Typing tool
|
Complete norovirus genomes
JN400599 | GII.4 Hunter | ||
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GII.P4 Hunter |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS JN400599 7509 bp RNA linear VRL 19-DEC-2013 DEFINITION Norovirus Hu/GII-4/CGMH01/2006/TW, complete genome. ACCESSION JN400599 VERSION JN400599.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/CGMH01/2006/TW ORGANISM Norovirus Hu/GII-4/CGMH01/2006/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/CGMH01/2006/TW" /mol_type="genomic RNA" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:1195613" /country="Taiwan" /collection_date="13-Jan-2006" /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="AFN09917.1" /translation="MKMASNDASAAAVANSNNDTAKPSSDGVLSSMAVTFKRALGARP KQPPPREIPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LARVELTPLSLFWRPVYTPQYLISPDALKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK LRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEASELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNSFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTSSLIARA SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIRKCQIVHNGCTYTLESDGKGNVKVDRVQSASVQTNNELTGALHHLR CARIRYYVRCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPKLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGS NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5081..6703 /gene="VP1" CDS 5081..6703 /gene="VP1" /note="ORF2" /codon_start=1 /product="major viral capsid protein" /protein_id="AFN09918.1" /translation="MKMASNDATPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGTQNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTSRDGSTRGHKATVSTGSVHFTPKLGSVQFSTDTSNDFETGQNTRFTPVGVVQDG STTHQNEPQQWVLPNYSGRDSHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD CLLPQEWVQHFYQESAPAQSDVALLRFVNPDTGRVLFECKLHKPGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6703..7509 /gene="VP2" CDS 6703..7509 /gene="VP2" /note="ORF3" /codon_start=1 /product="minor viral capsid protein" /protein_id="AFN09919.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAVN APMTKALDWSGTRYWAPDARTTTYNAGRFSNPQPPGAAPGGTNLRATVPARGSSSIPS SASIATSVHSNQTASTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSNRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc 61 gcaaaacctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaagcagcc tcccccgagg gaaataccac aaagaccccc acgaccacct 181 actccagaac tggtcaaaaa tattcccccc cccccgccca acggagagga tgaaatagtg 241 gtttcttata gtgtcaaaga tggcgtttcc ggtttgcctg atctctccac cgtcaggcaa 301 ccggaagaat ctaacacggc cttcagtgtc cctccactca atcagaggga gaatagagat 361 gctaaggagc cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat 421 ggcctgtatg tggagcgagg tcttgtacta ggtgtgcaca aaccaccagc tgccattagc 481 ctcgctaggg tcgaactaac accactctcc ttgttctgga gacctgtgta tactccacag 541 tacctcatct caccggatgc tctcaagaaa ttacacggag agacgttccc ctacacagcc 601 tttgacaaca attgctatgc cttttgttgc tgggtcctgg acctaaacga ctcgtggctg 661 agtaggagaa tgatccagag aacaactggc ttcttcaggc cttaccaaga ttggaatagg 721 aaacccctcc ccactatgga tgactccaag ttaaagaagg tagctaacat attcctgtgt 781 gctttgtctt cgctattcac caggcccata aaagatataa tagggaagct aaggcctctt 841 aacatactca acatcttggc ctcatgtgat tggacttttg caggcatagt ggagtccttg 901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac tcggtgatta cgagctacaa ggacctgagg accttgcagt ggagctcgtc 1021 cctgtagtga tggggggaat tggtttggtg ctaggattca ccaaagagaa aattggaaag 1081 atgttgtcat ctgctgcttc caccttgaga gcttgtaaag atcttggtgc atacgggcta 1141 gagatcctaa agttggtcat gaagtggttc ttcccgaaga aagaggaagc aagtgaactg 1201 gctatagtga gatccatcga ggatgcagtc ctggatctcg aggcaattga aaacaaccat 