Typing tool
|
Complete norovirus genomes
LC209437 | GII.2 | ||
---|---|---|---|
GII.P2 |
ORF1: 1..5094 ORF2: 5075..6703 ORF3: 6703..7482LOCUS LC209437 7519 bp RNA linear VRL 14-DEC-2017 DEFINITION Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-87 RNA, nearly complete genome. ACCESSION LC209437 VERSION LC209437.1 KEYWORDS . SOURCE Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-87 ORGANISM Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-87 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 7519) 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..7519 /organism="Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-87" /mol_type="genomic RNA" /strain="Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-87" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1934263" /country="Japan: Tochigi" /collection_date="2004" /note="genotype: GII.P2_GII.2" gene <1..5094 /gene="POL" CDS <1..5094 /gene="POL" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BBB86929.1" /translation="MASNDASAAAAVNSNNDNTKSSSDGMFNNVAVTLKRALGARSKQ PAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPPEA NTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISIA KVELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWL SRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLK PLNILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPEDIA VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK DEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKS ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAK KIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL TLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAK RDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASG LLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMDE LKKAIKNIIIRKCQIVYGGNTYTLESDGKGKVVVERVQSASVQINNEIAGAVHHLRCA RIRYYVKCVQEAIYSLLQIAGTVFVTSRIISRMNIQNLWSRPLTEDADEATMKEGCPK PREEEEFVVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKY SIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTG SEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSL FITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTV ATILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG NAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG KPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHWNG ESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLAT MVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDST QQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQ WNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREY GLKPTRPDKTEGPLIISEGLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNH EDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSLVNEDGVE" gene 5075..6703 /gene="VP1" CDS 5075..6703 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BBB86930.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLSLELGPELNPFLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG VISQRDKHNSPGHNEPANRGHDAVVPTYTSQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6703..7482 /gene="VP2" CDS 6703..7482 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BBB86931.