Typing tool
|
Complete norovirus genomes
AB541256 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS AB541256 7509 bp RNA linear VRL 03-AUG-2010 DEFINITION Norovirus Hu/GII-4/Hiroshima3/2008/JP genomic RNA, complete genome. ACCESSION AB541256 VERSION AB541256.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Hiroshima3/2008/JP ORGANISM Norovirus Hu/GII-4/Hiroshima3/2008/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for Independent and Concurrent Evolution of Non-structural and Capsid Proteins of Norovirus GII/4 in Humans JOURNAL Unpublished REFERENCE 2 (bases 1 to 7509) AUTHORS Motomura,K. and Sato,H. TITLE Direct Submission JOURNAL Submitted (12-JAN-2010) Contact:Kazushi Motomura National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..7509 /organism="Norovirus Hu/GII-4/Hiroshima3/2008/JP" /mol_type="genomic RNA" /strain="Hu/GII-4/Hiroshima3/2008/JP" /isolation_source="stool" /db_xref="taxon:707439" /country="Japan:Hiroshima" CDS 1..5100 /note="contains N-terminal NTPase 3A VPg 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAJ13698.1" /translation="MKMASNDAFAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP KQPAPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGISGLPELSTVRQPE ETNTAFSIPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTTLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTTDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLAMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLIDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEETTNKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRRRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTVPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRFRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /codon_start=1 /product="VP1" /protein_id="BAJ13699.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLAALNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLIPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" CDS 6703..7509 /codon_start=1 /product="VP2" /protein_id="BAJ13700.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVDFENNRKLQQA SFQFSSNLQQVSFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSSPQPSGALPGRINPRAPTPVRGSSSTSS NASTASSIHSNQTASTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHDI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRREESRV" ORIGIN 1 atgaagatgg cgtctaacga cgctttcgct gccgctgttg ctaacagcaa caacgacacc 61 gcaaaatctt caagtgacaa aatgttttct agcatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaaacagcc cgccccgagg gaaataccac agagaccccc acgaccacct 181 actccggaac tggtcaagaa gatccctcct cccccgccca acggagagga tgaagtggtg 241 gtttcttata gtgccaaaga tggcatttcc ggtttacctg agctttccac cgtcagacaa 301 ccagaagaaa ccaatacggc cttcagtata cctccactca atcagaggga gaatagggat 361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat 421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgccattagc 481 ctcgccaagg tcgaactaac aacactctcc ttgttctgga gacctgtgta cactcctcag 541 tacctcatct ctccagacac tctcaagaaa ttgcatggag aaacatttcc ctacacagcc 601 tttgacaaca attgctatgc cttttgttgc tgggtcctgg atctaaacga ctcgtggctg 661 agtaggagaa tgatccagag aacaactggc ttcttcagac cctaccaaga ttggaatagg 721 aaacccctcc ctactacgga tgattccaaa ttaaagaagg tagctaacat attcctgtgt 781 accctgtctt cgctattcac caggcccata aaagacataa taggaaagtt aaggcctctc 841 aacatcatca acatcctagc ttcatgtgat tggactttcg caggcatagt ggagtccttg 901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttac tcggtgattt tgagttacaa ggacctgagg accttgtagt ggagctcgtc 1021 cctgtagtga tgggggggat tggtttggtg ctaggattca ccaaagagaa gattggaaaa 1081 atgttgtcat ctgctgcatc