Typing tool
|
Complete norovirus genomes
JN400622 | GII.4 New Orleans | ||
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GII.P4 New Orleans |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS JN400622 7509 bp RNA linear VRL 19-DEC-2013 DEFINITION Norovirus Hu/GII-4/CGMH24/2010/TW, complete genome. ACCESSION JN400622 VERSION JN400622.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/CGMH24/2010/TW ORGANISM Norovirus Hu/GII-4/CGMH24/2010/TW Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7509) AUTHORS Tsai,C.N., Lin,C.Y., Lin,C.W., Shih,K.C., Chiu,C.H. and Chen,S.Y. TITLE Clinical relevance and genotypes of circulating noroviruses in northern Taiwan, 2006-2011 JOURNAL J. Med. Virol. 86 (2), 335-346 (2014) PUBMED 24009100 REFERENCE 2 (bases 1 to 7509) AUTHORS Tsai,C.-N., Lin,C.-Y., Lin,C.-W., Shih,K.-C., Chi,H.-C., Chao,H.-C., Lai,M.-W., Yu,T.-H., Chen,S.-Y. and Chiu,C.-H. TITLE Direct Submission JOURNAL Submitted (27-JUL-2011) Graduate Institute of clinical medical sciences, 259, Wen-Hwa 1st Rd, Kwei-Shan, Taoyuan, Taiwan FEATURES Location/Qualifiers source 1..7509 /organism="Norovirus Hu/GII-4/CGMH24/2010/TW" /mol_type="genomic RNA" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:1195636" /country="Taiwan" /collection_date="13-Jan-2010" /note="serogroup: GII-4" CDS 1..5100 /note="ORF1; encodes NTPase, 3A, VPg, 3Cpro and 3Dpol" /codon_start=1 /product="non-structural polyprotein" /protein_id="AFN09986.1" /translation="MKGVSNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARP KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQINNELAGALHHLR SARIRYYVKCVQEVLYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVENTEETTSEDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKMDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5081..6703 /gene="VP1" CDS 5081..6703 /gene="VP1" /note="ORF2" /codon_start=1 /product="major viral capsid protein" /protein_id="AFN09987.1" /translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIPGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG STTPRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6703..7509 /gene="VP2" CDS 6703..7509 /gene="VP2" /note="ORF3" /codon_start=1 /product="minor viral capsid protein" /protein_id="AFN09988.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKTLDWNGTRYWAPDARTTTNNAGRFSTPQPSGALPGRANLRATVPARGSSSTSS NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 atgaagggtg tgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaaacagcc tcccccgagg gaaaaaccac aaagaccccc acgaccacct 181 actccagaac tggtcaaaaa tatcccccct cccccaccca acggagagga tgaaatagtg 241 gtttcttata gtgtcaagga tggtgtttcc ggcttgcctg acctttccac cgtcaggcaa 301 ccggaagagt ctaacacggc cttcagtgtc cctccactca atcagaggga gaatagagat 361 gctaaggagc cacttactgg aacaattctg gaaatgtggg acggggaaat ctaccattat 421 ggcctgtatg tggagcgagg tcttgtacta ggtgtgcaca aaccaccagc tgccatcagc 481 ctcgctaagg ttgagctagc accactctcc ttgtactgga gacctgtgta cactcctcag 541 tacctcatct ctccagacac tctcaagaag ttatccggag aaacgttccc ctacacagcc 601 tttgacaaca actgttatgc cttttgttgc tgggtcctgg acctgaatga ctcgtggctg 661 agcaggagaa tgatccagag aacaactggt ttcttcaggc cctaccaaga ctggaatagg 721 aaaccccttc ccactatgga tgactccaaa ataaagaagg tagccaacat attcctgtgt 781 gctctgtcct cgctgttcac cagacccata aaagatataa tagggaagat aaggcctctt 841 aacatcctca acatcttagc atcatgtgat tggacttttg caggcatagt ggagtccctg 901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac ttggtgacta cgagctgcaa ggacctgagg accttgcagt ggaactcgtc 1021 cccgtagtga tggggggaat tggtttggtg ctaggattca ccaaagagaa gattgggaaa 1081 atgttgtcat ctgctgcgtc caccttgaga gcttgtaaag accttggtgc atatgggcta 1141 gaaatcctaa