Typing tool
|
Complete norovirus genomes
AB447440 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 3..5102 ORF2: 5083..6705 ORF3: 6705..7511LOCUS AB447440 7511 bp RNA linear VRL 05-NOV-2008 DEFINITION Norovirus Hu/GII-4/Miyagi2/2006/JP genomic RNA, complete genome. ACCESSION AB447440 VERSION AB447440.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Miyagi2/2006/JP ORGANISM Norovirus Hu/GII-4/Miyagi2/2006/JP Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Motomura,K., Oka,T., Yokoyama,M., Nakamura,H., Mori,H., Ode,H., Hansman,G.S., Katayama,K., Kanda,T., Tanaka,T., Takeda,N. and Sato,H. CONSRTM and the Norovirus Surveillance Group of Japan TITLE Identification of monomorphic and divergent haplotypes in the 2006-2007 norovirus GII/4 epidemic population by genomewide tracing of evolutionary history JOURNAL J. Virol. 82 (22), 11247-11262 (2008) PUBMED 18768979 REFERENCE 2 (bases 1 to 7511) AUTHORS Motomura,K. and Sato,H. TITLE Direct Submission JOURNAL Submitted (14-JUL-2008) Contact:Kazushi Motomura National Institute of Infectious Diseases, Center for Pathogen Genomics; Gakuen 4-7-1, Musashi-Murayama, Tokyo 208-0011, Japan COMMENT These sequences were determined at our laboratory. FEATURES Location/Qualifiers source 1..7511 /organism="Norovirus Hu/GII-4/Miyagi2/2006/JP" /mol_type="genomic RNA" /strain="Hu/GII-4/Miyagi2/2006/JP" /isolation_source="stool" /db_xref="taxon:546964" /country="Japan:Miyagi" CDS 3..5102 /note="contains N-terminal, NTPase, 3A, VPg, 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAG70466.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP KQPPPREIPQGPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS FAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIRLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNEDGC PKPKDNEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKDGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5083..6705 /codon_start=1 /product="VP1" /protein_id="BAG70467.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNVQNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6705..7511 /codon_start=1 /product="VP2" /protein_id="BAG70468.1" /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPARGSPSTSS NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 gaatgaagat ggcgtctaac gacgcttccg ctgccgctgt tgctaacagc aacaacgaca 61 ccgcaaaatc ttcaagtgac aaaatgtttt ctagcatggc tgtcactttt aaacgagccc 121 tcggggcgcg gcctaaacag ccccccccga gggaaatacc acaaggaccc ccacgaccac 181 ccactccaga actggtcaaa aagatccctc ctcccccgcc caacggagag gatgaagtag 241 tggtttctta tagtgccaaa gatggcgttt ccggtttacc tgagctttcc accgtcaggc 301 aaccggaaga aaccaatacg gccttcagtg tccctccact caatcagagg gagaataggg 361 atgctaagga accactgact ggaacaattc tggaaatgtg ggatggagaa atctaccatt 421 atggcctgta tgttgagcga ggtcttgtgc