Typing tool
|
Complete norovirus genomes
AB541315 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS AB541315 7509 bp RNA linear VRL 03-AUG-2010 DEFINITION Norovirus Hu/GII-4/Niigata4/2007/JP genomic RNA, complete genome. ACCESSION AB541315 VERSION AB541315.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Niigata4/2007/JP ORGANISM Norovirus Hu/GII-4/Niigata4/2007/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for Independent and Concurrent Evolution of Non-structural and Capsid Proteins of Norovirus GII/4 in Humans JOURNAL Unpublished REFERENCE 2 (bases 1 to 7509) AUTHORS Motomura,K. and Sato,H. TITLE Direct Submission JOURNAL Submitted (12-JAN-2010) Contact:Kazushi Motomura National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/Niigata4/2007/JP" /mol_type="genomic RNA" /strain="Hu/GII-4/Niigata4/2007/JP" /isolation_source="stool" /db_xref="taxon:707498" /country="Japan:Niigata" CDS 1..5100 /note="contains N-terminal NTPase 3A VPg 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAJ13875.1" /translation="MKMASNDASAAAVANNNNDTAKSSSDKMFSSMAVTFKRALGARP KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGISGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTTDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGKAESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLIDTMKVGRQLKDVTTM SELKQALKNISIKKCHIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTVPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRFRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /codon_start=1 /product="VP1" /protein_id="BAJ13876.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLAALNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6703..7509 /codon_start=1 /product="VP2" /protein_id="BAJ13877.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDTEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTHNAGRFSSPQPSGALPGRINPRTPTPARGSSSTSS NASTATSIYSNQTASTRLSSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHDI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacaacaa caacgacacc 61 gcaaaatctt caagtgacaa aatgttttct agcatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct 181 actccagaac tggtcaagaa gatccctcct cccccgccca acggagagga tgaagtagtg 241 gtttcttata gtgccaaaga tggcatttcc ggtttacctg agctctccac cgtcagacaa 301 ccagaagaaa ccaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat 361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagaaat ttaccattat 421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgccattagc 481 ctcgccaagg tcgaactaac accactctcc ttgttctgga gacctgtgta cactcctcag 541 tacctcatct ctccagacac tctcaagaaa ttgcacggag 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 cggggaaagc ggagtccttg 901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttac tcggtgattt cgagttacaa ggacctgagg accttgtagt ggagctcgtc 1021 cctgtagtaa tgggggggat tggtttggtg ctaggattca ccaaagagaa gattggaaaa 1081 atgttgtcat ctgctgcatc caccttgaga gcttgcaaag atcttggtgc atatgggcta 1141 gagatcctaa agttagtcat gaagtggttc ttcccgaaga aagaggaggc aaatgaactg 1201 gctatggtga gatctatcga ggatgcagta ctggaccttg aggcaattga aaacaaccat 1261 atgaccacct tgctcaaaga taaagacagc ctggcaacct acatgagaac ccttgacctc 1321 gaggaagaga aagccaggaa actctcaacc aagtccgctt 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 atgcgtacaa gggggagagg 1621 gtcgtcctat gggacgacta tggaatgagc aaccccatcc acgacgccct caggctgcaa 1681 gaactcgctg acacttgccc cctcacccta aattgtgaca ggatcgagaa taaaggaaag 1741 gtctttgaca gcgatgtcat cattatcact 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 caacaaagtg cttgccttca ggcagcttgc tgctgaaaac 2161 aaatatgggt tgatagatac aatgaaagtt gggaggcagc tcaaggatgt cacaaccatg 2221 tcagaactta aacaagcact caagaatatc tcaatcaaga agtgccatat tgtgtacagt 2281 ggttgcactt acacacttga gtctgatggc aagggcaatg tgaaagttga cagagttcag 2341 agcacctccg tacagaccaa