Typing tool
|
Complete norovirus genomes
LC145788 | GII.2 | ||
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GII.P16 |
ORF1: 1..5094 ORF2: 5075..6703 ORF3: 6703..7482LOCUS LC145788 7482 bp RNA linear VRL 12-JAN-2018 DEFINITION Norovirus Hu/GII.2/Niigata5_2012_JP genes for polyprotein, VP1, VP2, complete cds. ACCESSION LC145788 VERSION LC145788.1 KEYWORDS . SOURCE Norovirus Hu/GII.2/Niigata5_2012_JP ORGANISM Norovirus Hu/GII.2/Niigata5_2012_JP Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Motomura,K., Boonchan,M., Noda,M., Tanaka,T. and Takeda,N. CONSRTM Norovirus Surveillance Group of Japan TITLE Norovirus epidemics caused by new GII.2 chimera viruses in 2012-2014 in Japan JOURNAL Infect. Genet. Evol. 42, 49-52 (2016) PUBMED 27112386 REMARK DOI:10.1016/j.meegid.2016.04.026 REFERENCE 2 (bases 1 to 7482) AUTHORS Motomura,K. and Boonchan,M. TITLE Direct Submission JOURNAL Submitted (09-APR-2016) Contact:Kazushi Motomura Osaka University, Research Institute of Microbial Diseases; 3-1, Yamada-oka, Suita, Osaka 565-0871, Japan FEATURES Location/Qualifiers source 1..7482 /organism="Norovirus Hu/GII.2/Niigata5_2012_JP" /mol_type="genomic RNA" /strain="Hu/GII.2/Niigata5_2012_JP" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:1834898" /country="Japan:Niigata" /collection_date="2012" CDS 1..5094 /note="contains N-terminal, NTPase, 3A, VPg, 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAV19391.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEPVIRFEVKSGISGLPDLTTVPQPD ATNTAFSVPPLSLRENREAKEPLTGAIIEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS MAKVELAPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDS WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGK IKPLNILNILATCDWTFAGIVESLILFAELFGVYWTPPDVSAMIAPLLGEYELQGPED IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV AKKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK AKRDFPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERMDEFELQGPTITTFNFDRNRVTAFRQLAAENKYGLVDTMRIGNQLKGVKTM EELKQAIKNVSIKRCQIIYHGSTFDLESDGKGKVTVEKVKNTTVQTNNELAGALHHLR SARIRYYVKCVQEAIYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSESEVKEETP KLEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL FITSTHVIPTGITEAFGVSIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNG ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLST MVRCARAFGGLMDEMKAHCISLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST QQRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQ WNSISHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREY GLKPTRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNH EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5075..6703 /codon_start=1 /product="VP1" /protein_id="BAV19392.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG VISQRDKHNTPGHNEPANRAHDAVVPTYTAQYTPKLGQIQIGTWQTDDLAVNQPVKFT PVGLNDTDHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGTPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ" CDS 6703..7482 /codon_start=1 /product="VP2" /protein_id="BAV19393.