tgggtgtgca caaaccacca gctgccatta 481 gcttcgccaa ggtcgaacta acaccactct ccttgttctg gagacctgtg tacactcctc 541 agtacctcat ctctccagac actctcaaga aattacacgg agaaacattt ccctacacag 601 cctttgacaa caattgctat gccttttgtt gctgggtcct ggatctaaac gactcgtggc 661 tgagtaggag aatgatccag agaacaactg gcttcttcag accctaccaa gattggaata 721 ggaaacccct ccccactatg gatgactcca aattaaagaa ggtagctaac atattcctgt 781 gcaccctgtc ttcgctattc accaggccca taaaagacat aatagggaag ttaaggcctc 841 tcaacatcat caacatcctg gcttcatgtg attggacttt cgcaggcata gtggagtcct 901 tgatactctt ggcagagctc tttggagtct tctggacacc cccagatgtg tctgcgatga 961 ttgccccctt actcggtgat ttcgagttac aaggacctga ggaccttgta gtggagctcg 1021 tccctgtagt aatgggggga attggtttgg tgctaggatt caccaaagag aagattggaa 1081 aaatgttgtc atctgctgca tctaccttga gagcttgtaa agatcttggt gcatatgggc 1141 tagagatcct aaagttagtc atgaagtggt tcttcccgaa gaaagaggaa gcaaatgaac 1201 tggctatggt gagatccatc gaggatgcag tactggacct tgaggcaatt gaaaacaacc 1261 atatgaccac cttgctcaaa gacaaagaca gcctggcaac ctatatgaga acccttgacc 1321 tcgaggaaga gaaagccaga aaactctcaa ccaagtctgc ttcacctgac atcgtgggca 1381 caatcaacgc ccttctggcg agaatcgccg ctgcacgctc cctggtgcac cgagcgaagg 1441 aggagctttc cagcagacca agacctgtag tcttgatgat atcaggcaga ccaggaatag 1501 ggaagaccca ccttgctagg gaagtggcta agagaatcgc agcctccctc acaggagacc 1561 agcgtgtagg cctcatccca cgcaatggcg tcgatcactg ggacgcgtac aagggggaga 1621 gggtcgtcct atgggacgac tatggaatga gcaatcccat ccacgacgcc ctcaggctac 1681 aagaactcgc tgacacttgc cccctcactc taaattgtga caggattgag aataaaggaa 1741 aggtctttga cagcgatgtc atcattatca ctactaacct ggccaaccca gcaccactgg 1801 actatgtcaa ctttgaagcg tgctcgaggc gcatcgattt cctcgtgtat gcagaagccc 1861 ccgaggtcga aaaggcgaag cgtgacttcc cgggccaacc tgacatgtgg aaaaacgctt 1921 ttagttctga tttctcacac ataagattgg cactggctcc acaaggtggc tttgataaga 1981 acgggaacac cccacacggg aagggcgtca tgaagactct caccactggc tccctcattg 2041 cccgggcatc agggctgctc catgagaggt tggatgagtt tgaactacag ggcccagctc 2101 ttaccacctt caactttgac cgcaacaaag tgcttgcctt caggcagctt gctgctgaaa 2161 acaaatacgg gttgatggac acaatgaaag ttgggaggca gctcaaggat gtcaaaacca 2221 tgccagaact taaacaagca ctcaagaata tctcaatcaa gaagtgccag attgtgtata 2281 gtggttgcac ctacacactt gagtctgatg gcaagggcaa tgtgaaagtt gacagagttc 2341 agagcacctc cgttcagacc aacaatgagc tggctggcgc cctgcaccat ctaaggtgcg 2401 ccagaatcag gtactatgtc aagtgtgttc aggaggccct gtattctatc atccagattg 2461 ctggggctgc atttgtcacc acgcgcatca tcaagcgtgt gaacattcaa gacttatggt 2521 ccaagccaca agtggaaaac acagaggagg ctaccaacga ggacgggtgc ccaaagccca 2581 aagataatga ggagttcgtc atttcgtctg acgacattaa aactgagggt aagaaaggga 2641 agaacaagac tggccgtggc aagaagcaca cagccttctc aagtaaaggt ctcagtgatg 2701 aagagtatga tgagtacaag agaattagag aggaaaggaa tggcaagtac tccatagaag 2761 agtaccttca ggacagggac aaatactatg aggaggtggc cattgccagg gcgaccgagg 