caatgagctg gctggcgccc tgcaccatct aaggtgcgcc 2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attctatcat ccagattgct 2461 ggggctgcat ttgtcaccac acgcatcatc aagcgtgtga acattcaaga cttgtggtcc 2521 aagccacaag tggaaaacac agaggaggcc accaacaagg acgggtgccc aaaacccaaa 2581 gatgatgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag 2641 aacaagactg gccgtggcaa gaagcacaca gccttctcaa gtaaaggtct cagcgatgaa 2701 gagtatgatg agtacaagag gattagagag gaaaggaatg gcaagtactc catagaagag 2761 taccttcagg acagggacaa atactatgag gaggtggcca ttgctagggc gaccgaggaa 2821 gacttctgtg aagaggagga ggccaagatt cggcaaagga tcttcagacc aacaaggaaa 2881 caacgcaagg aagaaagagc ttctctcggt ttagtcacag gttctgaaat taggaaaaga 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 tgccgctcgt ggtggaaaca ctgtcatatg tgccacccag 3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca 3601 ccaatcctag gcccagggag cgccccaaaa cttagcacca aaaccaaatt ctggagatcg 3661 tccacagtac cactcccacc tggcacctat gaaccagcct accttggtgg caaggacccc 3721 agagtcaagg gtggcccctc gttgcagcag gtcatgagag aacagctgaa 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 acactgccta tcagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagaag 4261 cattccaggt tcagatacca ctatgatgct gattactctc ggtgggattc aacacaacag 4321 agagccgtgc tggcagctgc tctagaaatc atggttaaat tctcctcgga accacatttg 4381 gctcaggtag tcgcagaaga ccttctttct cctagcgtgg tggatgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc 4501 gcccactggc ttctcactct ctgtgcactc tccgaagtta caaatttgtc cccagacatc 4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata 4621 aaactagacc cggagaagtt gacagcaaag cttaaggaat atgggttgaa accaacccgc 4681 cctgataaaa ctgaagggcc tcttgttatt tctgaagact tggatggttt gactttcctg 4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata 4801 ctcaggcaaa tgtactggac caggggcccc aaccatgaag atccatctga atcaatgatt 4861 ccacactctc agagacccat acaattgatg tccttactgg gagaggccgc actccacggt 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 agatattgtg gagcgcgccc ttaggccctg atctgaatcc 5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt 5401 gatcctcgcg gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gccccagcca ggttactatg 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 gactaattca 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 ctaggaaccc cagatttcgt 6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaggga gatggctcga cccgtggcca 6121 taaagctaca gtttacactg ggagtgccga ctttactcca aagttgggca gtgttcaatt 6181 cagtactgat acagaaaatg attttgaaac tcaccaaaac acaaaattca ccccagtcgg 6241 tgtcatccag gatggtagca ccacccaccg aaatgaaccc caacaatggg tgctcccaag 6301 ttattcaggt agaaatgttc ataatgtaca cctagcccct gctgtagccc ccacctttcc 6361 gggtgaacaa cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat 6421 ggatttggat tgcctactcc cccaagagtg ggtgcagcac ttctaccaag aggcagctcc 6481 agcacaatct gatgtggctc tattgagatt tgtgaatcca gacacgggta gggtcctgtt 6541 tgagtgcaaa ctccataaat caggttatgt cacagtggct cacaccggcc agcatgactt 6601 ggtcatcccc cccaatggct attttaggtt tgattcctgg gttaatcaat tctacacact 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcttta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt ccctgattaa tgctggggct 6781 ggggctatca accaaaagat tgattttgaa aataatagaa aattgcagca agcttccttc 6841 cagtttagca gtaatctaca acaggcttcc tttcaacatg acacagagat gctccaagca 6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga gagtcaaaca ggcaatgctc 6961 ttagaaggtg gattctctga aacagatgca gcccgtgggg caatcaacgc ccccatgaca 7021 aaggctttgg actggagcgg aacaaggtac tgggcccctg atgctaggac tacaacacac 7081 aatgcaggcc gcttttcctc ccctcaacct tcgggggcac tgccaggaag aatcaatccc 7141 aggactccta cccccgctcg gggctcctct agcacatctt ctaatgcttc tactgccact 7201 tctatatatt caaatcaaac cgcttcaacg agacttagtt ctacagctgg ctctggcacc 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 aggggagtca 7501 cgggtgtaa //