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN SFNHDKEMLQAQVQATKQLQADMMAIKQGVLAAGGFSPADAARGAVNAPMTQALDWNG TRYWAPGSMRTTAYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSYGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag 61 gaaaaatctt cgggtgaagg cttatttaca aatatgtctt ccaccctaaa gaaagccctc 121 ggggctcggc ctaaacagcc tgccccgagg gacaactcac aaaaaccccc gagaccacca 181 acgcccgagt tggttaaaag gataccccct cccccaccta atggcgaaga agagccagtc 241 attaggtttg aggtcaagag tggaatttct ggcctgcccg atctcacgac agttccccaa 301 ccagatgcga ccaatacggc attcagtgtt ccaccgttga gcttaagaga aaacagggag 361 gctaaggaac cgctaactgg ggcaataata gagatgtggg atggagagat ataccactat 421 ggtttgtatg tggagaaagg cctagtcttg ggcgtgcaca aaccacccgc agctataagc 481 atggcaaagg tggaattagc accgctgtcg ttatactggc gtgtggtgta cactccccaa 541 tacctcatct cccctgacac tctcaagagg ctcaacggag aggcattccc ttacaccgcc 601 tttgataata actgttatgc cttttgctgc tgggtgttag accttaatga ctcatggctc 661 agcagaagaa tggtgcagag gacgacaggc ttcttcagac cctaccaaga gtggaacaga 721 aagcccctac ccaccatgga tgattccaaa attaagaagg tggcaaacat attcctatgt 781 tcattatcta cactgttcac taggcctata aaagacatca tagggaaaat caaaccactg 841 aatattttaa acattctggc aacgtgtgat tggacgttcg ccggaatcgt agagtcccta 901 atattatttg ctgaactctt tggagtttac tggacgcccc cagatgtgtc tgctatgatc 961 gctcccttac ttggcgaata cgagttgcag ggaccagaag acatcgccgt tgagctcgta 1021 cctgtagtga tgggggggat tggtttggtg ctaggattca ccaaagagaa aattggcaaa 1081 atgctgtcct cagcagcgtc gacgctcagg gcttgcaaag accttggtgc ctatggttta 1141 gagatactca aattagtcat gaaatggttt ttcccaaaga aagaagaagc caatgaacta 1201 gccatggtga gagcaataga ggatgctgtt ctggatcttg aggcgataga aaacaaccac 1261 atgacaactc tgctgaaaga taaagacagc cttgcaacct acatgaaaac actggaccta 1321 gaggaggaga aagccagaaa actgtccacg aaatctgcat ctcctgacat agttgggaca 1381 atcaacgccc tgctggctcg aatagcggcg gctagatcac tagtccacag ggccaaggag 1441 gagctatcta gcagaatcag accagttgtc gttatgatat ctggtaagcc agggataggc 1501 aagacccact tggccaggga ggtggcgaaa aaggtggcgt ccactctcac aggagatcaa 1561 agagttggac tcataccgag aaacggtgtg gaccattggg atgcatacaa aggtgaaagg 1621 gtcgtgttgt gggatgacta tggcatgagt aaccctattc atgatgcact gcgcatacag 1681 gaattggccg acacatgccc cctcaccttg aattgtgaca gaattgaaaa taagggaaaa 1741 gtttttgata gtgatgttat aataattaca acaaaccttg ccaacccagc tcctcttgat 1801 tatgtcaact ttgaggcctg ttccaggaga attgacttcc tggtgtacgc cgatgcgcca 1861 gaagtggaaa aggcaaaacg ggatttccct ggtcaaccag atatgtggaa ggacgccttc 1921 aaagcggact tctcgcacat caagttgcaa cttgcgcctc agggcggctt tgacaagaat 1981 ggcaacaccc cacatgggaa aggggtgatg aagaccctta ccaccggttc tctaatcgcc 2041 cgtgcgtcag gtttgctaca tgagaggatg gatgaatttg aacttcaggg ccccacaatc 2101 accactttca actttgaccg gaacagagtc accgctttca gacaactggc tgctgagaac 2161 aaatatgggc tggtggacac catgaggatt ggcaatcaat tgaaaggggt gaaaaccatg 2221 gaagagctca agcaagctat caagaatgtg tccatcaaga ggtgccagat tatctaccat 2281 ggatccacgt ttgaccttga gtctgatggc aagggcaaag ttacagtgga aaaggtcaaa 2341 aacaccactg ttcagaccaa caatgaattg gccggagccc tgcaccacct cagaagtgct 2401 