Typing tool
|
Complete norovirus genomes
EF202568 | GII.4 Hunter | ||
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GII.P4 Hunter |
ORF1: 1..5078 ORF2: 5059..6681 ORF3: 6681..7360LOCUS EF202568 7360 bp RNA linear VRL 23-JUL-2016 DEFINITION Norovirus Hu/GII/Toronto/SK/2005/CAN nonstructural polyprotein gene, partial cds; capsid protein gene, complete cds; and unknown gene. ACCESSION EF202568 VERSION EF202568.1 KEYWORDS . SOURCE Norovirus Hu/GII/Toronto/SK/2005/CAN ORGANISM Norovirus Hu/GII/Toronto/SK/2005/CAN Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7360) AUTHORS Kostela,J., Ayers,M., Nishikawa,J., McIntyre,L., Petric,M. and Tellier,R. TITLE Amplification by long RT-PCR of near full-length norovirus genomes JOURNAL J. Virol. Methods 149 (2), 226-230 (2008) PUBMED 18355931 REFERENCE 2 (bases 1 to 7360) AUTHORS Kostela,J. and Tellier,R. TITLE Direct Submission JOURNAL Submitted (29-DEC-2006) Paediatric Laboratory Medicine, Hospital for Sick Children, 555 University Ave, Toronto, ON M5G 1X8, Canada FEATURES Location/Qualifiers source 1..7360 /organism="Norovirus Hu/GII/Toronto/SK/2005/CAN" /mol_type="genomic RNA" /isolate="SK2005" /isolation_source="stool sample" /db_xref="taxon:440501" /country="Canada: Toronto" /collection_date="2005" /note="genotype: II" CDS <1..5078 /note="ORF 1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="ABQ12783.1" /translation="SAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREI PQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGISGLPDLSTVRQPEESNTAFSV PPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLARVELTP LSLFWRPVYTPQYLISPDALKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ RTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILN ILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPV VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL AIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV GTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASL TGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDR IENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQ PDMWKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERL DEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALK NISIKKCQIVHNGCTYTLESDGKGNVKVDRVQSASVQTNNELTGALHHLRCARIRYYV RCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEETTSKDGCPKPKDDEE FVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL QDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKR NPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH VIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIK RSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK RGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLS TKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPS VLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGK LADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMIRCAR AFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQRAVL AAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAH WLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTR PDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGSNHEDPSET MIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRF