Typing tool
|
Complete norovirus genomes
KY424329 | GII.4 Sydney | ||
---|---|---|---|
GII.P31 |
ORF1: 1..5069 ORF2: 5050..6672 ORF3: 6672..7478LOCUS KY424329 7529 bp RNA linear VRL 19-APR-2018 DEFINITION Norovirus GII.4 isolate Hu/GII.4/RockvilleD7/2012/US nonstructural polyprotein gene, partial cds; and major capsid protein VP1 and minor capsid protein VP2 genes, complete cds. ACCESSION KY424329 VERSION KY424329.1 KEYWORDS . SOURCE Norovirus GII.4 ORGANISM Norovirus GII.4 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7529) AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C.J., Sosnovtsev,S.V. and Green,K.Y. TITLE Static and Evolving Norovirus Genotypes: Implications for Epidemiology and Immunity JOURNAL PLoS Pathog. 13 (1), e1006136 (2017) PUBMED 28103318 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7529) AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C., Sosnovtsev,S.S. and Green,K.Y. TITLE Direct Submission JOURNAL Submitted (03-JAN-2017) LID, NIAID, NIH, 50 South Drive, B50/R6316, Bethesda, MD 20892, USA COMMENT ##Assembly-Data-START## Assembly Method :: Bowtie v. 2; Sequencher v. 5 Sequencing Technology :: Sanger dideoxy sequencing; IonTorrent ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7529 /organism="Norovirus GII.4" /mol_type="genomic RNA" /isolate="Hu/GII.4/RockvilleD7/2012/US" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:489821" /country="USA" /collection_date="Jan-2012" /note="genotype: GII.4" CDS <1..5069 /codon_start=3 /product="nonstructural polyprotein" /protein_id="APU54750.1" /translation="AVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEIPPR PPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPL NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHRPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIAASLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY ELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLKQALKNIA IKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDEEFVV SSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIRDERNGKYSIEEYLQDR DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQIMRDQLKPFTEPRGKPPRPNVLE AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIP HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" CDS 5050..6672 /codon_start=1 /product="major capsid protein VP1" /protein_id="APU54751.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICNFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" CDS 6672..7478 /codon_start=1 /product="minor capsid protein VP2" /protein_id="APU54752.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPAHGSSSKSS NFSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacggt gtgttttcta 61 acatggctgt cactttcaaa cgggccctcg gggcgcggcc taaacagccg cccccgaagg 121 aaataccacc cagacccccg cgaccaccca caccagaatt ggtcaaaaag atccctcctc 181 ccccacccaa cggggaggat gaactagtgg tctcctacag cgccaaagat ggcgtttccg 241 gactgcctga gctcaccact gtcagacaac cggaagaaac caacacggcg ttcagcgtcc 301 ccccactcaa ccaaagggag agcagggacg ccaaggagcc actaactgga acaattattg 361 aaatgtggga tggagaaatc taccattacg gcctgtacgt ggaacgaggt cttatacttg 421 gtgtgcacag gccaccggca gccatcagcc ttgccaaggt cgagctaaca ccgctctctt 481 tgttctggag acctgtatac accccccagt atctcatctc tccagacact cttaggagac 541 tacatggaga gtcattcccc tacactgcat ttgacaacaa ttgctacgcc ttttgttgtt 601 gggtattaga cctaaacgac tcatggctaa gcaggagaat gattcagaga acaacaggtt 661 tcttcagacc gtaccaggat tggaacagga aacccctccc cactatggat gattccaaat 721 taaagaaggt agccaacata ttcttgtgca ctttgtcttc actattcacc agacccatta 781 aggacataat agggaagttg aaacctctta acatccttaa cattctggct acatgtgatt 841 ggaccttcgc aggcatagtg gaatccttaa tactcttggc agaactcttt ggagttttct 901 ggacaccccc agatgtgtct gcgatgatcg cccccttgct aggtgattat gaactgcaag 961 gacctgagga ccttgcagtg gaactggtcc caatagtgat gggggggata ggtttggtgc 1021 taggatttac caaagagaaa attggaaaga tgctatcatc cgctgcatcc actttaagag 1081 cttgtaaaga ccttggtgca tacggactgg aaatcttaaa actggtcatg aagtggttct 1141 tcccaaagaa agaggaagca aatgaactgg ctatggtgag gtccatcgag gatgcagtgc 1201 tagacctcga ggcaattgaa aacaaccaca tgaccaccct actcaaagac aaagacagct 1261 tggcaaccta catgagaacc ctagaccttg aggaggagaa agccagaaaa ctctcaacca 1321 aatctgcttc acccgatatt gtgggcacaa tcaactctct