Typing tool
|
Complete norovirus genomes
AB541254 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS AB541254 7509 bp RNA linear VRL 03-AUG-2010 DEFINITION Norovirus Hu/GII-4/Hiroshima2/2008/JP genomic RNA, complete genome. ACCESSION AB541254 VERSION AB541254.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Hiroshima2/2008/JP ORGANISM Norovirus Hu/GII-4/Hiroshima2/2008/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for Independent and Concurrent Evolution of Non-structural and Capsid Proteins of Norovirus GII/4 in Humans JOURNAL Unpublished REFERENCE 2 (bases 1 to 7509) AUTHORS Motomura,K. and Sato,H. TITLE Direct Submission JOURNAL Submitted (12-JAN-2010) Contact:Kazushi Motomura National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/Hiroshima2/2008/JP" /mol_type="genomic RNA" /strain="Hu/GII-4/Hiroshima2/2008/JP" /isolation_source="stool" /db_xref="taxon:707437" /country="Japan:Hiroshima" CDS 1..5100 /note="contains N-terminal NTPase 3A VPg 3Cpro and 3Dpol" /codon_start=1 /product="polyprotein" /protein_id="BAJ13692.1" /translation="MKMASNDASAAAVANSNNDTAKSSNDKMFSSMAVTLKRALGARP KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGEIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEERARKLST KSASPDIVGTINALLARIAAARSLVHRAKEKLSSRPRPVVLIISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDQNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR AARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRMNIQDLWSKPQVENTEEATNKDGC PKPKDNEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHIRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCVRAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELREGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /codon_start=1 /product="VP1" /protein_id="BAJ13693.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVKAPGGEFTVSPRNSPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFIVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEVPAPLGTPDFVGKIQGVL TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFGTDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6703..7509 /codon_start=1 /product="VP2" /protein_id="BAJ13694.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGTIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPARGSPSTSS NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMKGAHNI SFVTPPSSRPSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc 61 gcaaaatctt caaatgacaa aatgttttct agcatggctg tcactcttaa acgagccctc 121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct 181 actccagaac tggtcaaaaa gatccctcct cccccgccca acggagagga tgaagtagtg 241 gtttcttata gtgccaaaga tggcgtttcc ggtttgcctg agctttccac cgtcaggcaa 301 ccggaagaaa ccaatacggc cttcagtgtc cccccactca atcaaaggga gaatagggat 361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat 421 ggcctgtatg ttgagcgagg ccttgtgctg ggcgtacaca aaccaccagc tgccattagc 481 ctcgccaagg tcgaactaac accactctcc ttgttctgga gacctgtgta cactcctcag 541 tacctcattt ctccagacac tctcaagaaa ttacacggag aaacatttcc ctacacagcc 601 tttgacaaca attgctatgc cttttgttgc tgggtcctgg atctaaacga ctcgtggctg 661 agtaggagaa tgatccagag aacaactggc ttcttcagac cctaccaaga ttggaatagg 721 aaacccctcc ccactatgga tgattccaaa ctaaagaagg tggctaacat attcctgtgc 781 accctgtctt cgctattcac caggcccata aaagacataa taggaaagtt aaggcctctc 841 aacatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccctg 901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac tcggtgattt cgagttacaa ggacctgagg accttgtagt agagctcgtc 1021 cctgtagtaa tgggggaaat tggtttggtg ctaggattca ccaaagagaa gattggaaaa 1081 atgttgtcat ctgctgcatc