SDLSTWEGDRNLAPSFVNEDGVE" CDS 5059..6681 /codon_start=1 /product="capsid protein" /protein_id="ABQ12784.1" /translation="MKMASNDATPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSSFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGTQNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRRDGSTRGHKATVSTGSVHFTPKLGSVQFSTDTSNDFETGQNTRFTPVGVVQDG STTPQNEPQQWVLPDYSGRDSHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD CLLPQEWVQHFYQESAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" CDS 6681..>7360 /note="ORF 3" /codon_start=1 /product="unknown" /protein_id="ABQ12785.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAVN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGASPGRTNLRATVPARGSSSTPS NASTATSVYSNQTASTRLGSTAGSGTSVSSPPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSS" ORIGIN 1 cttccgctgc cgctgttgct aacagcaaca acgacaccgc aaaatcttca agtgacggag 61 tgctttctag catggctgtc acttttaaac gagccctcgg ggcgcggcct aagcagcctc 121 ccccgaggga aataccacaa agacccccac gaccacctac tccagaactg gtcaaaaaca 181 tcccccctcc cccgcccaac ggagaggatg aaatagtggt ttcttatagt gtcaaagatg 241 gtatttccgg tttgcctgat ctttccaccg tcaggcaacc ggaagaatct aacacggcct 301 tcagtgtccc tccactcaat cagagggaga atagagatgc taaggagcca ctgactggaa 361 caattctgga aatgtgggat ggagaaatct accattatgg cctgtatgtg gagcgaggtc 421 ttgtactagg tgtgcacaaa ccaccagctg ccattagcct cgctagggtc gaactaacac 481 cactctccct gttctggaga cctgtgtata ctcctcagta cctcatctct ccagacgctc 541 tcaagaaatt acacggagag acgttcccct acacagcctt tgacaacaat tgctatgcct 601 tttgttgctg ggtcctggac ctaaacgact cgtggctgag taggagaatg atccagagaa 661 caactggctt cttcaggccc taccaagact ggaataggaa acccctcccc actatggatg 721 actccaagtt aaagaaggta gctaacatat tcctgtgtgc tctgtcttcg ctattcacca 781 ggcccataaa agacataata gggaagctaa ggcctcttaa catcctcaac atcttggcct 841 catgtgattg gacttttgca ggcatagtgg agtccttgat actcttggca gaactctttg 901 gagttttctg gacaccccca gatgtgtctg cgatgattgc ccccttactc ggtgattacg 961 agctacaagg acctgaggac cttgcagtgg agctcgtccc tgtagtgatg gggggaattg 1021 gtttggtgct aggcttcacc aaagagaaga ttggaaaaat gttgtcatct gctgcatcca 1081 ccttgagagc ttgtaaagat cttggtgcat atgggctaga gatcctaaag ttggtcatga 1141 agtggttctt cccgaagaaa gaggaagcaa atgaactggc tatagtgaga tccatcgagg 1201 atgcagtcct ggatctcgag gcaattgaaa acaaccatat gaccaccttg ctcaaagaca 1261 aagacagtct ggcaacctac atgagaaccc ttgaccttga ggaggagaaa gccaggaaac 1321 tctcaaccaa gtctgcttca cctgacatcg tgggcacaat caacgccctt ctggcgagaa 1381 tcgctgctgc acgttctctg gtgcatcgag cgaaggagga actttccagc agaccaagac 1441 ctgtagtgtt gatgatatca ggcagaccag gaatagggaa gacccacctt gctagggaag 1501 tggctaagag aatcgcggcc tcccttacag gagaccagcg tgtaggcctc gtcccacgca 1561 atggcgtcga ccattgggat gcgtacaagg gggagagggt cgtcctatgg gacgactatg 1621 gaatgagcaa ccccatccac gatgccctca ggttgcaaga actcgctgac acttgccccc 1681 tcaccctaaa ctgtgacagg attgagaata aaggaaaggt ctttgacagc gatgtcatca 1741 ttatcaccac taatctggct aacccagcac cactggacta tgtcaacttt gaagcatgct 1801 cgaggcgcat cgacttcctc gtgtatgcag aagcccctga ggtcgaaaag gcgaagcgtg 1861 acttcccagg ccaacccgac atgtggaaga acgccttcag ttctgatttc tcacacataa 1921 aactaacatt ggctccacag ggtggcttcg acaagaacgg gaacacccca cacggaaagg 1981 gcgtcatgaa gactctcacc actggctccc ttattgcccg