcaca ctgcatatca ctcccagtcc 4201 gagttggcat gaacatgaac gaagatggtc caataatatt tgagaagcac tccagataca 4261 agtaccacta tgatgcagac tactcccgct gggattcaac acaacagagg gcagtactag 4321 cagcagcctt ggaaatcatg gtcaggttct ctgcagagcc acaattggca cagatagtcg 4381 ctgaggatct gctggccccc agtgtggtag atgtaggaga ctttaaaatt tcaataaatg 4441 aggggctccc ctctggtgta ccatgcactt ctcaatggaa ttccatcgca cactggctgc 4501 taaccctctg tgccttgtct gaagtcacca aactgtcccc tgacattgta caggcaaatt 4561 ccatgttctc attttacggt gatgacgaga ttgtcagcac cgatataaaa ttggaccctg 4621 aaaagttaac caccaaattg aaggagtatg gcctgaaacc aactcgccca gacaaaaccg 4681 agggacccct gatcatcagt gaggatttga atggactcac tttcctccgg aggacggtga 4741 ctcgtgaccc agctggctgg tttggaaaat tggaccaaag ctcaatattg aggcagatgt 4801 actggactag aggaccaaat catgaagacc ccaatgagac aatgataccc cactctcaaa 4861 gacccataca gctcatggca ctgcttggtg aggcctccct tcacggaccc tctttctaca 4921 gcaaaatcag taaattggtc ataactgaac tcaaagaagg tgggatggac ttttacgtgc 4981 caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg tgggagggcg 5041 atcgcaatct ggctcccaat tttgtgaatg aagatggcgt cgaatgacgc cgctccatct 5101 actgatggtg cagccggcct cgtgccagaa agtaacaatg aggtcatggc tcttgaaccc 5161 gtggctggtg ccgccttggc agcaccggtc accggtcaaa caaatattat agacccttgg 5221 attagagcaa attttgtcca ggcccccaat ggcgaattta cagtctctcc ccgtaatgcc 5281 cctggtgaag tgctattaag tctagaattg ggtccagaat taaatcctta tctggcacat 5341 ttagcaagaa tgtacaacgg gtatgccggt gggatggagg tgcaggtcat gttggctggg 5401 aatgcgttca cagccggcaa gttggtcttc gccgctgtgc cacctcactt cccggttgaa 5461 aaccttagcc cacagcaaat taccatgttc cctcatgtga ttatagatgt aaggaccttg 5521 gaacctgttt tattaccact ccctgatgtt aggaataatt tcttccatta taatcagaaa 5581 gatgatccca aaatgagaat tgtggctatg ctttataccc cccttagatc taatggttca 5641 ggtgatgatg tgttcacagt ttcctgcagg gtgttgacca gaccctcccc tgatttcgat 5701 ttcacatatc tggtgccacc aacagtggaa tctaaaacaa aaccattcac cctcccaatc 5761 ctcacacttg gggaactttc caattctagg ttcccagtgt ccatagacca gatgtacacc 5821 agccctaatg aagttatatc agtgcagtgt caaaatggta ggtgcacatt ggacggggaa 5881 cttcaaggga caacacaact ccaagtcagt ggcatttgtg ctttcaaggg ggaagtgacc 5941 gcccatttgc atgacaatga tcacctatac aatgtcacca tcacaaactt gaatgggtcc 6001 ccttttgacc cctccgagga cgttcctgcc cctctgggcg tgcctgattt ccagggaagg 6061 gtctttggta ttatctccca aagagacaaa cataatagcc ctgggcataa tgaaccagca 6121 aacaggggac acgacgctgt ggtccctact tacacagcac agtacactcc aaaattgggc 6181 cagattcaaa ttggcacatg gcagaccgat gatcttacag tcaaccaacc agtcaaattc 6241 accccagttg gactcaatga cactgaacat tttaatcaat gggtggtccc cagatacgct 6301 ggtgccctaa acctcaacac aaaccttgcc ccttctgttg ctccggtatt tccaggggag 6361 cgcctgcttt tctttagatc atacgttccc ctcaagggtg gttatggaaa tccagccatt 6421 gattgcctat taccacaaga gtgggtgcaa cacttctatc aggaagctgc cccatcaatg 6481 agtgaggtgg cccttgtcag gtacatcaac ccggatactg gtcgggcact gtttgaggcc 6541 aagctccaca gagctggttt catgacagtc tcgagcaaca ccagtgcccc ggtggttgtg 6601 cctgccaatg ggtacttcag atttgactct tgggttaatc aattctattc tctcgccccc 6661 atgggaactg gaaatgggcg tagaagggtt caataatggc tggagctttt atggctggtc 6721 ttgcagggga cgtgctcagc aatgggctca gttcattaat taatgcaggt gctaatgtaa 6781 taaatcagag ggcagaattt gattttaatc agaaattaca gcaaaattct ttcaatcatg 6841 ataaggagat gttgcaggcc cagattcagg caactaagca gctgcaggca gacatgatgg 6901 ctataaaaca gggggtcctg accgctggcg gcttttcccc tgctgatgca gccagaggtg 6961 ctgtgaatgc gcccatgaca caagcgctgg attggaacgg cacaaggtat tgggcgccag 7021 gctctatgag gaccacatct tattctggaa agttcacatc aatcgcccca gtgaggcagg 7081 ccgacttcca gcacacccaa agccggcctt cgagtggctc ttctgtgtcc tcctttgcca 7141 ctcagtcttc aaggccaact ctgaccacaa ccactgggtc ctcacatggc gcagcctcat 7201 caaattcaac tcgcagcaca ggcctctccc aatcaacggt ctctagagct acatctagga 7261 ctagtgagtg ggttagagat caaaatagaa atttggaacc ctacatgcat ggtgccttac 7321 agacggcctt tgtcacccca ccttccagca gggcgtctga cgggacagtc tcaaccgtcc 7381 caaaaggtgt tttggactcc tggacacctg cgttcaacac ccgcaggcag ccgctctttg 7441 cacacctccg taagaggggg gagtcacatg cctagtgaaa aggtgaaaat ttgtttagaa 7501 taaattgatt ctac //