Typing tool
|
Complete norovirus genomes
JX445159 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5068 ORF2: 5049..6671 ORF3: 6671..7477LOCUS JX445159 7488 bp RNA linear VRL 10-OCT-2012 DEFINITION Norovirus Hu/GII.4/AlbertaEI009/2008/CA non-structural polyprotein gene, partial cds; and major capsid protein and minor structural protein genes, complete cds. ACCESSION JX445159 VERSION JX445159.1 KEYWORDS . SOURCE Norovirus Hu/GII.4/AlbertaEI009/2008/CA ORGANISM Norovirus Hu/GII.4/AlbertaEI009/2008/CA Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7488) AUTHORS Hasing,M.E., Lee,B.E., Preiksaitis,J.K., Tyrrell,G.J., Louie,M. and Pang,X.L. TITLE Direct Submission JOURNAL Submitted (01-AUG-2012) Provincial Laboratory for Public Health (ProvLab), 8440-112 Street, Edmonton, Alberta T6G 2J2, Canada FEATURES Location/Qualifiers source 1..7488 /organism="Norovirus Hu/GII.4/AlbertaEI009/2008/CA" /mol_type="genomic RNA" /strain="Hu/GII.4/AlbertaEI009/2008/CA" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:1238268" /country="Canada" /collection_date="Jan-2008" /note="genotype: GII.4" CDS <1..5068 /codon_start=2 /product="non-structural polyprotein" /protein_id="AFU55706.1" /translation="AVANSNNDTAKSSSDKMFSSMAVTFKRALGARPKQPPPREIPQR PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL NQRENRDAKEPLAGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIINILA SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS IKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEVTNKDGCPKPKDNEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRST GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTAPLPPGTYEPAYLGGKDPRVKDGPSLQQVMRDQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" CDS 5049..6671 /note="VP1" /codon_start=1 /product="major capsid protein" /protein_id="AFU55707.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTEGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6671..7477 /codon_start=1 /product="minor structural protein" /protein_id="AFU55708.1" /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPARGSPNTSS NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV" 3'UTR 7478..>7488 ORIGIN 1 cgctgttgct aacagcaaca acgacaccgc aaaatcttca agtgacaaaa tgttttctag 61 catggctgtc acttttaaac gagccctcgg ggcgcggcct aaacagcccc ccccgaggga 121 aataccacaa agacccccac gaccacctac tccagaactg gtcaaaaaga tccctcctcc 181 cccgcccaac ggagaggatg aagtagtggt ttcttatagt gccaaagatg gcgtttccgg 241 tttacctgag ctttccaccg tcaggcaacc ggaagaaacc aatacggcct tcagtgtccc 301 tccactcaat cagagggaga atagggatgc taaggaacca ctggctggaa caattctgga 361 aatgtgggat ggagaaatct accattatgg cctgtatgtt gagcgaggtc ttgtgctggg 421 tgtgcacaaa ccaccagctg ccattagcct cgccaaggtc gaactaacac cactctcctt 481 gttctggaga cctgtgtaca ctcctcagta cctcatctct