ggcatcaggg ctactccatg 2041 agaggctaga tgaatttgaa ctacaaggcc caactctcac caccttcaac tttgatcgca 2101 acaaagtgct tgcctttaga caacttgctg ctgaaaacaa atatgggttg atggacacaa 2161 tgaaagttgg gaggcagctc aaggatgtca gaacaatgcc agagcttaaa caagcactca 2221 agaatatctc aatcaagaag tgccagatag tacataatgg ttgtacctac acacttgagt 2281 ctgatggcaa gggcaatgtg aaagttgaca gagttcaaag cgcctccgtg cagaccaaca 2341 atgagctgac tggcgccctg caccatctaa ggtgcgctag aataagatac tatgtcaggt 2401 gtgtccagga ggccctgtat tccatcatcc agattgctgg ggctgcattt gtcaccacgc 2461 gcatcgtcaa gcgcatgaac atacaagacc tatggtccaa gccacaagtg gaaaacacag 2521 aggagactac cagcaaggac gggtgtccaa aacccaaaga tgacgaggag ttcgtcattt 2581 catccgatga catcaaaact gagggtaaga aagggaagaa caagactggc cgcggcaaga 2641 agcacacagc cttctcaagc aaaggcctca gtgatgaaga gtacgatgag tacaagagga 2701 ttagagaaga aaggaatggc aagtactcca tagaagagta ccttcaggac agggacaaat 2761 actatgagga ggtggccatt gccagggcga ccgaggagga cttctgtgaa gaggaggagg 2821 ccaagatccg gcaaaggatc ttcaggccaa caaggaaaca acgcaaggag gaaagagctt 2881 ctctcggttt agttacaggt tctgaaatta ggaaaagaaa tccagatgat ttcaaaccca 2941 aggggaagct gtgggctgac gatgacagaa gtgtggacta caatgagaaa ctcagttttg 3001 aagccccacc aagcatctgg tcgaggatag tcaactttgg ttcaggttgg gggttctggg 3061 tctcccccag tctgttcata acatcaaccc atgtcatacc ccagggcgca aaggagttct 3121 ttggagtccc catcaaacaa attcaggtac ataagtcagg cgaattctgt cgcttgagat 3181 tcccaaaacc aatcaggact gatgtgacgg gcatgatctt agaagaaggt gcacccgagg 3241 gcaccgtggt cacactactc atcaaaaggt ccactggaga actcatgccc ctagcagcta 3301 ggatggggac ccatgcaacc atgaaaatcc aaggacgcac tgttggaggt caaatgggca 3361 tgcttctgac aggatccaac gccaaaagca tggacctggg taccacacca ggtgattgtg 3421 gctgccccta catctacaag agaggaaatg actatgtagt cattggagtc cacacggctg 3481 ccgctcgtgg gggaaacact gtcatatgtg ccacccaggg gagtgaggga gaggctacac 3541 ttgaaggtgg tgacaataaa gggacatact gtggtgcgcc aatcctaggt ccagggagtg 3601 ccccaaaact tagcaccaag accaaattct ggagatcgtc cacagcatca ctcccacctg 3661 gcacctatga accagcctat cttggtggca aggaccccag agtcaagggt ggcccttcac 3721 tgcagcaagt catgagggat cagctgaagc catttacaga gcccaggggc aagccaccaa 3781 agccaagtgt gttggaagct gccaagaaaa ccatcatcaa tgtccttgag caaacaattg 3841 atccacctga gaaatggtca ttcgcacaag cttgcgcgtc ccttgacaag accacttcca 3901 gtggccatcc gcatcacatg cggaaaaacg actgctggaa cggggagtct ttcacaggca 3961 agctggcaga ccaagcttcc aaggccaacc tgatgtttga agaagggaag aacatgaccc 4021 cagtctacac agctgcgctt aaggatgaat tagttaaaac tgacaaaatt tatggtaaga 4081 tcaagaagag gcttctttgg ggctcggatt tggcgaccat gattcggtgt gctcgagcat 4141 tcggaggcct aatggatgaa ctcaaagcgc actgtgtcac acttcccatt agagttggta 4201 tgaatatgaa tgaggatggc cccatcatct tcgagaggca ttccaggtac acataccact 4261 atgatgctga ttactctcga tgggattcaa cacaacagag agccgtgttg gcagcagctc 4321 tagaaatcat ggttaaattc tccccagaac cacatttggc tcaggtagtc gcagaagacc 4381 ttctttctcc tagcgtggtg gacgtgggtg acttcacaat atcaatcaac gagggtcttc 4441 cctctggggt gccctgcacc tcccaatgga actccatcgc ccactggctt ctcactctct 4501 gtgcgctctc tgaagttaca aacttgtctc ctgacaccat acaggctaac tccctcttct 4561 ctttttatgg tgatgatgaa attgttagca cagacataaa attggaccca gagaagttga 4621 cagcaaagct cagggaatat gggttaaaac caacccgccc tgacaaaact gaaggacccc 4681 ttgtcatctc tgaagacttg