taccctgaga gcttgtaaag atcttggtgc gtatgggcta 1141 gagatcctaa agttagtcat gaagtggttc ttcccgaaga aagaggaagc aaatgaactg 1201 gctatggtga gatccatcga agatgcagta ctggaccttg aggcaattga aaacaaccat 1261 atgaccaccc tgctcaaaga taaagacagc ctggcaacct atatgagaac ccttgacctc 1321 gaggaagaga gggccagaaa actctcaacc aagtctgctt cacctgacat cgtgggcaca 1381 atcaacgccc ttctggcgag gatcgccgct gcacgctccc tggtgcaccg agcgaaggag 1441 aagctttcca gcagacccag acctgtagtc ttgataatat caggcagacc aggaataggg 1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag 1561 cgtgtaggcc tcatcccacg caatggcgtc gaccactggg acgcgtacaa gggggagagg 1621 gtcgtcctat gggacgacta tggaatgagc aatcccatcc acgacgccct caggctgcaa 1681 gaactcgctg acacttgccc cctcactcta aattgtgaca ggattgagaa taaaggaaag 1741 gtctttgaca gcgatgtcat cattatcact actaacctgg ccaacccagc tccactggac 1801 tatgtcaact ttgaagcgtg ctcgaggcgc atcgatttcc tcgtgtatgc agaagccccc 1861 gaggtcgaaa aggcgaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt 1921 agtcctgatt tctcacacat aaaattggca ttggctccac aaggtggctt tgaccagaac 1981 gggaacaccc cacacgggaa gggcgttatg aagactctta ccactggctc tctcattgcc 2041 cgggcatcag ggctgctcca tgagagactg gatgagtttg aactacaggg cccagctctt 2101 accaccttca actttgaccg caacaaagtg ctcgccttca ggcagcttgc tgctgaaaac 2161 aaatacgggt tgatggacac aatgaaggtt gggaggcagc tcaaggatgt caaaaccatg 2221 ccagaactta aacaagcact caagaatatc tcaatcaaga agtgccagat tgtgtatagt 2281 ggttgcacct acacacttga gtctgatggc aagggcaatg tgaaagttga cagggttcag 2341 agcacctccg ttcagaccaa caatgagctg gctggcgccc tgcaccatct aagggccgct 2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attctatcat ccagattgct 2461 ggggctgcat ttgtcaccac gcgcatcatc aagcgtatga acatccaaga cttatggtcc 2521 aagccacaag tggaaaacac agaggaggcc accaacaagg acgggtgccc aaaacccaaa 2581 gataatgagg agttcgtcat ttcatctgac gacattaaag ctgagggtaa gaaagggaag 2641 aacaagactg gccgtggcaa gaagcacaca gccttctcaa gtaaaggtct cagtgatgaa 2701 gagtatgatg agtacaagag aattagagag gaaagaaatg gcaagtactc catagaagag 2761 taccttcagg acagggacaa gtactatgag gaggtggcca ttgccagggc gaccgaggaa 2821 gacttctgtg aagaggagga ggccaagatc cgacaaagga tcttcagacc aacaaggaaa 2881 caacgcaagg aagaaagagc ttctctcggt ttagtcacag gttctgaaat taggaaaagg 2941 aatccagagg acttcaagcc taaggggaaa ctatgggctg acgatgacag aagtgtggac 3001 tacaatgaaa aactcagttt tgaggcccca ccaagcatct ggtcaaggat agtcaacttt 3061 ggctcaggtt ggggcttctg ggtctcccct agcctgttca taacatcaac ccacgtcata 3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt gcacaagtca 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 cgactatgtg 3481 gtcattggag tccacacggc tgctgctcgt gggggaaaca ctgtcatatg tgccacccag 3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca 3601 ccaatcctgg gcccagggag tgccccaaaa cttagcacca aaaccaaatt ctggagatca 3661 tccacagcac cactcccacc tggcacctat gaaccagcct accttggtgg caaagacccc 3721 agagtcaagg gtggcccctc gttgcagcaa gtcatgaggg accagctgaa accatttaca 3781 gagcctaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc 3841 aatgtccttg aacagacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg 3901 tcccttgaca agaccacttc cagcggccat ccgcaccaca tacggaaaaa cgactgctgg 3961 aacggggaat ccttcacagg caagctggca gaccaggctt ccaaggccaa ccttatgttt 4021 gaagaaggga agaacatgac cccagtctac acaggtgcac tcaaggatga attagtcaaa 4081 actgacaaaa tttatggtaa gatcaagaag aggctcctct ggggttcgga tttagcaacc 4141 atgatccggt gtgttcgagc attcggaggc ctgatggatg aactcaaagc ccactgtgtc 4201 acacttcctg tcagagttgg tatgaatatg aatgaggacg gccccatcat cttcgagaag 4261 cattccaggt acagatacca ctatgatgct gactactctc ggtgggattc aacacaacag 4321 agagccgtgc tggcagctgc tttagaaatc atggttaaat