Typing tool
|
Complete norovirus genomes
AB541288 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS AB541288 7509 bp RNA linear VRL 03-AUG-2010 DEFINITION Norovirus Hu/GII-4/Miyazaki1/2007/JP genomic RNA, complete genome. ACCESSION AB541288 VERSION AB541288.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Miyazaki1/2007/JP ORGANISM Norovirus Hu/GII-4/Miyazaki1/2007/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for Independent and Concurrent Evolution of Non-structural and Capsid Proteins of Norovirus GII/4 in Humans JOURNAL Unpublished REFERENCE 2 (bases 1 to 7509) AUTHORS Motomura,K. and Sato,H. TITLE Direct Submission JOURNAL Submitted (12-JAN-2010) Contact:Kazushi Motomura National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/Miyazaki1/2007/JP" /mol_type="genomic RNA" /strain="Hu/GII-4/Miyazaki1/2007/JP" /isolation_source="stool" /db_xref="taxon:707471" /country="Japan:Miyazaki" CDS 1..5100 /note="contains N-terminal NTPase 3A VPg 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAJ13794.1" /translation="MKMASNDASAAAVANSNDDTAKSSSDKMFSNMAVTFKRALGARP KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTTDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKIGRQLKDVKTM PELKQALKNVSIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEAANKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVYKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKNMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /codon_start=1 /product="VP1" /protein_id="BAJ13795.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEIPWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVVLAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSTPFTPKLGSVQFSTDTENDFENHQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNVQNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6703..7509 /codon_start=1 /product="VP2" /protein_id="BAJ13796.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSDLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINLRVPTPARGSPSASS NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSNQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa cgacgacacc 61 gcaaaatctt caagtgacaa aatgttttct aacatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct 181 actccagaac tagtcaaaaa gatcccccct cccccgccca acggagagga tgaagtagtg 241 gtttcttata gtgccaaaga tggcgtttcc ggtttacctg agctttccac cgtcagacaa 301 ccagaagaaa ccaatacggc cttcagtgtc cctccactca accagaggga gaatagggat 361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat 421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgccattagc 481 ctcgccaagg tcgaactaac accactttcc ttgttctgga gacctgtata cactcctcag 541 tacctcatct ctccagacac tctcaagaaa ttacacggag aaacatttcc ctacacagcc 601 tttgacaaca attgctatgc cttctgttgc tgggtcttgg atctaaacga ctcgtggctg 661 agtaggagaa tgatccagag aacaactggc ttcttcagac cctaccaaga ttggaatagg 721 aaacccctcc ctactacgga tgattccaaa ttaaagaagg tagctaacat attcctgtgc 781 accctgtctt cgctattcac caggcccata aaagacataa tagggaagtt aaggcctctc 841 aacatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccttg 901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac tcggtgattt cgagttacaa ggacctgagg accttgtagt ggagctcgtc 1021 cctgtagtaa tggggggaat tggtttggtg ctaggattca ccaaagagaa gattggaaaa 1081 atgttgtcat ctgctgcatc caccttgaga gcttgtaaag atcttggtgc atatgggcta 1141 gagatcctaa agttagtcat gaagtggttc