Typing tool
|
Complete norovirus genomes
KF145148 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..1737 ORF2: 1718..3340 ORF3: 3340..4146LOCUS KF145148 4197 bp RNA linear VRL 10-JUL-2014 DEFINITION Norovirus Hu/GII.4/JP10909/2012/JPN non-structural polyprotein gene, partial cds; and major capsid protein and minor structural protein genes, complete cds. ACCESSION KF145148 VERSION KF145148.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/JP10909/2012/JPN ORGANISM Norovirus Hu/GII.4/JP10909/2012/JPN Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 4197) AUTHORS Thongprachum,A., Chan-It,W., Khamrin,P., Okitsu,S., Mizuguchi,M., Hayakawa,S., Maneekarn,N. and Ushijima,H. TITLE Emergence of a New Norovirus GII.4 2012 Variant Associated with Acute Gastroenteritis among Japanese Pediatric Patients JOURNAL Unpublished REFERENCE 2 (bases 1 to 4197) AUTHORS Thongprachum,A., Chan-It,W., Khamrin,P., Okitsu,S., Mizuguchi,M., Hayakawa,S., Maneekarn,N. and Ushijima,H. TITLE Direct Submission JOURNAL Submitted (23-MAY-2013) Developmental Medical Sciences, School of International Health, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..4197 /organism="Norovirus Hu/GII.4/JP10909/2012/JPN" /mol_type="genomic RNA" /isolate="Hu/GII.4/JP10909/2012/JPN" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1398707" /country="Japan" /collection_date="2012" /note="genotype: GII.4" CDS <1..1737 /note="ORF1" /codon_start=1 /product="non-structural polyprotein" /protein_id="AGV40223.1" /translation="VGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVH TAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTT PLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIIN VLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLM FEEGKSMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCARAFGGLMDELKA HCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFS PEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEV TDLSPDIIQANSLFSFYGDDEIVSTDIKWDPEKLTAKLKEYGLKPTRPDKTEGPLVIS EDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPIQL MSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRN LAPSFVNEDGVE" CDS 1718..3340 /note="VP1" /codon_start=1 /product="major capsid protein" /protein_id="AGV40221.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" CDS 3340..4146 /note="VP2" /codon_start=1 /product="minor structural protein" /protein_id="AGV40222.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVLPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPSMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 gttggagggc aaatgggtat gctcctgaca ggatccaacg ccaagagtat ggacctaggc 61 acaacaccag gcgactgcgg ctgcccctac atttacaaga gggggaatga ctacgtggtc 121 ataggagtcc atacggccgc tgcccgtgga ggaaacactg tcatatgtgc cacccagggg 181 agcgagggag aagccacact tgaaggaggt gacagtaaag ggacatactg tggcgcacca 241 atcttgggcc cagggagcgc tccgaagctc agtaccaaga ctaagttttg gagatcatcc 301 acaacaccac tcccacctgg cacttacgaa ccagcctacc tcggtggcaa agaccccaga 361 gtcaaaggtg gcccttcatt gcaacaagtt atgagggacc agctgaagcc attcacagaa 421 cccagaggca aaccaccaag accaaatgtg ttggaagctg ccaagaaaac catcatcaat 481 gtccttgagc aaacaattga tccaccccaa aaatggtcat ttgcgcaagc ttgcgcatcc 541 cttgacaaaa ccacctccag cggccacccg caccacatgc ggaaaaacga ttgttggaat 601 ggggagtcct tcacaggaaa attggctgat caagcctcca aggccaacct aatgtttgaa 661 gagggaaaga gcatgactcc agtctacaca ggtgcactta aagatgagtt ggtaaagacc 721 gataaagttt atggtaaggt caagaagagg cttctgtggg gttcagatct ggcgaccatg 781 atacggtgcg cccgagcttt tggaggcctc atggatgaac tcaaggcaca ctgtgtcaca 841 cttcctgtca gagttggtat gaacatgaat gaggatggcc ccatcatctt tgagaagcac 901 tccagatata gatatcacta tgatgctgat tattcccggt gggactcaac acagcaaagg 961 gatgtgctag cagcagcact agaaatcatg gttaagttct ctccagaacc acatttggcc 1021 cagatagttg