caccttgaga gcttgcaaag atcttggtgc atatgggcta 1141 gagatcctaa agttagccat gaagtggttc ttcccgaaga aagaggaggc aaatgaactg 1201 gctatggtga gatctatcga ggatgcagta ctggaccttg aggcaattga aaacaaccat 1261 atgaccacct tgctcaaaga taaagacagc ctggcaacct acatgagaac ccttgacctc 1321 gaggaagaga aagccaggaa actctcaacc aagtctgctt cacctgacat cgtgggcaca 1381 atcaacgccc ttctggcgag aatcgccgct gcacgctccc tggtgcaccg agcgaaggag 1441 gagctttcca gcagaccaag acctgtagtc ttgatgatat caggcagacc agggataggg 1501 aagacccacc ttgctaggga agtggctaag agaattgcag cctccctcac aggagaccag 1561 cgtgtaggcc tcatcccacg caatggcgtc gatcactggg acgcgtacaa gggggagagg 1621 gtcgtcctat gggacgatta tggaatgagc aaccccatcc acgacgccct caggctgcaa 1681 gaactcgctg acacttgccc cctcacccta aattgtgaca ggatcgagaa taaaggaaag 1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc accactggac 1801 tatgtcaact ttgaagcgtg ctcgaggcgc atcgatttcc tcgtgtatgc ggaagccccc 1861 gaggtcgaaa aggcgaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt 1921 agttctgatt tctcacacat aaaattggca ctggctccac aaggtggctt tgataagaac 1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccactggctc cctcattgcc 2041 cgggcatcag ggctgctcca tgagagattg gatgagtttg aactacaggg cccagctctt 2101 accaccttca actttgatcg taacaaagtg cttgccttca ggcagcttgc tgctgaaaac 2161 aaatatgggt tgatagacac aatgaaagtt gggaggcaac tcaaggatgt caaaaccatg 2221 ccagaactta aacaagcact caagaatatc tcaatcaaga aatgccagat tgtgtacagt 2281 ggttgcacct acacacttga gtctgatggc aagggcaatg tgaaagttga cagggttcag 2341 agcacctccg tacagaccaa caatgagctg gctggcgccc tgcaccatct aaggtgcgcc 2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attctatcat ccagattgct 2461 ggggctgcat ttgtcaccac gcgcatcatc aagcgtgtga acattcaaga cttgtggtcc 2521 aagccacaag tggaaaacac agaggagact accaacaagg acgggtgccc aaaacccaaa 2581 gatgatgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag 2641 aacaagactg gccgtggcaa gaagcacaca gccttctcaa gtaaaggtct cagtgatgaa 2701 gagtatgatg agtacaagag aattagagag gaaaggaatg gcaagtactc catagaagag 2761 taccttcagg acagggacaa atactatgag gaggtggcca ttgccagggc gaccgaggaa 2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tctttagacc aacaaggaaa 2881 caacgcaagg aagaaagagc ttctctcggt ttagtcacag gttctgaaat taggagaaga 2941 aacccagaag acttcaagcc caaggggaaa ctatgggctg atgatgacag aagtgtggac 3001 tacaatgaga aactcagttt tgaggccccg ccaagcatct ggtcaaggat agtcaacttt 3061 ggctcaggtt ggggcttctg ggtctccccc agcttgttca taacatcaac ccacgtcata 3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt acacaagtca 3181 ggcgaattct gtcgcttgag attcccaaaa ccaatcagga ctgatgtgac tggcatgatc 3241 ttggaagaag gtgcgcccga aggcaccgtg gccacactac tcatcaaaag gtctactgga 3301 gaactcatgc ccctagcagc tagaatgggg acccatgcaa ccatgaaaat tcaagggcgc 3361 actgttggag gtcagatggg catgcttctg acaggatcca acgccaaaag catggatcta 3421 ggcaccacac caggtgattg cggctgtccc tacatctaca agagaggaaa tgactatgtg 3481 gtcattggag tccacacggc tgccgcccgt ggtggaaaca ctgtcatatg tgccacccag 3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca 3601 ccaatcctag gcccagggag cgccccaaaa cttagcacca agaccaaatt ctggagatcg 3661 tccacagtgc cactcccacc tggcacctat gaaccagcct acctaggtgg caaggacccc 3721 agagtcaagg gtggcccctc gttacagcaa gtcatgagag accagctgaa accatttaca 3781 gagcccaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc 3841 aatgtccttg aacaaacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg 3901 tcccttgaca agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg 3961 aacggggagt ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt 4021 gaagaaggga agaacatgac cccagtttac acaggtgcac ttaaggatga attagtcaaa 4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcgga tttagcaacc 