ttcccgaaga aagaggaggc aaatgaattg 1201 gctatggtga gatccatcga ggatgcagtg ctggaccttg aggcaattga aaacaaccat 1261 atgaccacct tgctcaaaga caaagatagc ctggcaacct acatgagaac ccttgacctc 1321 gaggaagaga aagccagaaa actctcaacc aagtctgctt cacctgatat 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 aaccccatcc acgacgccct taggctgcaa 1681 gaactcgctg acacttgccc cctcactcta aattgtgaca ggattgagaa taaaggaaag 1741 gtctttgaca gcgatgtcat cattatcact actaatctgg ccaacccagc accactggat 1801 tatgtcaact ttgaagcgtg ctcgaggcgc atcgatttcc tcgtgtatgc agaagccccc 1861 gaggtcgaaa aggcgaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt 1921 agttctgatt tctcacatat aaaattggca ctggctccac aaggtggctt tgataagaac 1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccactggctc cctcattgcc 2041 cgggcatcag ggctgctcca tgagagattg gatgagtttg aactacaggg cccagctctc 2101 accaccttca actttgaccg caacaaagtg cttgccttca ggcagcttgc tgctgaaaac 2161 aaatatgggt tgatggacac aatgaaaatt gggaggcagc tcaaggatgt caaaaccatg 2221 ccagaactta aacaagcact caagaatgtc tcaatcaaga agtgccagat tgtgtacagt 2281 ggttgcacct acacacttga gtctgatggc aagggtaatg tgaaagttga cagagttcag 2341 agcacctccg tacagaccaa caatgagctg gctggcgccc tgcaccatct aaggtgcgcc 2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attctatcat ccagattgct 2461 ggggctgcat ttgtcaccac gcgcatcatc aagcgtgtga acattcaaga cttatggtcc 2521 aagccacaag tggaaaacac agaggaggct gccaacaagg acgggtgccc aaaacccaaa 2581 gatgatgagg agttcgtcat ttcatctgac gacatcaaaa ctgagggtaa gaaagggaag 2641 aacaagactg gccgtggcaa gaaacacaca 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 aagaaagagt ttctctcggt ttagtcacag gttctgaaat taggaaaaga 2941 aacccagaag acttcaagcc caaggggaaa ctatgggctg atgatgacag aagtgtggac 3001 tacaatgaga aactcagttt tgaggccccg ccaagtatct ggtcaaggat agtcaacttt 3061 ggctcaggtt ggggcttctg ggtctccccc agtctgttca taacatcaac ccacgtcata 3121 ccccagggcg caaaggagtt ctttggggtc cctatcaaac aaattcaggt atacaagtca 3181 ggcgaattct gtcgcttaag gttcccaaaa ccaatcagga ctgatgtgac tggcatgatc 3241 ttggaagaag gtgcgcccga aggcaccgtg gccacactac tcatcaaaag gtctactgga 3301 gaactcatgc ccctagcagc tagaatggga acccatgcaa ccatgaaaat tcaagggcgc 3361 actgttggag gtcagatggg catgcttctg acaggatcca acgccaaaaa catggatctg 3421 ggcaccacac caggtgattg cggctgtccc tacatctaca agagaggaaa tgactatgtg 3481 gtcattggag tccacacggc tgccgctcgt gggggaaaca ctgtcatatg cgctacccag 3541 gggggtgagg gggaagccac acttgaaggt ggtgacagta agggaacata ctgtggtgca 3601 ccaatcctag gcccagggag tgccccaaaa cttagcacca aaaccaaatt ctggagatca 3661 tccacagcac cactcccacc tggcacctat gaaccagcct accttggtgg caaggacccc 3721 agagtcaagg gtggcccctc gttgcagcaa gtcatgaggg accagctgaa accatttaca 3781 gagcccaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc 3841 aatgttcttg aacaaacaat tgacccacct gagaagtggt cgttcgcaca agcttgtgcg 3901 tcccttgaca agaccacatc tagcggccat ccacaccaca tgcggaaaaa cgactgctgg 3961 aacggggagt cctttacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt 4021 gaagaaggga agaacatgac cccagtttac acaggtgcac ttaaggatga attagtcaaa 4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcgga tttagcaacc 4141 atgatccggt gcgctcgagc attcggaggc ctaatggatg aactcaaagc acactgtgtc 4201 acacttccta ttagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagaag 4261 cattccaggt acagatacca ctatgatgct gattactctc ggtgggattc aacacaacag 4321 agagccgtgc tggcagccgc tctggaaatc atggttaaat tctcctcaga accacatttg 