1261 atgaccacct tgctcaaaga caaagacagt ctggcaacct acatgagaac ccttgacctt 1321 gaggaggaga aagccaggaa actctcaacc aagtctgctt cacctgacat cgtgggcaca 1381 atcaacgccc ttctggcgag aattgctgct gcacgctctc tggtgcatcg agcgaaggag 1441 gaactttcca gcagaccaag acctgtggtg ttgatgatat caggcagacc aggaataggg 1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctcccttac aggagaccag 1561 cgtgtgggcc tcgtcccacg caatggcgtc gaccattggg atgcgtacaa gggggagagg 1621 gtcgtcctat gggacgacta tggaatgagc aaccccatcc acgatgccct caggttgcaa 1681 gaactcgctg acacttgccc cctcacccta aactgtgaca ggattgagaa taaaggaaag 1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ctaacccagc accactggac 1801 tatgtcaact ttgaagcatg ttcgaggcgc atcgacttcc tcgtgtatgc agaagcccct 1861 gaggtcgaaa aggcgaaacg tgacttccca ggccaacccg acatgtggaa gaactccttc 1921 agttctgatt tctcacacat aaaactgaca ttggctccac agggtggctt cgacaagaac 1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccactagctc ccttattgcc 2041 cgggcatcag ggctactcca tgagaggcta gatgaatttg agctgcaggg cccaactctc 2101 accaccttca actttgatcg caacaaagtg cttgccttta gacaacttgc tgctgaaaac 2161 aaatatgggt tgatggacac aatgaaagtt gggaggcagc tcaaggatgt caaaacaatg 2221 ccagagctta aacaagcact caagaatatc tcaatcagga agtgccagat agtgcataat 2281 ggttgcacct acacacttga gtctgatggc aagggcaatg tgaaagttga cagagttcaa 2341 agcgcctccg tgcagaccaa caatgagctg actggcgccc tgcaccatct aaggtgcgct 2401 agaataagat attatgtcag gtgtgtccag gaggccctgt attccatcat ccagattgct 2461 ggagccgcat ttgtcaccac gcgcatcgtc aagcgcatga acatacaaga cctatggtcc 2521 aagccacaag tggaaaacac agaggagacc accagcaagg acgggtgtcc aaaacccaaa 2581 gatgatgagg agttcgtcat ttcatccgac gacatcaaaa ctgagggtaa gaaagggaag 2641 aacaagactg gccgcggcaa gaagcacaca gccttctcaa gcaaaggtct cagtgatgaa 2701 gagtacgatg agtacaagag gattagagag gaaaggaatg gcaagtactc catagaagag 2761 taccttcagg acagggacaa atactatgag gaggtggcca ttgccagggc gaccgaggag 2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tcttcaggcc aactaggaaa 2881 caacgcaagg aggaaagagc ttctctcggt ttagttacag gttctgaaat taggaaaaga 2941 aacccagatg atttcaaacc caaggggaaa ctgtgggctg acgatgacag aagtgtagac 3001 tataatgaga aactcagttt tgaagcccca ccaagcatct ggtcgaggat agtcaacttt 3061 ggttcaggtt ggggattctg ggtctccccc agtctgttca taacatcaac ccatgtcata 3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt acataagtca 3181 ggcgaattct gtcgcttgag attcccaaaa ccaatcagaa ctgatgtgac gggcatgatc 3241 ttagaagaag gtgcacccga gggcaccgtg gtcacactac tcatcaagag atccactgga 3301 gaactcatgc ccctagcagc taggatgggg acccatgcaa ccatgaaaat ccaaggacgc 3361 actgttggag gtcaaatggg catgcttctg acaggatcca acgccaaaag catggatctg 3421 ggtactacac caggtgattg tggctgcccc tacatctaca agagaggaaa tgactatgtg 3481 gtcattggag tccacacggc tgccgctcgt gggggaaaca ctgtcatatg tgccacccag 3541 gggagtgagg gagaggccac acttgaaggt ggtgacaata aagggacata ctgtggtgca 3601 ccaatcctag gcccagggag tgctccaaaa cttagcacca agaccaaatt ctggaggtcg 3661 tccacagcat cactcccacc tggcacctat gaaccagcct atcttggtgg caaggacccc 3721 agagtcaagg gtggcccttc actgcagcaa gtcatgaggg atcagttgaa gccatttaca 3781 gagcccaggg gcaagccacc aaagccaagt gtgttggaag ctgccaagaa aaccatcatc 3841 aatgtccttg agcagacaat tgatccacct gaaaagtggt cattcgcaca agcttgcgcg 3901 tcccttgaca agaccacttc cagtggccat ccgcaccaca tgcggaaaaa cgactgctgg 3961 aacggggagt ccttcacagg caagctagca gaccaggctt ccaaggccaa cctgatgttt 4021 gaagaaggga agaacatgac cccagtctac acagctgcgc ttaaggatga attagttaag 4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcgga tttggcgacc 4141 atgattcggt gtgctcgagc attcggaggc ctaatggatg agctcaaagc gcactgtgtc 4201 acacttccca ttagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagagg 4261 cattccaggt acacatacca ctatgatgct gattactctc