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPGSMRTTSYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRNTNLPQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 atggcgtcta acgacgcttc tgctgccgct gctgttaaca gcaacaacga caacacaaaa 61 tcttcaagtg acggaatgtt taacaacgtg gccgtcaccc ttaaacgagc cctcggggcc 121 cggtccaaac agccggcccc gagggaaaaa cccccaagac cccctagacc accaacacca 181 gaactaatca aaagaattcc ccccccacca cccaatgatg gggacgaacc aaccgtgatg 241 tttagcactg taggtggtgt gtctggccta cctgagctca caacagtcgg tcaaccacct 301 gaagctaaca cggcctttag tgtgcctccc ctcagccaaa gggaaaacag ggacgctaag 361 gaaccgctaa ctggaactat tctggaaatg tgggatgggg agatctatca ttatggactg 421 tatgtggaaa gagggcttgt gttaggcgtg cacaagccgc cagctgccat cagcatagcc 481 aaagtggaat taacgcccct ctcactgtat tggagacctg tgtacacgcc tcagtacctt 541 atatcccctg acaccttgag gaaactccat ggtgaattgt ttccctatac agcctttgaa 601 aacaactgtt atgccttctg ctgttgggtt ttggatctta acgattcatg gctaagcagg 661 aggatgatta gtaggaccac tggctttttc aggccctacc aagagtggaa caggaagccc 721 cttccaacta tggatgactc aaaattgaag aaggtcgcaa acatcgttct gtgtgcattg 781 tcatcattgt tcactagacc catcaaggat ataattggca aacttaaacc cctcaacatc 841 ctaaacattc tggcctcatg cgattggact ttcgctggca tagtagagtc actaatcctc 901 ttggctgaac tctttgatgt gttctggaca cccccagatg tgtctgcaat gatcgcaccc 961 ctcctcggtg actacgagct acaaggcccc gaagacatcg ctgtggagct cgtgcccgtt 1021 gtgatgggtg ggataggtct ggtgttggga ttcaccaaag agaaaatagg taagatgctc 1081 tcctctgcag cgtcaaccct gagggcatgc aaagatcttg gagcctatgg attggagatc 1141 ttgaaactag tcatgaaatg gtttttccca aagaaggatg aggccaacga actggctatg 1201 gttagagcca ttgaagacgc tgtattagac ctggaggcca ttgagaacaa ccatatgacc 1261 actctattga aagacaagaa cagccttgca gcctacatga agaccttgga catggaagag 1321 gaaaaagcta ggaagttatc caccaaatca gcctcccctg acattgtggg caccataaac 1381 gccctgctgg ctaggatcgc cgccgcgcgt tccttagttc atagggccaa ggaggagctc 1441 tctagcagac caagaccggt cgttctgatg atctctggca aaccagggat aggaaagacc 1501 cacttggcca gagaattggc aaagaaaatt gcctcgacgc tcacaggaga tcagagggtg 1561 ggcctcatcc cacggaatgg agttgaccac tgggacgcct acaaaggtga gagagtggtg 1621 ctctgggatg actacgggat gagcaacccc atccacgatg cgctgaggtt gcaggagctg 1681 gcagacacat gtccattaac tttaaattgt gacaggattg aaaacaaggg gaaagtcttc 1741 gatagcgacg cgatcataat taccaccaat ttggtcaatc ccgcgccgct ggattacgtc 1801 aactttgagg cctgctccag acgtatagac ttccttgtgt atgctgatgc cccagaagtc 1861 gagaaggcaa agcgggactt ccctggtcaa ccggacatgt ggaaggacgc ctatcgctct 1921 gacttctcac acattaaact acaacttgca ccacagggtg ggtttgacaa aaatggaaac 1981 accccacatg gtaaaggagt gatgaagact ctcactgcca gttcattggt tgcacgtgcc 2041 tctggtctct tgcacgagag attagatgag tacgagctac agggtccgcc cctctcaacc 2101 ttcaactttg accgtaacaa aattgcagcg ttcaggcaac tcgccgctga aaataagtat 2161 ggtctggtgg acacgatgag ggtgggcaac cagctcagaa atgttacgac catggatgaa 2221 ctcaagaagg ctatcaagaa catcataatc agaaagtgcc agatagtcta cggtggtaac 2281 acttacacac ttgagtctga cggcaagggt aaggttgtgg ttgagagggt gcagagcgcc 2341 agcgtgcaaa tcaacaatga gatcgctggt gcagtgcacc accttagatg tgccaggata 2401 