ccagacactc tcaagaaatt 541 acacggagaa acttttccct acacagcctt cgacaacaat tgctatgcct tttgttgctg 601 ggtcctggat ctaaacgact cgtggctgag taggagaatg atccagagaa caacaggctt 661 cttcagacca taccaagatt ggaataggaa acccctcccc actatggatg attccaaatt 721 aaagaaggta gctaacatat tcctgtgcac cctgtcttcg ctattcacca ggcccataaa 781 agacataata gggaagttaa ggcctctcaa catcatcaac atcctggctt catgtgattg 841 gactttcgca ggcatagtgg agtccttgat actcttggca gagctctttg gagtcttctg 901 gacaccccca gatgtgtctg cgatgattgc ccccttactc ggtgatttcg agttacaagg 961 acctgaggac cttgtagtgg agctcgtccc tgtagtaatg gggggaattg gtttggtgct 1021 aggattcacc aaagagaaga ttggaaaaat gttgtcatct gctgcatcta ccttgagagc 1081 ttgtaaagat cttggtgcat atgggctaga gattctaaag ttagtcatga agtggttctt 1141 cccgaagaaa gaggaagcaa atgaactggc tatggtgaga tccatcgagg atgcagtact 1201 ggaccttgag gcaattgaaa acaaccatat gaccaccttg ctcaaagaca aagacagcct 1261 ggcaacctat atgagaaccc ttgacctcga ggaagagaaa gccagaaaac tctcaaccaa 1321 gtctgcttca cctgacatcg tgggcacaat caacgccctt ctggcgagaa tcgccgctgc 1381 acgctccctg gtgcaccgag cgaaggagga gctttccagc agaccaagac ctgtagtctt 1441 gatgatatca ggcagaccag gaatagggaa gacccacctt gctagggaag tggctaagag 1501 aatcgcagcc tccctcacag gagaccagcg tgtaggcctc atcccacgca atggcgtcga 1561 tcactgggat gcgtacaagg gggagagggt cgtcctatgg gacgactatg gaatgagcaa 1621 tcccatccac gacgccctaa ggctgcaaga actcgctgac acttgccccc tcactctaaa 1681 ttgtgacagg attgagaata aaggaaaggt ctttgacagc gatgtcatca ttatcactac 1741 taacctggct aacccagcac cactggacta tgtcaacttt gaagcgtgct cgaggcgcat 1801 cgatttcctc gtgtatgcag aagcccccga ggtcgaaaag gcgaagcgcg acttcccggg 1861 ccaacctgac atgtggaaaa acgcttttag ttctgatttc tcacacataa aattggcact 1921 ggctccacaa ggtggctttg ataagaacgg gaacacccca cacggtaagg gcgtcatgaa 1981 gactctcacc actggctccc tcattgcccg ggcatcaggg ctgctccatg agagattgga 2041 tgagtttgaa ctacagggcc cagctcttac caccttcaac tttgaccgca acaaagtgct 2101 tgccttcagg cagcttgctg ctgaaaacaa atacgggttg atggacacaa tgaaagttgg 2161 gaggcagctc aaggatgtca aaaccatgcc agaacttaaa caagcactca agaatatctc 2221 aatcaagaag tgccagattg tgtatagtgg ttgcacctac acacttgagt ctgatggcaa 2281 gggcaatgtg aaagttgaca gagttcagag cacctccgtt cagaccaaca atgagctggc 2341 tggcgccctg caccatctaa ggtgcgccag aatcaggtac tatgtcaagt gtgttcagga 2401 agccctgtat tctatcatcc agattgctgg ggctgcattt gtcaccacgc gcatcatcaa 2461 gcgtgtgaac attcaagact tatggtccaa gccacaagtg gaaaacacag aggaggttac 2521 caacaaggac gggtgcccaa aacccaaaga taatgaggag ttcgtcattt catctgacga 2581 cattaaaact gagggtaaga aagggaagaa caagactggc cgtggcaaga agcacacagc 2641 cttctcaagt aaaggtctca gtgatgaaga gtatgatgag tacaagagaa ttagagagga 2701 aaggaatggc aagtactcca tagaagagta ccttcaggac agggacaaat actatgagga 2761 ggtggccatt gccagggcga ccgaggaaga tttctgtgaa gaggaggagg ccaagatccg 2821 gcaaaggatc ttcagaccaa caaggaaaca