4381 gctcaggtag tcgcagagga tcttctttct cctagcgtag tggatgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaattccatc 4501 gcccactggc ttctcactct ctgtgcactc tccgaagtta caaatttgtc cccagacatt 4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag cacagacata 4621 aaattagatc cagagaagtt gacagcaaag cttaaggaat atgggttgaa accaacccgc 4681 cctgataaaa ctgaaggacc ccttgttatt tctgaagact tagatggttt gactttcctg 4741 cggagaactg tgacccgcga cccagctggt tggtttggga aactggagca gagctcaata 4801 ctcaggcaaa tgtactggac taggggcccc aaccatgaag atccatctga atcaatgatc 4861 ccacactctc aaagacccat acaattaatg tccctactgg 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 gtgctgctat tgcggcgcct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtatc 5281 tcctaggaac gctccaggtg aaataccatg gagcgctccc ttaggccctg atctgaatcc 5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt 5401 ggtcctcgcg gggaacgcgt tcaccgccgg aaaagttata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gccccagtca ggtcactatg ttcccccaca taatagtaga 5521 tgttaggcaa ttggagcccg tgttgatccc cttacctgat gttaggaata acttctatca 5581 ttataatcag tcaaatgatt ctaccattaa attgatagca atgctgtata caccacttag 5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagtcctca cgaggccatc 5701 ccctgatttt gattttatat ttttggtgcc acctacagtt gagtcaagaa ctaaaccatt 5761 tactgtccca atcttaactg ttgaagaaat gaccaactca agattcccta ttcctttgga 5821 aaagttgttc acgggtccca gcggtgcctt tgttgttcaa ccacaaaatg gcagatgcac 5881 gactgatggc gtgctcttag gtaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacattg caggttctcg taattacaca atgaacttgg cttctctaaa 6001 ttggaacaat tatgacccaa cagaagaaat tccagcccct ctaggaactc cagatttcgt 6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaggga gatggctcga cccgtggcca 6121 taaagctaca gtttacactg ggagtacccc ctttactcca aagctgggca gtgttcaatt 6181 cagcactgat acagaaaatg attttgaaaa tcaccaaaac acaaaattta ccccagtcgg 6241 tgtcatccag gatggtggca ccacccaccg aaatgaaccc caacaatggg tgctcccaag 6301 ttattcaggt agaaatgtcc aaaatgtaca cctagcccct gctgtagccc ccacttttcc 6361 gggtgaacaa cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcctaacat 6421 ggatctggat tgcctactcc cccaggagtg ggtacagcac ttctaccaag aggcagctcc 6481 agcacaatct gatgtggctc tactgagatt tgtgaatcca gatacgggta gggtcctgtt 6541 tgagtgcaaa ctccataaat caggctatgt cacagtggct cacaccggcc agcatgattt 6601 ggtcatcccc cccaatggct attttaggtt tgattcctgg gttaatcaat tctacacact 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcttta taatggctgg ggctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt ccctaatcaa tgctggggct 6781 ggggctatca accaaaagat tgattttgaa aataacagaa aattgcagca agcttccttc 6841 cagtttagca gtgatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca 6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga aagtcaaaca ggcaatgctc 6961 ttagaaggtg gattctctga aacagatgca gctcgtgggg caatcaacgc ccccatgaca 7021 aaggctttgg actggagcgg aacaaggtac tgggcccctg atgctaggac tacaacatac 7081 aatgcaggcc gcttttccac ccctcaaccc tcgggggcac tgccaggaag aatcaatctc 7141 agggttccta cccccgctcg gggctccccc agtgcatctt ctaatgcttc tactgctact 7201 tctatatatt ctaatcaaac tgtttcaacg agacttggtt ctacagctgg ttctggcacc 7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacaga 7321 aatttatcac ctttcatgag gggggctcac aacatatcgt ttgtcacccc accatctagc 7381 agatcctcta accaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaggcg aggggagtca 7501 cgggtgtaa //