2821 aagacttctg tgaagaggag gaggccaaga tccggcaaag gatcttcaga ccaacaagga 2881 aacaacgcaa ggaagaaaga gcttctctcg gtttagtcac aggttctgaa attaggaaaa 2941 ggaacccaga agacttcaag cctaagggga aactatgggc tgacgatgac agaagtgtgg 3001 actacaatga aaaactcagc tttgaggccc caccaagcat ctggtcaagg atagtcaact 3061 ttggctcagg ttggggcttc tgggtctccc ccagcctgtt cataacatca acccacgtca 3121 taccccaggg cgcaaaggag ttctttggag tccccatcaa acaaattcag gtacacaagt 3181 caggcgaatt ctgtcgcttg aggttcccaa aaccaatcag gactgatgtg actggcatga 3241 tcttggaaga aggtgcgccc gaaggcaccg tggtcacact actcatcaaa aggtctactg 3301 gagaactcat gcccctagca gctagaatgg ggacccatgc aaccatgaaa attcaagggc 3361 gcactgttgg aggtcagatg ggcatgcttc tgacaggatc caacgccaaa agcatggatc 3421 taggcaccac accaggtgat tgcggctgtc cctacattta caagagagga aatgactatg 3481 tggtcattgg agtccacacg gctgccgctc gtgggggaaa cactgtcata tgtgccaccc 3541 aggggggtga gggggaagct acacttgaag gtggtgacag taagggaaca tactgtggtg 3601 caccaatcct aggcccaggg agtgccccaa aacttagcac caaaaccaaa ttctggagat 3661 catccacagc accactccca cctggcacct atgaaccagc ctaccttggt ggcaaggacc 3721 ccagagtcaa ggatggcccc tcgttgcagc aagtcatgag ggaccagctg aaaccattta 3781 cagagcctag gggtaagcca ccaaagccaa gcgtgttaga agctgccaag aaaaccatca 3841 tcaatgtcct tgaacaaaca attgacccac ctgagaagtg gtcgttcgca caagcttgcg 3901 cgtcccttga caagaccact tctagcggcc atccgcacca catgcggaaa aacgactgct 3961 ggaacgggga atccttcaca ggcaagctgg cagaccaggc ttccaaggcc aacctgatgt 4021 ttgaagaagg gaagaacatg accccagtct acacaggtgc acttaaagat gagttagtca 4081 aaactgacaa aatttatggt aagatcaaga agaggcttct ctggggctcg gatttagcaa 4141 ccatgatccg gtgtgctcga gcattcggag gtctaatgga tgaactcaaa gcacactgtg 4201 tcacacttcc tatcagagtt ggtatgaata tgaatgagga tggccccatc atcttcgaga 4261 agcattccag gtacagatac cactatgatg ctgattactc tcggtgggat tcaacacagc 4321 agagagccgt gctggcagct gctctagaaa tcatggttaa attctcctca gaaccacatt 4381 tggctcaggt agtagcagaa gaccttcttt ctcctagcgt ggtggatgtg ggtgacttca 4441 caatatcaat caacgagggt cttccctctg gggtgccctg cacctcccaa tggaactcca 4501 tcgcccactg gcttctcact ctctgtgcac tctccgaagt cacaaatttg tccccagaca 4561 tcatacaggc taattctctc ttctccttct atggtgatga tgaaattgtt agtacagaca 4621 taaaattaga cccagagaag ttgacagcaa agcttaagga atacgggttg aaaccaaccc 4681 gccctgataa aactgaagga cctcttgtta tttctgaaga cttagatggt ttgactttcc 4741 tgcggagaac tgtgacccgc gacccagctg gttggtttgg aaaactggag cagagctcaa 4801 tactcaggca aatgtactgg actaggggcc ccaaccatga agatccatct gaatcaatga 4861 ttccacactc tcaaagaccc atacaattga tgtccttact gggagaggcc gcactccacg 4921 gcccaacatt ctacagtaaa atcagtaaat tagtcattgc agagctaaaa gaaggtggta 4981 tggattttta cgtgcccagg caagagccaa tgttcagatg gatgagattc tcagatctga 5041 gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgaat 5101 gacgccaacc catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt 5161 atggctttgg