agttggttat gaagtggttc ttcccgaaga aggaggaggc aaatgagctg 1201 gctatagtga ggtctatcga ggatgcagtc ctagatctcg aggcaattga aaacaaccat 1261 atgaccacct tgctcaaaga caaagacagt ctggcaacct atatgagaac acttgacctt 1321 gaggaggaga aagccaggaa actctcaacc aagtctgcct cacccgacat cgtgggcaca 1381 atcaacgccc tcctggcgag aatcgctgcc gcacgttctc tggtgcatcg agcgaaggag 1441 gagctttcca gcagaccaag acctgtggtg ttgatgatat caggcaggcc aggaataggg 1501 aagacccacc tcgctaggga agtggctaag agaatcgcag cctcccttac aggagaccag 1561 cgtgtgggcc tcatcccacg caatggcgtc gaccattggg atgcgtacaa gggggagagg 1621 gtcgtcctat gggacgatta tggaatgagc aaccctattc acgatgccct caggctgcaa 1681 gaactcgctg acacttgccc cctcactcta aactgtgaca ggattgaaaa taaaggaaag 1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc accactggac 1801 tatgtcaact ttgaagcatg ctcgaggcgc atcgacttcc tcgtgtatgc agaagcccct 1861 gaagtcgaaa aggcgaagcg tgatttccca ggccagcctg acatgtggaa gaacgctttc 1921 agtcctgatt tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac 1981 gggaacaccc cgcacggaaa gggcgtcatg aagactctca ccactggctc ccttattgcc 2041 cgggcatcag ggctactcca tgagaggtta gatgaatttg aactacaggg cccagctctc 2101 acaaccttca atttcgatcg caataaagtg cttgccttta gacagcttgc tgctgaaaat 2161 aaatatggat tgatggacac aatgagggtt gggagacagc tcaaggatgt cagaactatg 2221 ccagaactca aacaagcact caagaatgtc tcaatcaaga agtgccaaat agtgtatagt 2281 ggttgcacct acatacttga gtctgatggc aagggcaatg tgaaagttga cagaatccaa 2341 agcgccgccg tgcagatcaa caacgagctg gctggtgccc tgcaccattt gaggagcgcc 2401 aggatcagat actatgtcaa gtgtgtccag gaggtcctgt attccatcat tcaaattgct 2461 ggggctgcat ttgtcaccac gcgcattgcc aagcgcatga acatacaaaa cctatggtcc 2521 aagccacaag tggaaaacac agaggagact accagcgagg acgggtgccc aaaacctaag 2581 gatgatgagg agtttgtcat ttcatccgac gacatcaaaa ctgagggtaa gaaagggaag 2641 aacaagactg gccgcggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa 2701 gagtacgatg agtacaagag gattagagaa gaaaggaatg gcaagtactc catagaagag 2761 taccttcagg acagggacaa atactatgag gaggtggcca ttgccagggc gactgaggaa 2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tctttaggcc aacaaggaaa 2881 caacgcaagg aggaaagagc ctctctcggt ctggtcacag gctctgaaat taggaaaaga 2941 aacccagatg acttcaaacc caaggggaaa ttgtgggctg acgatgacag gagtgtggac 3001 tacaatgaga aactcagttt tgaggcccca ccaagcatct ggtcgagaat agtcaacttt 3061 ggttcaggct ggggattctg ggtctccccc agtctgttca taacatcaac ccatgttata 3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca 3181 ggcgagttct gtcgcttgag attcccaaaa ccaatcagga ctgatgtgac gggcatgatc 3241 ctagaagaag gcgcacctga gggcaccgtg gtcacactac tcatcaaaag gtccactggg 3301 gaactcatgc ccctagcagc taggatgggg acccatgcga ccatgaagat ccaagggcgc 3361 accgttggag gccagatggg catgcttctg acaggatcca acgccaagag tatggacctg 3421 ggtactacac caggtgattg tggctgcccc tatatctaca agagaggtaa tgactatgtg 3481 gtcattggag tccacacggc tgccgcacgt gggggaaaca ctgtcatatg tgccacccag 3541 gggagtgaag gagaggctac acttgaaggt ggtgacaaca aggggacata ctgtggtgca 3601 ccaatcctag gcccagggag tgccccaaca cttagcacca agaccaaatt ctggagatcg 3661 tctacagcat cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct 3721 agagtcaagg gtggcccttc actgcagcaa gtcatgaggg aacagttgaa accattcaca 3781 gagccaagag gcaagccacc aaaaccaagt gtattagaag ctgccaagaa gaccatcatc 3841 aatgtccttg agcaaacaat tgatccacct gagaaatggt cgttcgcaca agcttgcgcg 3901 tcccttgaca agaccacttc cagtggtcat ccgcaccacg tgcggaaaaa cgactgctgg 3961 aacggggagt ccttcacagg caaactggca gaccaggctt ccaaggccaa cctgatgttt 4021 gaagaaggga agaacatgac cccagtctac acagctgcgc tcaaggatga gttagttaaa 4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcgga cttggcgacc 4141 atgatccggt gtgctcgagc attcggaggc ctaatggatg aactcaaagc acactgtgtc 4201 acgctcccca ttagagttgg catgaatatg