Typing tool
|
Complete norovirus genomes
AB541347 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS AB541347 7509 bp RNA linear VRL 03-AUG-2010 DEFINITION Norovirus Hu/GII-4/Shimane2/2007/JP genomic RNA, complete genome. ACCESSION AB541347 VERSION AB541347.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Shimane2/2007/JP ORGANISM Norovirus Hu/GII-4/Shimane2/2007/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for Independent and Concurrent Evolution of Non-structural and Capsid Proteins of Norovirus GII/4 in Humans JOURNAL Unpublished REFERENCE 2 (bases 1 to 7509) AUTHORS Motomura,K. and Sato,H. TITLE Direct Submission JOURNAL Submitted (12-JAN-2010) Contact:Kazushi Motomura National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/Shimane2/2007/JP" /mol_type="genomic RNA" /strain="Hu/GII-4/Shimane2/2007/JP" /isolation_source="stool" /db_xref="taxon:707530" /country="Japan:Shimane" CDS 1..5100 /note="contains N-terminal NTPase 3A VPg 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAJ13971.1" /translation="MKMASNDASAAAVVNSNNDTAKSSSDKMFSSMAVTFKRALGARP KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCIQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /codon_start=1 /product="VP1" /protein_id="BAJ13972.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRDYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSVPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6703..7509 /codon_start=1 /product="VP2" /protein_id="BAJ13973.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGTGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVLPGRINPRIPTPARGFPSTSS NASTVTSIYSNQTVSTRLGSTAGSGTNASSFPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ttaacagcaa caacgacacc 61 gcaaaatctt caagtgacaa aatgttttct agcatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaaacagcc ccccccgagg gaaacaccac aaagaccccc acgaccacct 181 actccagaac tggtcaaaaa gatccctcct cccccgccca acggagagga tgaagtggtg 241 gtttcttata gtgccaaaga tggcgtttcc ggtttacctg agctttccac cgtcaggcaa 301 ccggaagaaa ccaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat 361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat 421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgccattagc 481 ctcgccaagg tcgaactaac accactctcc ttgttctgga gacctgtgta cactcctcag 541 tacctcatct ccccagacac tctcaagaaa ttacacggag aaacatttcc ctacacagcc 601 tttgacaaca attgctatgc cttttgttgc tgggtcctgg atctaaacga ctcgtggctg 661 agtaggagaa tgatccagag aacaactggc ttcttcagac cctatcaaga ttggaatagg 721 aaacctctcc ccactatgga tgattctaaa ttaaagaagg tagctaacat attcctgtgc 781 accctgtctt cgctattcac caggcccata aaagacataa taggaaagtt gaggcccctc 841 aacatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccttg 901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac tcggtgattt cgagttgcaa ggacctgagg accttgtagt ggagctcgtc 1021 cctgtagtaa tggggggaat tggtttggtg ttaggattca ccaaagagaa gattggaaaa 1081 atgttgtcat ctgctgcatc caccttgaga gcttgtaaag atcttggtgc atatggacta 1141 gagatcctga agttagtcat gaagtggttc ttcccgaaga aagaggaggc aaatgaactg 1201 gctatggtga gatccatcga ggatgcagta ctggaccttg aggcaattga aaacaaccat 1261 atgaccacct tgctcaaaga caaagacagc ctggcaacct acatgagaac ccttgacctc 1321 gaggaagaga aagccagaaa actctcaacc aagtctgctt cacctgacat cgtgggcaca 1381 atcaacgccc ttctggcgag aatcgccgct gcacgctccc tggtgcaccg agcgaaggag 1441 gagctttcca gcagaccaag acctgtagtc ttgatgatat caggcagacc agggataggg 1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag 1561 cgtgtaggcc tcatcccacg caatggcgtc gatcactggg atgcgtacaa gggggagagg 1621 gtcgtcctat gggacgacta tggaatgagc aatcccatcc acgacgccct caggctgcaa 1681 gaactcgctg acacttgccc cctcactcta aattgtgaca ggattgagaa taaaggaaag 1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc accactggac 1801 tatgtcaact ttgaagcgtg ctcgaggcgc atcgatttcc tcgtgtatgc agaagccccc 1861 gaggtcgaaa aggcgaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt 1921 agttctgatt tctcacacat aaaattggca ctggctccac aaggtggctt tgataagaac 1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccactggctc cctcattgcc 2041 cgggcatcag ggctgctcca tgagagattg gatgagtttg aactacaggg cccagctctt 2101 accaccttca actttgaccg caacaaagtg cttgccttca ggcagcttgc tgctgaaaac 2161 aaatatgggt tgatggacac aatgaaagtt gggaggcagc tcaaggatgt caaaaccatg 2221 ccagaactta aacaagcact caagaatatc tcaatcaaga agtgccagat tgtgtatagt 2281 ggttgcacct acacacttga gtctgatggc aagggcaatg tgaaagttga cagagttcag 2341 agcacctccg tacagaccaa caatgagctg gccggcgccc tgcaccacct aaggtgcgcc 2401 