agcccgttgt cggtgccgct attgcggcgc ctgtagcggg ccaacaaaat 5221 gtaattgacc cctggattag aaataatttt gtacaagccc ctggtggaga gttcacagta 5281 tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccttaggccc tgatctgaat 5341 ccctacctat ctcatttggc cagaatgtat aatggttatg caggtggttt tgaagtgcag 5401 gtgatcctcg cggggaacgc gttcaccgcc ggaaaaatta tatttgcagc agtcccacca 5461 aattttccaa ctgaaggctt gagtcccagc caggtcacta tgttccccca cataatagtg 5521 gatgttaggc aattggaacc tgtgttgatc cccttacctg atgttaggaa taacttctat 5581 cactataatc agtcaaatga ttctaccatt aaattgatag caatgctgta tacaccactt 5641 agggctaata atgctgggga agatgtcttc acagtctctt gtcgagttct cacgaggcca 5701 tcccctgatt ttgattttat atttttggtg ccacctacag ttgagtcaag aactaaacca 5761 tttactgtcc caatcttaac tgttgaagaa atgaccaatt caagattccc cattcctttg 5821 gaaaaattgt tcacgggtcc cagcagtgcc tttgttgttc aaccacaaaa tggcagatgc 5881 acgactgatg gcgtgctctt aggcaccacc caactgtctc ctgtcaacat ctgcaccttc 5941 agaggggatg tcacccacat tgcaggttct cgtaattaca caatgaattt ggcttctcta 6001 aattggaaca attatgaccc aacagaagaa attccagccc ctctaggaac tccagatttc 6061 gtgggaaaga tccaaggtgt gctcactcaa accacaaagg gagatggctc gacccgtggc 6121 cataaagcta cagtttacac tgggagtgcc ccctttactc caaagctggg cagtgttcag 6181 ttcagtactg atacagaaaa tgattttgaa actcaccaaa acacaaaatt caccccagtc 6241 ggtgtcatcc aggatggtag caccacccac cgaaatgaac cccaacaatg ggtgctccca 6301 agttattcag gtagaaatgt ccaaaatgta cacctagccc ctgctgtagc ccccactttt 6361 ccgggtgaac aacttctttt ctttaggtcc actatgcccg gatgcagcgg gtatcccaac 6421 atggatttgg attgcctact cccccaggag tgggtgcagc acttctacca agaggcagct 6481 ccagcacaat ctgatgtggc tctattgaga tttgtgaatc cagacacggg tagggtcctg 6541 tttgagtgca aactccataa atcaggctat gtcacagtgg ctcacaccgg tcagcatgat 6601 ttggtcatcc cccccaatgg ttattttagg tttgattcct gggttaatca attctacaca 6661 cttgccccca tgggaaatgg aacggggcgt agacgtgctt tataatggct ggagctttct 6721 ttgctggatt ggcatctgat gtccttagct ctggacttgg ttccctaatc aatgctgggg 6781 ctggggctat caaccaaaag attgattttg aaaataacag aaaattgcag caagcttcct 6841 tccagtttag cagtaatcta caacaggctt cctttcaaca tgataaagag atgctccaag 6901 cacaaattga ggccactaaa aagttgcaac aggaaatgat gaaagtcaaa caggcaatgc 6961 tcttagaagg tggattctct gaaacagatg cagcccgtgg ggcaatcaac gcccctatga 7021 caaaggcttt ggactggagc ggaacaaggt actgggcccc tgatgctagg actacaacat 7081 acaatgcagg ccgtttttcc acccctcaac cttcgggggc actgccagga agaatcaatc 7141 ccaggactcc tacccccgct cggggctccc ccagcacatc ttctaatgct tctactgcta 7201 cttctatata ttcaaatcaa actgtttcaa cgagacttgg ttctacagct ggttctggca 7261 ccaatgtctc gagtctcccg tcaactgcaa ggactaggag ttgggttgag gatcaaaaca 7321 gaaatttgtc acctttcatg aggggggctc acaacatatc gtttgtcacc ccaccatcta 7381 gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agaagttttg gactcctgga 7441 ctggcgcttt caacacgcgc aggcagcctc tcttcgctca cattcgtagg cggggggagt 7501 cacgggtgta a //