aatgaggatg gccccatcat cttcgagagg 4261 cattccaggt acacatatca ctatgatgct gattactctc gatgggattc aacgcaacag 4321 agagccgtgt tggcagcagc tctcgaaatc atggtcaaat tctccccaga accacatttg 4381 gctcaggtag tcgcggaaga ccttctttct cctagcgtgg tggacgtggg cgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc 4501 gcccactggc ttctcactct ctgtgcgctc tccgaagtca caaacctatc ccctgatacc 4561 atacaggcta actccctctt ctctttttat ggtgatgatg aaattgttag cacagacata 4621 aaaatggacc cagagaaatt gacagcaaag ctcagagaat atgggttaaa accaacccgc 4681 cctgacaaaa ctgaaggacc ccttgtcatc tctgaagacc tgaatggcct aactttcctg 4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagttcaata 4801 cttaggcaaa tgtactggac taggggtccc aaccatggag acccatctga aacaatgatt 4861 ccacactccc aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc 4921 ccagcctttt acagcaaaat cagcaagttg gtcattgcag agctaaaaga aggtggcatg 4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga 5101 cgccaaccca tctgatgggt ccacagccaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctttggag cccgtagttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtatc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc 5341 ctacctttcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aatcctcgcg gggaacgcgt tcaccgccgg aaaaatcata tttgcagcag tcccaccaaa 5461 tttcccaact gaaggtttga gccccagcca ggtcactatg ttcccccata taatagtaga 5521 tgttaggcaa ttggaacctg tgttgatccc cttacccgat gttaggaata atttctacca 5581 ttataatcaa tcaaatgacc ccaccatcaa attgatagca atgctgtaca caccacttag 5641 ggctaataat gctggggacg atgtcttcac agtttcttgt cgagttctca cgagaccatc 5701 ccccgatttt gatttcatat ttttggtgcc acctacagtt gaatcaagaa ctaaaccatt 5761 ctctgtccca gttttaactg ttgaggagat gaccaattca aggttcccca ttcctttgga 5821 aaagttgttc acgggcccca gtagtgcctt tgttgttcaa ccacaaaatg gcaggtgcac 5881 gactgatggc gtgctcctag gtactaccca actgtcccct gtcaacatct gcaccttcag 5941 aggggatgtc acccacattc caggcagtcg taactacaca atgaatttgg cctcccaaaa 6001 ttggaacagt tacgatccaa cagaagaaat cccagcccct ctaggaactc cagatttcgt 6061 ggggaagatt caaggtgtgc tcacccaaac cacaaggaca aatggctcga cccgcggcca 6121 caaagctaca gtgtacactg ggagcgccga cttttctcca aaactgggta gagttcaatt 6181 tgccactgac acagacaatg attttgaaac caaccaaaac acaaagttca ccccagtcgg 6241 tgttatccag gatggtagta ccaccccccg aaatgaaccc caacaatggg tgctcccaag 6301 ttactcaggc agaaacattc ataatgtgca cctggccccc gctgtagccc ccaccttccc 6361 gggcgagcag ctcctcttct tcagatctac tatgcccgga tgcagcgggt accccaacat 6421 ggatttggac tgcctgctcc cccaggaatg ggtgcagtac ttctaccagg aggcagcccc 6481 agcacaatct gatgtggctc tgttaagatt tgtgaatcca gacacaggta gggttttgtt 6541 tgagtgtaag cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt 6601 ggttatcccc cccaatggtt attttagatt tgactcctgg gtcaaccagt tctacacact 6661 tgcccccatg ggaaatggga cggggcgtag acgtgcatta taatggctgg agctttcttt 6721 gctggattgg catctgacgt ccttggctct ggacttggtt ccctaatcaa tgctggggct 6781 ggggccatca accaaaaagt tgagtttgaa aataacagga aattgcaaca agcttccttc 6841 caatttagta gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gttgcaacag gaaatgatga gagttaaaca agcaatgctc 6961 ctagagggtg gattctctga gacagatgca gcccgtgggg caatcaacgc ccccatgaca 7021 aaaactttgg actggaacgg gacaaggtac tgggctcccg atgctaggac tacaacaaat 7081 aatgcaggcc gcttttccac ccctcaaccc tcgggggcgc taccaggaag agctaatctt 7141 agggctactg tccccgcccg gggttcctcc agtacgtctt ctaactcttc tattgctact 7201 tctgtgtatt caaatcaaac cacctcaacg agacttggtt ctacagctgg ttctggtacc 7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg 7321 aatttgtcac ctttcatgag gggggcccac aacatctcgt ttgtcacccc accatctagc 7381 agatcctcta gccaaggcac agtctcaacc gtgcccaaag aagttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgcaagcg aggggagtca 7501 cgggcgtaa //