gatgggattc aacacaacag 4321 agagccgtgt tggcagcagc tctagaaatc atggtcaaat tctccccaga accacatttg 4381 gctcaggtag tcgcagaaga cctcctttct cctagcgtgg tggacgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc 4501 gcccactggc ttctcactct ctgtgcgctc tccgaagtta caaacttgtc tcctgacacc 4561 atacaggcta attccctctt ctctttttat ggtgatgatg aaattgttag cacagatata 4621 aaattggacc cagagaagtt gacagcaaag ctcagggaat atgggttgaa gccaacccgc 4681 cctgataaaa ctgaaggacc ccttgtcatc tctgaagact taaatggcct gactttcctg 4741 cggagaactg ttacccgcga cccagctggc tggtttggaa aattggagca gagttcaata 4801 ctcaggcaaa tgtactggac taggggttcc aaccatgaag atccatctga aacaatgatc 4861 ccacactccc aaagacccat acaattgatg tccctactgg gggaggccgc actccacggc 4921 ccggcattct atagcaaaat cagcaagtta gtcattgcag agctaaaaga aggtggcatg 4981 gatttttacg tgcccagaca agagcctatg ttcagatgga tgagattctc agatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga 5101 cgccacccca tctgatgggt ccacagccaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctttggag cccgttgttg gtgccgcgat tgcggcacct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtatc 5281 ccctagaaac gctccaggtg aaatattatg gagcgcaccc ttgggccctg atttgaatcc 5341 ctacctctcc cacttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aatcctcgcg gggaacgcgt tcaccgccgg gaaaatcata tttgcagcag tcccaccaaa 5461 tttcccaact gaaggtttga gccccagcca ggtcactatg ttcccccata taatagtaga 5521 tgttaggcaa ctggaacctg tgttgatccc cctgcctgat gttaggaata atttttatca 5581 ttacaaccaa tcaaatgacc ccaccatcaa attgatagca atgctgtata caccactcag 5641 ggctaacaat gctggggacg atgtcttcac agtctcttgt cgagttctca cgagaccatc 5701 ccctgatttt gatttcatat ttctggtgcc acccacagtt gagtcaagaa ctaaaccatt 5761 ctctgtccca atcttaactg ttgaggagat gaccaattca agattcccta ttcctctgga 5821 aaagttgttc acgggtccca gcagtgcctt tgttgttcag ccacaaaatg gcagatgcac 5881 gactgatggc gtgctcttag gtactaccca attgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacattg caggtactca aaattacaca atgaatctgg cctctcaaaa 6001 ttggaacaat tatgacccaa cagaagaaat cccagcccct ctgggaaccc cagattttgt 6061 aggaaagatc caaggcgtgc tcacccaaac cacaagtagg gatggctcga cccgcggtca 6121 caaagccaca gtgagcactg gaagtgtcca cttcacccca aagctgggca gtgtccagtt 6181 ctccactgat acaagcaatg attttgaaac tggccaaaac acgagattca ccccagtcgg 6241 tgttgtccag gatggtagta ccacccacca aaatgaaccc caacaatggg tgctcccaaa 6301 ctattcaggt agagatagtc acaatgtaca cctagcccct gccgtggccc ccactttccc 6361 gggtgagcaa ctccttttct ttaggtccac tatgcccggg tgcagcgggt atcccaacat 6421 gaatttggat tgcctactcc cccaggagtg ggtgcaacac ttctaccaag agtcagctcc 6481 agcacaatct gatgtggcac tgttgagatt tgtgaatcca gacacaggta gggtcttgtt 6541 tgagtgcaag cttcataaac caggctatgt aacagtggct cacactggcc aacatgattt 6601 ggttatcccc cccaatggct attttagatt tgattcctgg gtcaaccaat tctacacact 6661 tgcccccatg ggaaatggag cggggcgtag acgtgcattg taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggttcc ggacttggct ccctaatcaa tgctggggct 6781 ggggccatca atcaaaaagt tgagtttgaa aataacagaa aattgcaaca agcttccttc 6841 cagtttagca gcaacctaca acaggcttcc tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gttgcaacag gaaatgatga aagttaaaca ggcaatgctc 6961 ctagagggtg ggttctctga gacagatgcg gcccgtgggg cagtcaacgc ccccatgaca 7021 aaggctttgg actggagcgg aacaaggtac tgggctcccg atgctaggac tacaacatac 7081 aatgcaggcc gcttttccaa ccctcaaccc ccgggggcag cgccaggggg aactaatctc 7141 agggctaccg tccccgctcg gggctcctcc agcatacctt ctagtgcttc tattgctact 7201 tctgtgcact caaatcaaac tgcttcaacg agacttggtt ctacagctgg ttctggtacc 7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga ccaaaacagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctaat 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca 7501 cgtgtgtaa //