tctcctcaga accacatttg 4381 gctcaggtag tagcagaaga ccttctttct cctagcgtgg tggatgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc 4501 gcccactggc ttctcactct ctgtgcactc tccgaagtca caaatttgtc cccagacatc 4561 atacaggcta actctctctt ctccttctat ggtgatgatg aaattgttag tacagacata 4621 aaattagacc cagagaagtt gacagcaaag cttaaggaat atgggttgaa accaacccgc 4681 cctgacaaaa ctgaaggacc tcttgttatt tctgaagatt tagacggttt gactttcctg 4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata 4801 ctcaggcaaa tgtactggac taggggcccc aaccatgaag acccatctga atcaatgatc 4861 ccacactctc aaagacccat acaattgatg tccttactgg gagaggccgc actccacggc 4921 ccaacattct acagtaaaat cagcaaatta gtcattgcag agctaagaga aggtggcatg 4981 gatttttacg tgcccaggca agagccaatg ttcagatgga tgagattctc ggatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga 5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggtcat 5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt gaaagcccct ggtggagagt tcacagtatc 5281 ccctagaaac tctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc 5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt 5401 gatcctcgcg gggaacgcgt tcaccgcggg aaaaattata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gtcccagcca ggtcactatg ttcccccaca taatagtaga 5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata acttctatca 5581 ctataatcag tcaaatgact ctaccattaa attgatagca atgctgtata caccacttag 5641 ggccaataat gctggggatg atgtcttcac agtctcctgt cgagtcctca cgaggccatc 5701 ccctgatttt gactttatat ttttggtgcc acctacagtt gagtcaagaa ctaagccatt 5761 tactgtccca atcttaactg ttgaggaaat gaccaattca agattcccca ttcctttgga 5821 aaaattgttc acgggtccca gcagtgcctt tattgttcaa ccacaaaatg gcagatgcac 5881 gactgatggc gtgctcttag gcaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacattg cgggttctcg taattacaca atgaatttgg cctctctaaa 6001 ttggaacaat tatgacccaa cagaagaagt tccagcccct ctgggaactc cagatttcgt 6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaggga gatggctcga cccggggcca 6121 taaagctaca gtttacactg ggagtgccga ctttactcca aagttgggca gtgttcaatt 6181 tggcactgat acagaaaacg attttgaaac tcaccaaaac acaaaattca ccccagtcgg 6241 tgtcatccag gatggtagca ccacccaccg aaatgaaccc caacaatggg tgctcccaag 6301 ttattcaggc agaaatgtcc ataatgtaca cctagcccct gctgtagccc ccaatttccc 6361 gggtgaacaa cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat 6421 ggatttggat tgcctactcc cccaggagtg ggtgcagcac ttctaccaag aggcagctcc 6481 agcacaatct gatgtggctc tattgagatt tgtgaatcct gacacgggta gggtcctgtt 6541 tgagtgcaaa ctacataaat caggctatgt cacagtggct cacaccggtc aacatgattt 6601 ggtcatcccc cccaatggct actttaggtt tgactcctgg gttaatcaat tctacacact 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgctttg taatggctgg agctttcttt 6721 gctggactgg catctgatgt ccttggctct ggacttggtt ccctaatcaa tgctggggct 6781 ggggctatca accaaaagat tgattttgaa aataatagaa aattgcagca agcttccttc 6841 cagtttagca gcaatctaca acaggcttcc tttcaacatg ataaagaaat gctccaagca 6901 caaattgagg ccactaaaaa gttgcaacag gagatgatga gagtcaaaca ggcaatgctc 6961 ttagaaggtg ggttctctga aacagatgca gcccgtggga caatcaacgc ccccatgaca 7021 aaggctttgg actggagcgg aacaaggtac tgggcccctg atgctaggac tacaacatat 7081 aatgcaggcc gcttttccac ccctcaacct tcgggggcac tgccaggaag aatcaatccc 7141 aggactccta cccccgctcg gggctccccc agcacatctt ccaatgcttc tactgctact 7201 tctatatatt caaatcaaac tgtttcaacg agacttggtt ctacagctgg ttctggcacc 7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacagg 7321 aatttgtcac ctttcatgaa gggggctcac aacatatcgt ttgtcacccc accatctagc 7381 agaccctcca gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaggcg aggggagtca 7501 cgggtgtaa //