acgcaaggaa gaaagagctt ctctcggttt 2881 agtcacaggt tctgaaatta ggaaaaggaa cccagaagac ttcaagccta aggggaaact 2941 atgggctgac gatgacagaa gtgtggacta caatgaaaaa ctcagctttg aggccccacc 3001 aagcatctgg tcaaggatag tcaactttgg ctcaggttgg ggcttctggg tctcccccag 3061 cctgttcata acatcaaccc acgtcatacc ccagggcgca aaggagttct ttggagtccc 3121 catcaaacaa attcaggtac acaagtcagg cgaattctgt cgcttgaggt tcccaaaacc 3181 aatcaggact gatgtgactg gcatgatctt ggaagaaggt gcgcccgaag gcaccgtggt 3241 cacactactc atcaaaaggt ctactggaga actcatgccc ctagcagcta gaatggggac 3301 ccatgcaacc atgaaaattc aagggcgcac tgttggaggt cagatgggca tgcttctgac 3361 gggatccaac gccaaaagca tggatctagg caccacacca ggtgattgcg gctgtcccta 3421 catctacaag agaggaaatg actatgtggt cattggagtc cacacggctg ccgctcgtgg 3481 gggaaacact gtcatatgtg ccacccaggg gggtgagggg gaagctacac ttgaaggtgg 3541 tgacagtaag ggaacatact gtggtgcacc aatcctaggc ccagggagtg ccccaaaact 3601 tagcaccaaa accaaattct ggagatcatc cacagcacca ctcccacctg gcacctatga 3661 accagcctac cttggtggca aggaccccag agtcaaggat ggcccctcgt tgcagcaagt 3721 catgagggac cagctgaaac cattcacaga gcctaggggt aagccaccaa agccaagcgt 3781 gttagaagct gccaagaaaa ccatcatcaa tgtccttgaa caaacaattg acccacctga 3841 gaagtggtcg ttcgcacaag cttgcgcgtc tcttgacaag actacttcta gcggccatcc 3901 gcaccacatg cggaaaaacg actgctggaa cggggaatcc ttcacaggca agctggcaga 3961 ccaggcttcc aaggccaacc tgatgtttga agaagggaag aacatgaccc cagtctacac 4021 aggtgcactt aaggatgaat tagtcaaaac tgacaaaatt tatggtaaga tcaagaagag 4081 gcttctctgg ggctcggatt tagcaaccat gatccggtgt gctcgagcat tcggaggcct 4141 aatggatgaa ctcaaagcac actgtgtcac acttcctatc agagttggta tgaatatgaa 4201 tgaggatggc cccatcatct tcgagaagca ttccaggtac agataccact atgatgctga 4261 ttactctcgg tgggattcaa cacaacagag agccgtgctg gcagctgctc tagaaatcat 4321 ggttaaattc tcctcagaac cacatttggc tcaggtagta gcagaagacc ttctttctcc 4381 tagcgtggtg gatgtgggtg acttcacaat atcaatcaac gagggtcttc cctctggggt 4441 gccctgcacc tcccaatgga actccatcgc ccactggctt ctcactctct gtgcactctc 4501 cgaagttacg aatttgtccc cagacatcat acaggctaat tctctcttct ccttttatgg 4561 tgatgatgaa attgttagta cagacataaa attagaccca gagaagttga cagcaaagct 4621 taaggaatac gggttgaaac caacccgccc tgataaaact gaaggacctc ttgttatttc 4681 tgaagactta gatggtttga ctttcctgcg gagaactgtg acccgcgacc cagctggttg 4741 gtttggaaaa ctggagcaga gctcaatact caggcaaatg tactggacta ggggccccaa 4801 ccatgaagat ccatctgaat caatgattcc acactctcaa agacccatac aattgatgtc 4861 cttactggga gaggccgcac tccacggccc aacattctac agtaaaatca gcaaattagt 4921 cattgcagag ctaaaagaag gtggtatgga tttttacgtg cccaggcaag agccaatgtt 4981 cagatggatg agattctcag atctgagcac gtgggagggc gatcgcaatc tggctcccag 5041 ttttgtgaat gaagatggcg tcgaatgacg ccaacccatc cgatgggtcc gcagccaacc 5101 tcgtcccaga ggtcaacaat gaggttatgg ctttggagcc cgttgtcggt gccgctattg 5161 cggcgcctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat aattttgtac 5221 aagcccctgg tggagagttc acagtatccc ctagaaacgc tccaggcgaa atactatgga 5281 gtgcgccctt aggccctgat ttgaatccct acctatctca tttggccaga atgtataatg 5341 gttatgcagg tggttttgaa gtgcaggtga tcctcgcggg gaacgcgttc accgccggaa 5401 aaattatatt tgcagcagtc ccaccaaatt ttccaactga aggcttgagt cccagccagg 5461 tcactatgtt cccccacata atagtggatg ttaggcaatt ggaacctgtg ttgatcccct 5521 tacctgatgt taggaataac ttctatcact ataatcagtc aaatgattct actattaaat 5581 tgatagcaat gctgtataca ccacttaggg ctaataatgc tggggaagat gtcttcacag 5641 tctcttgtcg ggttctcacg aggccatccc ctgattttga ttttatattt ttggtgccac 5701 ctacagttga gtcaagaact aaaccattta ctgtcccaat cttaactgtt gaagaaatga 5761 ccaattcaag attccccatt cctttggaaa aattgttcac gggtcccagc agtgcctttg 5821 ttgttcaacc acaaaatggc agatgcacga ctgatggcgt gctcttaggc accacccaac 5881 tgtctcctgt caacatctgc accttcagag gggatgtcac ccacattgca ggttctcgta 5941 attacacaat gaatttggct tctctaaatt ggaacaatta tgacccaaca gaagaaattc 6001 cagcccctct aggaactcca gatttcgtgg ggaagatcca aggtgtgctc actcaaacca 6061 cagagggaga tggctcgacc cgtggccata aagctacagt ttacactggg agtgcccctt 6121 ttactccaaa gctgggcagt gttcaattca gtactgatac agaaaatgat tttgaaactc 6181 accaaaacac aaaattcacc ccagtcggtg tcatccagga tggtagcacc acccaccgaa 6241 atgaacccca acaatgggtg ctcccaagtt attcaggtag aaatgtccat aatgtacacc 6301 tagcccctgc tgtagccccc acttttccgg gtgaacaact tcttttcttt aggtccacta 6361 tgcccggatg cagcgggtat cccaacatgg atttggattg cctactcccc caggagtggg 6421 tgcagcactt ctaccaagag gcagctccag cacaatctga tgtggctcta ttgagatttg 6481 tgaatccaga cacgggtagg gtcctgtttg agtgcaaact tcataaatca ggctatgtca 6541 cagtggctca caccggccag catgatttgg tcatcccccc caatggttat tttaggtttg 6601 attcctgggt taatcaattc tacacacttg cccccatggg aaatggaacg gggcgtagac 6661 gtgctttata atggctggag ctttctttgc tggattggca tctgatgtcc ttagctctgg 6721 acttggttcc ctaatcaatg ctggggctgg ggctatcaac caaaagattg attttgaaaa 6781 taacagaaaa ttgcagcaag cttccttcca gtttagcagt aatctacaac aggcttcctt 6841 tcaacatgat aaagagatgc tccaagcaca aattgaggcc actaaaaagt tgcaacagga 6901 aatgatgaaa gtcaaacagg caatgctctt agaaggtgga ttctctgaaa cagatgcagc 6961 ccgtggggca atcaacgccc ctatgacaaa ggctttggac tggagcggaa caaggtactg 7021 ggcccctgat gctaggacta caacatacaa tgcaggccgt ttttccaccc ctcaaccttc 7081 gggggcactg ccaggaagaa tcaatcccag gactcctacc cccgctcggg gctcccccaa 7141 cacatcttct aatgcttcta ctgctacttc tatatattca aatcaaactg tttcaacgag 7201 acttggttct acagctggtt ctggcaccaa tgtctcgagt ctcccgtcaa ctgcaaggac 7261 taggagttgg gttgaggatc aaaacagaaa tttgtcacct tttatgaggg gggctcacaa 7321 catatcgttt gtcaccccac catctagcag atcctctagc caaggcacag tctcaaccgt 7381 gcctaaagaa gttttggact cctggactgg cgctttcaac acgcgcaggc agcctctctt 7441 cgctcacatt cgtaggcgag gggagtcacg ggtgtaatgt gaaaagac //