Typing tool
|
Complete norovirus genomes
AB541233 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7497LOCUS AB541233 7497 bp RNA linear VRL 03-AUG-2010 DEFINITION Norovirus Hu/GII-4/Chiba4/2008/JP genomic RNA, complete genome. ACCESSION AB541233 VERSION AB541233.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Chiba4/2008/JP ORGANISM Norovirus Hu/GII-4/Chiba4/2008/JP Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Motomura,K., Yokoyama,M., Ode,H., Nakamura,H., Mori,H., Kanda,T., Oka,T., Katayama,K., Noda,M., Tanaka,T., Takeda,N. and Sato,H. CONSRTM Norovirus Surveillance Group of Japan TITLE Genome Recombination for Independent and Concurrent Evolution of Non-structural and Capsid Proteins of Norovirus GII/4 in Humans JOURNAL Unpublished REFERENCE 2 (bases 1 to 7497) AUTHORS Motomura,K. and Sato,H. TITLE Direct Submission JOURNAL Submitted (12-JAN-2010) Contact:Kazushi Motomura National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..7497 /organism="Norovirus Hu/GII-4/Chiba4/2008/JP" /mol_type="genomic RNA" /strain="Hu/GII-4/Chiba4/2008/JP" /isolation_source="stool" /db_xref="taxon:707416" /country="Japan:Chiba" CDS 1..5100 /note="contains N-terminal NTPase 3A VPg 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAJ13629.1" /translation="MKMASNDASATAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTVNALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARVRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGC PEPKDIEEFVISSDDIKTEGKKGKNKAGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTVKLR EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /codon_start=1 /product="VP1" /protein_id="BAJ13630.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNVPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKAGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6703..7497 /codon_start=1 /product="VP2" /protein_id="BAJ13631.1" /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA SNQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNPRAPTPARGSPSTSS NASTATSIYSNQTVSTRLGSSTNVSSPPSTARTRSWVEDQNRNLSPFMRGAHNISFVT PPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLSAHIRRRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct accgctgttg ctaacagcaa caacgacacc 61 gcaaaatctt caagtgacaa aatgttttct agcatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct 181 actccagaat tggtcaaaaa gatccctcct cccccgccca acggggagga tgaagtagtg 241 gtttcttata gtgccaaaga tggcgtttcc ggtttacctg agctttccac cgtcaggcaa 301 ccggaagaaa ccaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat 361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggggaaat ctaccattat 421 ggcctgtatg ttgagcgagg tcttgtgttg ggtgtgcaca aaccaccagc tgccattagc 481 ctcgccaagg tcgaactaac accactctcc ctgttctgga gacctgtgta cactcctcag 541 tacctcatct ctccagacac tctcaagaaa ttacacggag aaacattccc ctatacagcc 601 ttcgacaaca actgctatgc cttttgttgc tgggtcctgg acctaaacga ctcgtggctg 661 agtaggagaa tgatccagag aacgactggc ttcttcagac cctaccaaga ttggaatagg 721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagctaatat attcctgtgc 781 accctgtctt cgctattcac caggcccata aaagacataa tagggaagct aaggcctctc 841 aacatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccttg 901 atactcttgg cagaactctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac tcggtgattt cgagttacaa ggacctgagg accttgtagt ggagctcgtc 1021 cctgtggtaa tggggggaat tggtttggtg ctaggattca ccaaagagaa gattggaaaa 1081 atgttgtcat ctgctgcatc taccttgaga gcttgtaaag atcttggtgc atatgggcta 1141 gagatcctaa agttagtcat gaagtggttc tttccgaaga aagaggaagc aaatgagctg 1201 gctatggtga gatccatcga ggatgcagta ctggaccttg