aatggcctga ctttcctgcg aagaactgtg acccgcgacc 4741 cagctggttg gtttggaaaa ttggatcaga gttcaatact caggcaaatg tactggacta 4801 ggggttccaa ccatgaagac ccatctgaaa caatgattcc acactcccaa agacccatac 4861 aattgatgtc cctactgggg gaggccgcac tccacggccc agcattctac agcaaaatca 4921 gcaagttagt cattgcagag ctaaaagaag gtggcatgga tttttacgtg cccagacaag 4981 agccaatgtt cagatggatg agattctcag atctgagcac gtgggagggc gatcgcaatc 5041 tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccaccccatc tgatgggtcc 5101 gcagccaacc tcgtcccaga ggtcaacaat gaggttatgg ctttggagcc cgttgttggt 5161 gccgcgattg cggcacctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat 5221 aattttgtac aagcccctgg tggagagttt acagtatccc ctagaaacgc tccaggtgaa 5281 atattatgga gcgcgccctt gggccctgat ttgaatccct acctttccca tttggccaga 5341 atgtacaatg gttatgcagg tggttttgaa gtgcaggtaa tcctcgcggg gaacgcgttc 5401 accgccggga aaatcatatt tgcagcagtc ccaccaaatt tcccaactga aggcttgagc 5461 cccagccagg tcactatgtt cccccatata atagtagatg ttaggcaact ggaacctgtg 5521 ttgattccct tgcctgatgt taggaacaat ttctatcatt acaatcaatc aaatgacccc 5581 accatcaaac tgatagcaat gctgtataca ccacttaggg ctaacaatgc tggggacgat 5641 gtcttcacag tctcttgtcg agttctcacg agaccatccc ccgattttga tttcatattt 5701 ttggtgccac ccacagttga gtcaagaact aaaccattct ctgtcccaat cttaactgtt 5761 gaggagatga ccaattcaag attccctatt cctttggaaa agttgttcac gggtcccagc 5821 agttcctttg ttgttcaacc acaaaatggc agatgcacga ctgatggcgt gctcttaggt 5881 actacccaac tgtctcccgt caacatctgt accttcagag gggatgtcac ccacattgca 5941 ggtactcaaa attacacaat gaatctggcc tcccaaaatt ggaacaatta tgacccaaca 6001 gaagaaatcc cagcccctct gggaacccca gattttgtag gaaagatcca aggcgtgctc 6061 acccaaacca caaggaggga tggctcgacc cgcggtcata aagccacagt gagcactgga 6121 agtgtccact ttactccaaa gctgggcagt gttcaattct ccactgatac aagcaatgac 6181 tttgaaaccg gccaaaacac gaggttcacc ccagtcggtg tcgtccagga tggtagtacc 6241 accccccaaa atgaacccca acagtgggtg ctcccagact attcaggtag agatagtcac 6301 aatgtacacc tagcccctgc tgtggccccc acttttccgg gtgagcaact tcttttcttt 6361 aggtccacta tgcccggatg cagcgggtat cccaacatga atttggattg cctactcccc 6421 caggagtggg tgcagcactt ctaccaagag tcagccccag cacaatctga tgtggcacta 6481 ctgagatttg tgaatccaga cacaggtagg gttctgtttg agtgcaagct tcataaatca 6541 ggctatgtaa cagtggccca cactggccaa catgatttgg ttatcccccc caatggctat 6601 tttagatttg attcctgggt caaccaattc tacacacttg cccccatggg aaatggagcg 6661 gggcgtagac gtgcattata atggctggag ctttctttgc tggattggca tctgatgtcc 6721 ttggctctgg acttggctct ctaatcaatg ctggggctgg ggccatcaac caaaaaattg 6781 agtttgaaaa taacagaaaa ttgcaacaag cttccttcca atttagcagc aacctacaac 6841 aggcttcctt tcaacatgat aaagagatgc tccaagcaca aattgaggcc accaaaaagt 6901 tgcaacagga aatgatgaaa gttaaacagg caatgctcct agagggtggg ttctctgaga 6961 cagatgcagc ccgtggggca gtcaacgccc ccatgacaaa ggctttggac tggagcggaa 7021 caaggtattg ggctcccgat gctaggacta caacatacaa tgcaggccgc ttttccaccc 7081 ctcaaccctc gggggcatcg ccaggaagaa ctaatctcag ggctactgtc cccgctcggg 7141 gctcctccag cacaccttct aatgcttcta ctgctacttc tgtgtactca aatcaaactg 7201 cttcaacgag acttggttct acagctggtt ctggtaccag tgtctcaagc cccccgtcaa 7261 ctgcaaggac taggagctgg gttgaggatc aaaacaggaa tttgtcacct ttcatgaggg 7321 gggcccacaa catatcgttt gtcaccccac catctagtag //