agaatcaggt actatgtcaa gtgtattcaa gaggccctgt attctatcat ccagattgct 2461 ggggctgcat ttgtcaccac gcgcatcatc aagcgtgtga acattcaaga cttatggtcc 2521 aaaccacaag tggaaaacac agaggaggct 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 tcttcagacc aacaaggaaa 2881 caacgcaagg aagaaagagc ttctctcggt ttagtcacag gttctgaaat taggaaaaga 2941 aacccagaag acttcaagcc caaggggaaa ctatgggctg acgatgacag aagtgtggac 3001 tacaatgaaa aactcagttt tgaggcccca ccaagcatct ggtcaaggat agtcaacttt 3061 ggctcaggtt ggggcttctg ggtctccccc agcctgttca taacatcaac ccacgtcata 3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt acacaagtca 3181 ggcgaattct gtcgcttgag gttcccaaaa ccaatcagga ctgatgtgac tggcatgatc 3241 ttggaagaag gtgcgcccga aggcaccgtg gtcacactac 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 gggggaaaca ctgtcatatg tgccacccag 3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca 3601 ccaatcctag gcccagggag tgccccaaaa cttagcacca aaaccaaatt ctggagatca 3661 tccacagcac cactcccacc tggcacctat gaaccagcct accttggtgg caaggacccc 3721 agagtcaagg gtggcccttc gttgcagcaa gtcatgaggg accagctgaa accatttaca 3781 gagcctaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc 3841 aatgtccttg aacaaacaat 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 actgacaaaa 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 tagcagctgc tctagaaatc atggttaaat tctcctcaga accacatttg 4381 gctcaggtag tcgcagaaga ccttctttct cctagcgtgg tggatgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatt 4501 gcccactggc ttctcactct ctgtgcactc tccgaagtta caaatttgtc cccagacatc 4561 atacaagcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata 4621 aaattagacc cagagaagtt gacagcaaag cttaaggaat atgggttgaa accaacccgc 4681 cctgataaaa ctgaaggacc tcttgttatt tctgaagact tggatggttt 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 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 gtggcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtgtc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc 5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt 5401 gatcctcgcg gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gtcccagcca ggtcactatg ttcccccaca taatagtaga 5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata acttctatca 5581 ctataatcag tcaaatgatt ccaccattaa attgatagca atgctgtata caccactcag 5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagtcctca cgaggccatc 5701 ccctgatttt gattttatat ttttggtgcc acctacagtt gagtcaagaa ctaaaccatt 5761 tactgtccca atcttaactg ttgaagaaat gaccaattca agattcccca ttcctttgga 5821 aaagttgttc acgggtccca gcggtgcttt tgttgttcaa ccacaaaatg gcagatgcac 5881 gactgatggc gtgctcttag gcaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacattg caggttctcg tgattacaca atgaatttgg cttctctaaa 6001 ttggaacaat tatgacccaa cagaagaaat tccagcccct ctaggaactc cagattttgt 6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaggga gatggctcga cccgtggcca 6121 taaagctaca gtttacactg ggagtgtccc ctttactcca aagctgggca gtgttcaatt 6181 cagtactgat acagaaaatg attttgaaac tcaccaaaac acaaaattca ccccagtcgg 6241 tgtcatccag gatggtagca ccacccaccg aaatgaaccc caacaatggg tgctcccaag 6301 ttattcaggt agaaatgtcc ataatgtaca cctagcccct gctgtagccc ccacttttcc 6361 gggtgaacaa cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat 6421 ggatttggat tgcctactcc cccaggagtg ggtgcagcac ttctaccaag aggcagctcc 6481 agcacaatct gatgtggctc tattgagatt tgtgaatcca gacacgggta gggtcctgtt 6541 tgagtgcaaa ctccataaat caggctatgt cacagtggct cacaccggcc agcatgattt 6601 ggtcatcccc cccaatggct attttaggtt tgattcctgg gttaatcaat tctacacact 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcttta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct gggcttggtt ccctaatcaa tgctgggact 6781 ggggctatca accaaaagat tgattttgaa aataacagaa aattgcagca agcttccttc 6841 cagtttagca gtaatctaca acaggcttcc tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccactaaaag gttgcaacag gaaatgatga aagtcaaaca ggcaatgctc 6961 ttagaaggtg gattctctga aacagatgca gcccgtgggg caatcaacgc ccccatgaca 7021 aaggctttgg actggagcgg aacaaggtac tgggcccctg atgctaggac tacaacatac 7081 aatgcaggcc gcttttccac ccctcaacct tcgggggtac tgccaggaag aatcaatccc 7141 aggattccta cccccgctcg gggcttcccc agcacatctt ctaatgcttc tactgttact 7201 tctatatatt caaatcaaac tgtttcaacg agacttggtt ctacagctgg ttctggcacc 7261 aatgcctcga gtttcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacaga 7321 aatttgtcac ctttcatgag gggggctcac aacatatcgt ttgtcacccc accatccagc 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaggcg aggggagtca 7501 cgggtataa //