aggcaattga aaacaatcat 1261 atgaccacct tgctcaaaga taaagacagc ctagcaacct atatgagaac ccttgacctc 1321 gaggaagaga aagccagaaa actctcaacc aagtctgctt cacctgacat cgtgggcaca 1381 gtcaacgccc ttctggcgag aatcgccgct gcacgctccc tggtgcaccg agcgaaggag 1441 gagctttcca gcagaccaag acctgtagtc ttgatgatat caggcaggcc aggaataggg 1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag 1561 cgtgtgggcc tcatcccacg caatggcgtc gatcactggg atgcgtacaa gggggagagg 1621 gtcgtcctat gggacgacta tggaatgagc aatcccatcc acgacgccct caggctgcaa 1681 gaactcgctg acacttgccc tctcactcta aattgtgaca ggattgagaa taaaggaaag 1741 gtttttgaca gcgatgtcat catcatcact accaacctgg ccaacccagc accactggac 1801 tatgtcaact ttgaagcgtg ctcgaggcgc atcgacttcc tcgtgtatgc agaagccccc 1861 gaggtcgaaa aggcgaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt 1921 agttctgatt tctcacacat aaaattggca ctggctccac aaggtggctt tgacaagaac 1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccactggctc cctcattgcc 2041 cgggcatcag ggctgctcca tgagagactg gatgagtttg aactacaggg cccagctctt 2101 accaccttca actttgaccg caacaaagtg cttgccttca ggcagcttgc tgctgaaaac 2161 aaatacgggt tgatggacac aatgaaagtt gggaggcagc tcaaggatgt caaaaccatg 2221 ccagaactta aacaagcact caagaatatc tcaatcaaga agtgccagat tgtgtatagt 2281 ggttgcacct acacacttga gtctgatggt aagggcaatg taaaagttga cagagttcag 2341 agcacctccg ttcagaccaa caatgagctg gctggcgccc tgcaccatct aaggtgcgcc 2401 agagtcaggt actatgtcaa gtgtgttcag gaggccctgt actctatcat ccagattgct 2461 ggggctgcat ttgtcaccac gcgcatcatc aagcgtgtaa acattcaaga cttatggtcc 2521 aagccacaag tggaaaacac agaggaggct accaacaagg acgggtgccc agaacccaaa 2581 gatattgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag 2641 aacaaggctg gccgtggcaa gaagcacaca gccttctcaa gtaaaggtct cagtgatgaa 2701 gagtatgatg agtacaagag aattagagag gagaggaatg gcaagtactc catagaagag 2761 tacctacagg acagggacaa atactatgag gaggtggcta ttgccagggc gaccgaggag 2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tctttagacc aacaaggaaa 2881 caacgcaagg aagaaagagc ttctctcggt ctagtcacag gttctgaaat taggaaaagg 2941 aacccagaag acttcaagcc taaggggaaa ctatgggctg acgatgacag aagtgtggac 3001 tacaatgaaa aactcagctt tgaggcccca ccaagcatct ggtcaaggat agtcaacttt 3061 ggctcaggtt ggggcttctg ggtctccccc agcctgttca taacatcaac ccacgtcata 3121 cctcagggcg caaaggagtt ctttggagtc cccatcaaac aaatccaggt gcacaagtca 3181 ggcgaattct gtcgcttgag gttcccaaaa ccaatcagga ctgatgtgac tggcatgatc 3241 ttggaagaag gtgcgcccga aggcaccgtg gtcacactac tcatcaaaag gtctactgga 3301 gaactcatgc ccctagcagc tagaatgggg acccatgcaa ccatgaagat tcaagggcgt 3361 actgttggag gtcagatggg catgcttctg acaggatcca acgccaaaag tatggatcta 3421 ggcaccacac caggtgattg cggctgtccc tacatctaca agagaggaaa tgactatgtg 3481 gtcattggag tccacacggc tgccgctcgt gggggaaaca ctgtcatatg tgccacccag 3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca 3601 ccaatcctag gtccagggag tgccccaaaa cttagtacca aaaccaaatt ctggagatca 3661 tccacagcac cactcccacc tggcacctat gaaccagcct acctaggtgg caaggacccc 3721 agggtcaagg gtggcccctc gttgcagcaa gtcatgaggg accagctgaa accatttaca 3781 gagcctaggg gtaagccacc aaagccaagc gtgttagaag ctgccaagaa aaccatcatc 3841 aatgtccttg agcaaacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg 3901 tcccttgaca agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg 3961 aacggggaat ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt 4021 gaagaaggga agaacatgac cccagtctac acaggtgcac ttaaggatga attagtcaaa 4081 actgacaaag tttatggtaa gatcaagaag aggcttctct ggggctcgga tttagcaacc 4141 atgatccggt gtgctcgagc attcggaggc ctaatggatg aactcaaagc acactgtgtc 4201 acacttccta tcagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagaag 4261 