4141 atgatccggt gtgctcgagc attcggaggc ctaatggatg aactcaaagc acactgtgtc 4201 acactcccta tcagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagaag 4261 cattccaggt tcagatacca ctatgatgct gattactctc ggtgggattc aacacaacag 4321 agagccgtgc tggcagccgc tctagaaatc atggttaaat tctcctcgga accacatttg 4381 gctcaggtag tcgcagaaga ccttctttct cctagcgtgg tggatgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaattctatc 4501 gcccactggc ttctcactct ctgtgcactc tccgaagtta caaatttgtc cccagacatc 4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata 4621 aaactagacc cagagaagtt gacagcaaag cttaaggagt atgggttgaa accaacccgc 4681 cctgataaaa ctgaagggcc tcttgttatt tctgaagact tagatggttt gactttcctg 4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata 4801 ctcaggcaaa tgtactggac caggggcccc aaccatgaag atccatctga atcaatgatt 4861 ccacactctc agagacccat acaattgatg tccttactgg gagaggccgc actccacggc 4921 ccaacatttt acagtaaaat cagcaaatta gtcattgcag agctaaaaga aggtggtatg 4981 gatttttacg tgcccaggca agagccaatg ttcagatgga tgagattctc agatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga 5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtatc 5281 ccctagaaac gctccaggcg aaatactatg gagcgcgccc ttaggccctg atctgaatcc 5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt 5401 gatcctcgcg gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gccccagcca ggttaccatg ttcccccaca taatagtaga 5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata acttctatca 5581 ttataatcag tcaaatgatt ctaccattaa attgatagca atgctgtata caccacttag 5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagtcctca cgaggccatc 5701 ccccgatttt gattttatat ttttggtgcc acctacagtt gagtcaagaa ctaaaccatt 5761 tactgtccca atcttaactg ttgaagaaat gactaattcg agattcccca ttcctttgga 5821 aaagttgttc acgggtccca gcggtgcctt tgttgttcaa ccacaaaatg gcagatgcac 5881 gactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacattg caggttctcg taactacaca atgaatttgg ctgctctaaa 6001 ttggaacaat tatgacccaa cagaagaaat tccagcccct ctaggaactc cagatttcgt 6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaggga gatggctcga cccgtggcca 6121 taaagctaca gtttacactg ggagtgccga ctttactcca aagctgggca gtgttcaatt 6181 cagtactgat acagaaaatg attttgaaac tcaccaaaac acaaaattca ccccagtcgg 6241 tgtcatccag gatggtagca ccacccaccg aaatgaaccc cagcaatggg tgctcccaag 6301 ttattcaggt agaaatgtcc ataatgtaca cctagcccct gctgtagccc ccacttttcc 6361 gggtgaacaa cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat 6421 ggatttggat tgcctaatcc cccaggagtg ggtgcagcac ttctaccaag aggcagctcc 6481 agcacaatct gatgtggctc tattgagatt tgtgaatcca gacacgggta gggtcctgtt 6541 tgagtgcaaa cttcataaat caggctatgt cacagtggct cacaccggcc agcatgattt 6601 ggttatcccc cccaatggct attttaggtt tgattcctgg gttaatcaat tctacacact 6661 tgcccccatg ggaaatggag cggggcgtag acgtgcttta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt ccctgatcaa tgctggggct 6781 ggggctatca accaaaaagt tgattttgaa aataacagaa aattgcagca agcttccttc 6841 cagtttagca gtaatctaca acaggtctcc tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga gagtcaaaca ggcaatgctc 6961 ttagaaggtg gattctctga aacagatgca gcccgtgggg caatcaacgc ccccatgaca 7021 aaggctttgg actggagcgg aacaaggtac tgggcccctg atgccaggac tacaacatac 7081 aatgcaggcc gcttttcctc ccctcaacct tcgggggcac tgccaggaag aatcaatccc 7141 agggctccta cccccgttcg gggctcctct agcacatctt ctaatgcttc cactgcttct 7201 tctatacatt caaatcaaac tgcttcaacg agacttggtt ctacagctgg ttctggcacc 7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacaga 7321 aatttgtcac ctttcatgag gggggctcac gacatatcgt ttgtcacccc accatctagt 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaggcg agaggagtca 7501 cgggtgtaa //