aggtattatg tcaagtgtgt tcaagaggcc atctactcac tcctccaaat cgccggcacg 2461 gtgtttgtca cttcacgcat cataagccgc atgaacatcc aaaatttatg gtccaggcca 2521 ctaaccgaag atgcagatga ggccactatg aaagaggggt gccccaaacc tagggaggaa 2581 gaggaatttg tcgtctcctc agatgacatc aagccagagg gcaagaaagg taaaaacaag 2641 agtggccggg gcaagaaaca cacggcattc tcaagcaaag gtctcagtga tgaggagtac 2701 gaagagtaca aaaggatcag agaggagaga aatggcaagt actccataga ggaataccta 2761 caggacagag acaaatacta tgaagaggtg gccattgcca gggcaactga agaagacttc 2821 tgtgaagagg aagaggttaa gattcgtcag aggatcttca ggccaacaag aaaacaacgc 2881 aaggaagaaa gagccaacct tggcctcgtt accgggtctg agatcagaaa gaggaaccca 2941 gatgacttca aaccaaaagg aaagctgtgg gccgacgatg ataggagcgt cgactacaat 3001 gaaagaatca gttttgaggc cccaccaagt atatggtcta gaattgtcaa ctttggttct 3061 ggatgggggt tttgggtgtc acctagcctc ttcataacat caacacatgt catacctcaa 3121 ggcataactg aggcctttgg tgtacctata aggcaggtgc aaatacacaa atcaggcgaa 3181 ttctgtcgcc tgagattccc aaaacccatc aggacagatg tgtcaggtat gatactggag 3241 gagggagcgc ctgaaggcac tgttgccacc atactcatca aaagaaccac tggagagctg 3301 atgcctctcg cagcaagaat gggcacccac gcgaccatga gaatacaagg acgcacggtg 3361 ggcggccaga tgggaatgct gctcactggg tccaatgcaa agagcatgga tcttggcacc 3421 acgcccggtg attgtgggtg tccctacatt tacaaaaggg gcaacgacta catagtcatt 3481 ggagttcaca cagcagccgc tcgtggcgga aacactgtca tctgcgccac acagggtagt 3541 gagggtgagg ccacgctcga gggtggtgac aacaaaggaa catactgtgg ggcgccaatc 3601 ctaggccccg ggaatgcccc aaaactgagc accaaaacca aattctggag gtcctccaca 3661 acaccacttc cacccggcac atacgagccg gcatatctgg gaggaaaaga cccccgagtc 3721 aaaggtgggc catctctgca acaagttatg cgagaccaac tgaagccatt caccgaaccc 3781 cgtggtaaac caccaaaacc aagtgtcctc gaagctgcta aaaagacaat tatcaatgtg 3841 ctagagcaaa caatagaccc cccacaaaag tggacgtacg cacaagcgtg cgcgtctctt 3901 gacaaaacta catctagtgg gtacccccac cacgtgcgca aaaacgagca ctggaatggg 3961 gaatctttca caggaaaatt ggctgaccag gcatcaaaag caaacctaat gtttgaagag 4021 gggaagcaca tgaccccagt ttacacagct gcccttaagg atgaattggt caaaactgag 4081 aaagtgtatg ggaagataaa gaagaggttg ctttggggct ctgacctggc taccatggtg 4141 cggtgcgcgc gctcctttgg cggtttgatg gacgaactca aggcccactg tgtaacactt 4201 ccgataaggg ttggcatgaa tatgaatgaa gatggaccaa tagtctttga gaagcactcc 4261 agatacaggt atcactatga tgcagattat tccagatggg attcaacaca gcagagagcc 4321 gttctggccg cggccatgga gattatggtt aaattctcag cagagccaca actagcccaa 4381 atagttgcag aggatctatt gtcgcctagc gtagttgacg tgggcgactt caaaatttcc 4441 atcaacgaag gattgccatc gggtgtccct tgcacctctc aatggaattc catcgcacac 4501 tggctcctca ccttatgtgc cctttctgaa gttacagacc tctctcctga cattgtgcag 4561 gccaactccc tcttctcctt ttatggtgat gatgaaattg tgagcacaga tattaaatta 4621 gacccagaaa agctgacggg gaagttgaga gaatacggcc tcaaacccac tcgtccagac 4681 aaaactgaag gccccctgat cattagtgag ggtctgaatg gcctgacttt cctgaggaga 4741 accgtcactc gcgaccctgc aggatggttt ggcaaactgg accaaagttc catacttagg 4801 caattgtatt ggaccaaagg ccccaatcat gaagatccct ttgagtcaat gattccacac 4861 tcccagagac ccatacaact catgtcactc ttgggcgaag cagcactgca tgaaccatca 4921 ttctacagca agatcagcaa gcttgtgata tctgagttga aagaaggtgg