cattccaggt acagatacca ctatgatgct gattactctc ggtgggattc aacacaacag 4321 agagccgtgc tggcagctgc tctagaaatc atggttaaat tctcctcaga accacacttg 4381 gctcaggtag tggcagaaga ccttctttct cctagcgtgg tggatgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc 4501 gcccactggc tcctcactct ttgtgcactc tctgaagtca caaatttgtc cccagacatc 4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata 4621 aaactagacc cagagaagtt gacagtaaag cttagggaat acgggttgaa accaactcgc 4681 cctgataaaa ctgaaggacc tcttgttatc tctgaagact tagatggttt gactttcctg 4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata 4801 ctcaggcaaa tgtactggac taggggcccc aaccatgaag atccatctga atcaatgatt 4861 ccacactctc aaagacccat acaattgatg tccttactgg gagaggccgc actccacggc 4921 ccaacattct acagtaaaat cagcaaatta gtcattgcag agcttaaaga aggtggtatg 4981 gatttttacg tgcccaggca agagccaatg ttcaggtgga tgagattctc agatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga 5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtatc 5281 ccctagaaac gctccaggtg aaatattatg gagcgcgccc ttaggccctg acctgaatcc 5341 ctacctatct catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 gatcctcgcg gggaacgcgt tcaccgccgg gaaaattata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gccccagcca ggtcactatg ttcccccaca taatagtgga 5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata atttctatca 5581 ctataatcag tcaaatgatt ctaccattaa attgatagca atgctgtata caccacttag 5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagttctca cgagaccatc 5701 ccctgatttt gatttcatat ttttggtgcc acctacagtt gagtcaagaa ctaaaccatt 5761 tactgtccca atcttgactg ttgaggaaat gaccaattca agattcccca ttcctttgga 5821 aaagttgttc acgggtccca gcagtgcctt tgttgttcaa ccacaaaatg gcagatgcac 5881 gactgatggc gtgctcttag gcaccaccca actgtctcct gtcaacatct gcactttcag 5941 aggggatgtc acccacattg caggttctcg taattacaca atgaatttgg cttctctaaa 6001 ttggaacaat tatgacccaa cagaagaaat tccagcccct ctaggaactc cagatttcgt 6061 gggaaagatc caaggtgtgc tcacccaaac cacaaaggga gatggctcga cccgtggcca 6121 caaagctaca gtttacactg ggagtgcccc ctttactcca aagctgggca gtgttcaatt 6181 cagtactgat acagaaaatg attttgaaac tcaccaaaac acaaaattca ccccagtcgg 6241 tgtcatccag gatggtggca ccacccaccg aaatgaaccc caacaatggg tgctcccaag 6301 ttattcaggt agaaatgtcc ctaatgtaca cctagcccct gctgtagccc ccacttttcc 6361 gggtgaacaa cttcttttct ttaggtccac tatgcccgga tgcagcgggt atcccaacat 6421 ggatttggat tgcctactcc cccaggagtg ggtgcagcac ttctaccaag aggcagctcc 6481 agcacaatct gatgtggctc tattgagatt tgtgaatcca gacacgggta gggtcctgtt 6541 tgagtgcaaa cttcataaag caggctatgt cacagtggct cacaccggcc agcacgattt 6601 ggtcatcccc cccaatggtt actttaggtt tgattcctgg gttaatcaat tctacacact 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcttta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttagctct ggacttggtt ccctaatcaa tgctggggct 6781 ggggctatca accaaaagat tgattttgaa aataacagaa aattgcagca agcttctaac 6841 cagtttagca gtaatctaca acaggcctcc tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga aagtcaaaca agcaatgctc 6961 ttagaaggtg gattctctga aacagatgca gcccgtgggg caatcaacgc ccctatgaca 7021 aagactttgg actggagcgg aacaaggtac tgggcccctg atgctaggac tacaacatac 7081 aatgcaggcc gtttttccac ccctcaacct tcgggggcac tgccaggaag agtcaacccc 7141 agggctccta cccccgctcg gggctccccc agcacatctt ctaatgcttc tactgctact 7201 tctatatatt caaatcaaac tgtttcaacg agacttggtt ctagcaccaa tgtctcgagt 7261 cccccgtcaa ctgcaaggac taggagttgg gttgaggatc aaaacagaaa tttgtcacct 7321 ttcatgaggg gggctcacaa catatcgttt gtcaccccac catctagcag atcctctagc 7381 caaggcacag tctcaaccgt gcctaaagaa gttttggact cctggactgg cgctttcaac 7441 acgcgcaggc agcctctctc cgctcacatt cgtaggcgag gggagtcacg ggtgtaa //