cgaatcaggt attatgtcaa atgtgtgcaa gaggcaatct attccatcct acaaattgcc 2461 ggcgccgcgt tcgtcaccac acgcattgca cgccgcatga atatacaaga gctttggtca 2521 aagccaccat tagaccaaag cgagtcagag gttaaggagg agacccccaa gttagaggat 2581 gatgaattca tcatctcctc caaggacatt aaggaggaag ggaagaaggg caaaaacaaa 2641 actggccgtg gcaagaaaca cactgcattc tctagcaagg gcctgagcga tgaggagtat 2701 gacgagtaca agaggataag agaagagaga aatgggaagt actctataga ggagtatctt 2761 caagacaggg acaggtacta tgaagaactc gccatcgcca aggccacgga agaagacttt 2821 tgtgaggagg aagaaataaa aatccgccag cggatctttc gtcccactag aaaacaaagg 2881 aaggaggaaa gggccacgtt agggctagtg actggttcgg aaatcagaaa aagaaaccct 2941 gatgacttca aacctaaagg gaaattgtgg gccgacgaca acagaagtgt tgactacaat 3001 gaaaaactgg actttgaggc ccccccaagc atatggtcta ggatcgtaag ctttggttca 3061 ggttggggct tctgggtgtc accaagcctg tttataacat caactcatgt gatccctacg 3121 ggtataacag aggcatttgg agtctctatc aaacagattc aagtccacaa atcgggcgag 3181 ttttgtcggt tcagattccc aaaaccaatt agaccagatg taacaggaat gatcctggaa 3241 gaaggtgcgc cagagggcac cgtagcaacc gtgctcatca agcgccccac tggagaactc 3301 atgcccctcg cagctagaat gggaacacac gcaaccatga aaattcaggg ccgcatggtt 3361 ggtgggcaga tgggcatgtt gctcactggt tcaaatgcta agggtatgga tctagggaca 3421 actcccggtg actgtggctg cccgtatatt tacaaaaggg gcaatgacta catagtcatt 3481 ggagtgcaca cagcagcagc ccgaggtggt aatactgtca tctgtgccac acagggaagt 3541 gagggtgaag cgaccctcga gggtggagac gacaaaggaa catactgtgg ggcacccatc 3601 ctgggccctg gaggggcgcc aaagttaagc acaaaaacca aattttggag atcatcaaac 3661 acgccccttc caccagggac atatgagcct gcctaccttg gcggtcgtga tccgcgtgta 3721 aagggtgggc cttccctaca acaagtcatg agagaccagt taaagccctt caccgagcct 3781 aggggtaagc ccccgagacc tagtgtgttg gaggcagcca aacagaccat catcaacgtt 3841 ctcgagcaaa ctttggatcc cccacaaaaa tggacgtacg cacaggcgtg cgcttcactt 3901 gataaaacca cctctagtgg gcacccccat catgctcgaa agaatgaatt ctggaacggt 3961 gagaccttta ccggtaagtt ggcagaccaa gcatcaaaag caaacttaat gtttgaggaa 4021 gggaaacata tgacaccagt gtatacagca gcccttaagg atgagttggt taaaaccgac 4081 aaaatctatg ggaagatcaa gaaacgcctg ctttggggct ctgatttatc caccatggtc 4141 cgatgtgcta gggcctttgg tggactcatg gacgagatga aggcgcactg catatcgctc 4201 ccaatccgag ttggcatgaa tatgaatgag gatggcccaa taatatttga gaagcactcc 4261 agatataaat atcactatga tgcagattac tctcgctggg actcaacaca acagagggct 4321 gttctagcag cggccttgga aataatggtc agattctctg cagaaccgca actggcccaa 4381 acagttgctg aggatctgct ggcccccagt gtagtagatg tcggagactt caaaatttca 4441 ataaatgagg gactcccttc tggtgtacca tgcacttccc agtggaattc catctcacat 4501 tggttactga ctctctgtgc tttgtctgaa gtcaccaatc tgtctcctga catcgtgcag 4561 gcaaattcta tgttctcatt ttacggtgat gacgagatcg tcagcaccga tataaaattg 4621 gaccctgaaa agttgaccac caaattgagg gagtatggtc taaagccaac tcgcccagac 4681 aaaaccgagg ggcccctgat catcagtgag gatttggacg gtctcacctt ccttcggagg 4741 acggtttctc gtgacccagc tggttggttt ggaaagttag atcaaagctc aatactaaga 4801 cagatgtatt ggaccagagg accaaaccat gaagacccca atgagacaat gataccccac 4861 tctcaaagac ccatacagct catggcactg cttggtgagg cctcccttca cggaccctct 4921 ttctacagca agattagtaa