cagaagacct cctttcccct agcgtaatgg atgtaggtga cttccaaata 1081 tcaataagtg agggtctccc ctctggggta ccttgtacct cccagtggaa ttccatcgcc 1141 cactggctcc tcactctttg tgcactctct gaagtcacgg acctgtcccc tgacatcatt 1201 caggccaact cccttttctc cttctatggt gatgatgaga ttgtaagcac agacataaag 1261 tgggacccag agaagctgac agcaaaactc aaggagtacg ggctgaaacc aacccgcccc 1321 gacaaaactg aaggacccct tgttatctct gaagacctgg atggcctgac attcctccgg 1381 agaaccgtga cccgtgatcc agctggctgg tttggaaaat tggaacaaag ttcaattctc 1441 aggcaaatgt actggaccag gggtcccaac catgaagatc catttgaaac aatgatacca 1501 cactcccaaa gacctataca attgatgtcc ttgctgggcg aggctgcact ccacggcccg 1561 gcattttata gcaaaattag caagttagtc attgcagagt tgaaggaagg tggcatggat 1621 ttttacgtgc ccagacaaga gccaatgttc agatggatga gattctcaga tctgagcacg 1681 tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc 1741 caacccatct gatgggtccg cagccaacct cgtcccagag gtcaacaatg aggttatggc 1801 tctggagccc gttgttggtg ccgccattgc ggcacctgta gcgggccaac aaaatgtaat 1861 tgacccctgg attaggaaca attttgtaca agcccctggt ggagagttta cagtatcccc 1921 tagaaacgct ccaggtgaaa tactatggag cgcgccctta ggccctgatc taaatcccta 1981 cctttcccat ttggccagaa tgtacaatgg ttatgcaggt ggttttgaag tgcaggtaat 2041 tctcgcgggg aacgcgttca ccgccgggaa ggtcatattt gcagcagtcc caccaaattt 2101 tccaactgaa ggcttaagcc ccagccaggt cactatgttc ccccatataa tagtagatgt 2161 tagacaacta gaacctgtgc tgattccctt acccgatgtc aggaataatt tctatcatta 2221 caatcaatca aatgactcca ctattaagtt gatagcaatg ttgtatacac cacttagggc 2281 taataatgct ggggatgatg tcttcacagt ttcttgccga gttctcacga gaccatcccc 2341 cgattttgat ttcatatttt tagtgccacc cacagttgag tcaagaacta aaccattctc 2401 tgtcccagtt ttaactgttg aggagatgac caattcaaga ttccccattc ctttggaaaa 2461 gttgttcacg ggccccagca gtgcctttgt tgttcaacca caaaacggca ggtgcacgac 2521 tgatggcgtg ctcctaggca ccacccaact gtctcctgtc aacatctgca ccttcagagg 2581 ggatgtcacc cacatcacag gtagtcgtaa ctacacgatg aatttggctt ctcaaaattg 2641 gaacaattat gacccaacag aagaaatccc agcccctcta gggactccag attttgtggg 2701 gaaaattcaa ggcatgctca cccaaaccac aaggacagat ggctcaacac gcggccacaa 2761 agctacagtg tacactggga gcgccgactt tgctccaaaa ctgggtagag ttcaatttga 2821 aactgacaca gaccatgatt ttgaagctaa ccaaaacaca aagttcaccc cagtcggtgt 2881 tatccaagat ggtagcacca cccaccgaaa tgaaccccaa cagtgggtgc tcccaagtta 2941 ctcaggcaga aatactcata atgtgcatct ggcccccgct gtagccccca cttttccggg 3001 tgagcaactt ctcttcttca gatccaccat gcccggatgc agcgggtacc ccaacatgga 3061 tttggactgt ctgctccccc aggaatgggt gcagtacttc taccaagagg cagccccagc 3121 acaatctgat gtggctctgc taagatttgt gaatccagac acaggtaggg ttttgtttga 3181 gtgtaagctt cataaatcag gctatgttac agtggctcac actggccaac atgatttggt 3241 tatccccccc aatggttatt ttaggtttga ttcctgggtt aaccagttct acacgcttgc 3301 ccccatggga aatggaacgg ggcgtagacg tgtagtataa tggctggagc tttctttgct 3361 ggattggcat ctgatgtcct tggctctgga cttggttccc ttatcaatgc tggggctggg 3421 gccatcaacc aaaaagttga gtttgaaaat aatagaaaat tgcaacaagc atccttccaa 3481 tttagcagca atctacaaca ggcttccttt caacatgaca aagagatgct ccaagcacaa 3541 attgaggcca ccaaaaagct acaacaggaa atgatgaaag ttaagcaggc aatgctccta 3601 gagggtgggt tctctgagac agatgcagcc cgcggggcaa tcaacgcccc catgacaaaa 3661 gctttggact ggagcgggac aaggtactgg gctcccgatg ctaggactac aacatacaat 3721 gcaggccgct tttccacccc tcaaccatcg ggggtactgc caggaagagc taatcttagg 3781 gatgctgtcc ctgctcgggg ttcctccagc aaatcttcta actcttctac tgctacttct 3841 gtgtactcaa atcaaactac ttcaacgaga cttggttcta cagctggttc tggaaccagt 3901 gtctcgagcc tcccgtcaac tgcaaggact aggagctggg ttgaggatca aagtaggaat 3961 ttgtcacctt ccatgagggg ggcccacaac atatcgtttg tcaccccacc atctagcaga 4021 tcctctagcc aaggcacagt ctcaaccgtg cctaaagagg ttttggactc ctggactggc 4081 gctttcaaca cgcgcaggca gccactcttc gctcacattc gtaagcgagg ggagtcacgg 4141 gcgtaatgtg aaaagacaaa attgattatc tttctttttc tttctttagt gtctttt //