aatggatttt 4981 tacgtgccca ggcaagaacc tatgttcagg tggatgagat tctcagattt gagcacgtgg 5041 gagggcgatc gcaatcttgc tcccagtctt gtgaatgaag atggcgtcga atgacgccgc 5101 tccatctact gatggtgcag ccggcctcgt gccagaaagt aataatgagg tcatggctct 5161 tgaacccgtg gctggcgccg ccttggcagc cccggtcacc ggtcaaacaa atattataga 5221 cccttggatt agagcaaatt ttgtccaggc ccctaatggt gaatttacag tctctccccg 5281 taatgcccct ggtgaagtgc tattgagtct agagttgggt ccagaattaa atccttttct 5341 ggcacattta gcaagaatgt acaacgggta tgccggtggg atggaggtgc aggtcatgtt 5401 ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gctgtgccac ctcacttccc 5461 ggttgaaaac cttagtccac agcaaattac catgttccct catgtgatta tagatgtaag 5521 gactttggaa cctgttttat taccactccc tgatgttaga aataatttct tccattataa 5581 tcagaaagat gatcccaaga tgagaattgt ggctatgctt tatacccccc ttaggtctaa 5641 tggttcaggt gatgatgtgt ttacagtctc ctgcagggtg ttgactagac cctcccctga 5701 ttttgatttc acatatctgg tgccaccaac agtggagtct aaaacaaaac cattcaccct 5761 cccaatcctc acacttgggg aactttccaa ttctagattc ccagtgtcca tagaccagat 5821 gtacaccagc cccaatgaag ttatatcagt gcagtgtcaa aatggtaggt gcacactgga 5881 tggggagctc caaggaacaa cacaactcca agtcagtggc atttgtgctt tcaagggaga 5941 agtgaccgcc catttgcatg acaatgatca tctatataat gtcaccatca caaacttgaa 6001 tgggtccccc tttgacccct ccgaggacat ccctgcccct ctgggcgtac ctgactttca 6061 gggaagggtc tttggtgtca tctcccaaag agacaaacac aattcccctg gacataatga 6121 accagcaaat agggggcacg acgctgtggt ccctacttac acatcacagt acactccaaa 6181 attgggtcag attcaaattg gcacatggca aaccgatgat cttacagtca accaaccagt 6241 caaattcacc ccagttggac tcaatgacac tgaacatttt aaccaatggg tggtccccag 6301 atatgctggt gctttaaacc ttaacacaaa ccttgcccct tctgttgctc cagtatttcc 6361 aggggagcgc ctgctctttt tcagatcata catccccctc aagggtggtt atggaaatcc 6421 agccattgat tgcctactac cacaagagtg ggtgcagcat ttctatcagg aagcagcccc 6481 ttcaatgagt gaggtggccc ttgtcagata catcaacccg gatactggtc gggcactgtt 6541 tgaggccaaa ctccacagag ctggtttcat gacagtctca agcaacacca gtgccccggt 6601 ggttgtgcct gccaacggat acttcagatt tgattcttgg gtgaaccaat tctattctct 6661 cgcccccatg ggaactggaa atgggcgtag aagggttcaa taatggctgg agcttttgta 6721 gctggtcttg caggggacgt gctcagcaat gggctcagtt cattaattaa tgcaggtgct 6781 aatgcaataa atcagagggc agaatttgat tttaatcaga gattacagca aaattctttt 6841 aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct gcaggcagac 6901 atgatggcta taaagcaggg ggtcctgacc gctggcggct tttcccctgc tgacgcagcc 6961 agaggtgctg tgaatgcgcc catgacacag gcgctggatt ggaacggcac aaggtattgg 7021 gcaccaggct ccatgaggac cacatcttac tctggaagat tcacatcaac cgccccagtg 7081 aggcaggccg acttccagca cacccaaagc cggccctcga gtggctcttc tgtgtcctcc 7141 tttgctactc agtcttcaag gccaactctg actacaacca ctgggtcctc acatggcaca 7201 gcctcatcaa actcgactcg caacacaaac ctcccccaat caacggtctc tagggccaca 7261 tctaggactg gtgagtgggt tagagatcaa aatagaaatt tggaacccta tatgcatggt 7321 gccttacaga cagcctttgt caccccacct tccagcaggg cgtctgacgg aacggtctca 7381 accgtcccaa aaggtgtttt ggactcctgg acacctgcgt tcaacacccg caggcagccg 7441 ctttttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg tgaaaattta 7501 tctaaaatga attgttctt //