attggtcata actgaactca aagaaggtgg gatggacttt 4981 tacgtgccaa gacaggagcc catgttcaga tggatgaggt tttctgactt gagcacgtgg 5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga atgacgccgc 5101 tccatctact gatggtgcag ccggcctcgt gccagaaagt aataatgagg tcatggctct 5161 tgaacccgtg gctggcgccg ccttggcagc cccagtcacc ggtcaaacaa atataataga 5221 cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag tctctccccg 5281 taactcccct ggtgaagtgc tattgaatct agagttgggt ccagaattaa atccttatct 5341 ggcacattta gcaagaatgt acaatgggta tgccggtggg atggaggtgc aggtcatgtt 5401 ggctgggaat gcgttcacag ccggcaagtt agtcttcgcc gctgtgccac cccacttccc 5461 ggtcgaaaac cttagcccac agcaaattac catgttccct catgtgatta tagatgtcag 5521 gactttggaa cctgttttat taccactccc tgatgttagg aataacttct tccattataa 5581 tcagaaagat gatcccaaga tgagaattgt ggctatgctt tacacccccc ttaggtctaa 5641 tggttcaggc gatgatgtgt ttacagtctc ctgcagggtg ttgactagac cctcccctga 5701 ttttgatttc acatacctgg tgccaccaac agtggaatct aaaacaaaac cattcactct 5761 cccaatcctc acgcttgggg aactttccaa ttctagattc ccagtgtcca tagaccagat 5821 gtacaccagc cccaatgaag tcatatcagt gcagtgtcaa aatggcaggt gcacactgga 5881 tggggaactc caaggaacaa cacaactcca agtcagtggc atttgtgctt tcaagggaga 5941 agtgactgcc cacttgcatg acaatgacca cctgtataat gtcaccatca caaatttgaa 6001 tgggtcccct tttgacccct ccgaggacat ccccgcccct ctgggcgtac ctgactttca 6061 gggaagggtc tttggtgtca tctcccaaag agacaaacac aacacccctg gacataatga 6121 accagcaaac agggcacacg atgccgtggt ccctacttat acagcacagt ataccccaaa 6181 attgggtcag attcaaattg gcacatggca gactgacgat ctcgcagtca accaaccagt 6241 caaattcacc ccagttggac ttaatgacac tgaccatttt aaccaatggg tggtccccag 6301 gtatgctggt gccctaaacc ttaacacaaa cctcgcccct tctgttgctc cagtatttcc 6361 aggggagcgt ctgctctttt tcagatcata catccccctc aagggcggtt atggaactcc 6421 agccatcgat tgcctactgc cacaagagtg ggtgcaacat ttctatcagg aagcagcccc 6481 ttcgatgagt gaggtggccc ttgtcagata catcaacccg gacactggtc gggcactgtt 6541 tgaggccaaa ctccacagag ctggtttcat gacagtctcg agcaacacca gtgccccggt 6601 ggttgtgcct gccaacggat acttcaggtt tgattcttgg gtgaaccaat tctattctct 6661 cgcccccatg ggaactggaa atgggcgcag aaggattcaa taatggctgg agcttttgta 6721 gctggtcttg caggggacgt gctcagcaat gggctcagtt cattaattaa tgcaggtgct 6781 aatgcaataa atcagagggc agaatttgat tttaatcaga gattacagca aaactctttc 6841 aatcatgata aggagatgtt gcaggcccag gtccaggcaa ctaagcagct gcaggcagac 6901 atgatggcta taaaacaggg ggtcctggcc gctggcggct tttcccctgc tgatgcagcc 6961 agaggtgctg tgaacgcgcc catgacacag gcgctggatt ggaacggcac aaggtattgg 7021 gcaccaggct ccatgaggac tacagcctac tctgggaaat tcacatcaac cgccccagtg 7081 aggcaggctg attttcagca cacccaaagc cggccctcga gtggttcttc tgtgtcctcc 7141 tttgctactc agtcttcaag gccgaccctg actacaacca ctgggtcctc atatggcaca 7201 gcctcatcaa attcgactcg cagcacaaac ctctcccaat caacggtctc cagggctaca 7261 tctaggactg gtgaatgggt tagagaccaa aacagaaatt tggaacctta catgcatggt 7321 gccttacaga cggcctttgt caccccgcct tccagcaggg cgtctgatgg gacggtctca 7381 accgttccaa aaggtgtttt ggactcctgg acacctgcgt ttaacacccg caggcagccg 7441 cttttcgcac acctccgtaa gaggggggag tcacaagctt ag //