tctggcaaga atcgctgctg 1381 cacgctccct agtgcatcgg gcgaaagaag agctctccag caggccgaga cctgtcgttg 1441 tgatgatatc gggaaaacca gggataggga aaactcacct tgccagggag ctggccaaga 1501 agatcgcggc ctccctcaca ggggaccagc gtgtgggtct tatcccgcgc aatggtgtcg 1561 accactggga cgcatacaag ggtgaaagag ttgtcctatg ggacgactat ggaatgagca 1621 accccatcca tgatgccctc aggttgcagg agcttgctga cacttgcccc ctcacgctaa 1681 attgtgatag aattgagaac aaagggaaag tctttgacag tgatgccata attatcacca 1741 ccaatctggc caacccagca ccactggatt acgtcaactt tgaagcgtgc tcgagacgca 1801 ttgacttcct cgtgtacgca gaagcccctg aggtggagaa ggcaaagcgc gacttcccag 1861 gtcaacctga catgtggaag aacgctttca gtcctgactt ctcacacata aaactatcat 1921 tggctccaca gggtggtttt gacaagaacg gcaacacccc acatggaaaa ggggtcatga 1981 agaccctcac cactggctcc ctcatcgccc gagcatcagg gttactccat gagaggctag 2041 atgaatatga actgcaaggc ccagccctca ccactttcaa ctttgatcgt aacaagatac 2101 ttgcttttag acagcttgct gctgaaaaca agtatgggct gatggacaca atgagagttg 2161 gaaaacagct caaggatgtc aagaccatgc cagacctcaa acaagcactc aagaatatcg 2221 cgatcaagaa gtgccaaata gtgtacaatg gtagcaccta cacacttgag gccgatggca 2281 agggtagtgt gaaagttgac aaagtgcaaa gcgccactgt gcagaccaac aatgaactag 2341 ccggtgccct acaccaccta aggtgcgcca gaatcagata ctatgttaag tgcgtccagg 2401 aggcactgta ttccatcatc caaatcgctg gggctgcatt cgtcaccacg cgcatcgcta 2461 agcgcatgaa tatacagaat ctctggtcca agccacaggt ggaagacaca gaagagatgg 2521 ccaacaaaga tggttgccta aaacccaaag atgatgaaga gtttgtcgtc tcatccgacg 2581 acatcaaaac tgagggtaag aaagggaaga acaagtccgg ccgtggcaag aagcacacag 2641 ccttttcaag caaaggactc agtgatgagg agtacgatga gtacaagaga atcagagacg 2701 aaaggaatgg taagtattcc atagaagagt accttcagga cagagacagg tactacgagg 2761 aggtggccat tgccagggca accgaagagg acttctgtga agaagaagag gccaaaatcc 2821 ggcagaggat tttcagacca acaaggaaac aacgcaaaga agagagggcc tctctcggct 2881 tggttacagg ctctgaaatc aggaagagaa acccagaaga tttcaaaccc aagggaaagc 2941 tgtgggctga tgatgacaga agtgttgatt acaatgagaa actcaacttt gaggccccac 3001 caagcatctg gtcgcggata gtcaactttg gttcaggttg gggcttctgg gtctccccca 3061 gtctgtttat aacatcaacc catgtcatac cccaaggtgc aaaagagttc ttcggagtcc 3121 ctatcaagca aatccagata cacaaatcag gtgaattttg ccgattgaga ttcccaaaac 3181 caatcagaac tgatgtgacg ggcatgattc tagaagaagg tgcgcccgaa gggaccgtgg 3241 ccacactgct catcaagaga ccaactggag agctcatgcc tctggcagcc agaatgggga 3301 cccatgcaac catgaaaatt caggggcgca cagttggagg gcaaatgggt atgctcctga 3361 caggatccaa cgccaagagt atggacctag gcacaacacc aggcgactgc ggctgcccct 3421 acatttacaa gagggggaat gactacgtgg tcataggagt ccatacggcc gctgctcgtg 3481 gaggaaacac tgtcatatgt gccacccagg ggagtgaggg agaagccaca cttgaagggg 3541 gtgacagtaa agggacatac tgtggtgcac caatcttggg cccagggagc gctccgaagc 3601 tcagtaccaa gactaagttt tggagatcat ccacaacacc actcccacct ggcacctacg 3661 aaccagccta cctcggtggc aaagacccca gagtcaaagg tggcccttca ttgcaacaaa 3721 ttatgaggga ccagctaaag ccattcacag aacccagagg caaaccacca agaccaaatg 3781 tgttggaagc tgccaagaaa accatcatca atgtccttga gcaaacaatc gacccacccc 3841 aaaaatggtc attcgcgcaa gcttgcgcat cccttgacaa aaccacctcc agcggccacc 3901 cgcaccacat gcggaaaaac gattgttgga atggggagtc cttcacagga aaattggctg 3961 atcaggcctc caaggccaac ctaatgtttg aagagggaaa gaacatgact ccagtctaca 4021 caggtgcact taaagatgag ctggtaaaga ccgataaagt ttatggtaag atcaagaaga 4081 gacttctgtg gggttcagat ctggcgacca tgatacggtg cgcccgagct tttggaggcc 4141 ttatggatga actcaaggca cactgtgtca cacttcctgt cagagttggt atgaacatga 4201 atgaggatgg ccccatcatc tttgagaagc actccagata tagatatcac tatgatgctg 4261 attattcccg gtgggactca acacaacaaa gggatgtgct agcagcagca ctggaaatca 4321 tggttaagtt ctctccggaa ccacacctgg cccagatagt tgcagaagac ctcctttccc 4381 ctagcgtaat ggatgtaggt gactttcaaa tatcaataag tgagggtctc ccctctgggg 4441 taccttgtac ctcccagtgg aattccatcg cccactggct cctcactctt tgtgcactct 4501 ctgaagtcac ggacctgtcc cctgacatca ttcaggccaa ctctcttttc tccttctatg 4561 gtgatgatga gattgtaagc acagacataa agttggaccc agagaagctg acagcaaaac 4621 tcaaggagta cgggctgaaa ccaacccgcc ccgacaaaac tgaaggaccc cttgttatct 4681 ctgaagacct ggatggcctg acattcctcc ggagaactgt gacccgtgat ccagctggct 4741 ggtttggaaa attggaacaa agttcaattc tcaggcaaat gtactggacc aggggtccca 4801 accatgaaga tccatttgaa acaatgatac cacactccca aagacccata caattgatgt 4861 ccttactggg cgaggctgca ctccacggcc cggcatttta tagcaaaatt agcaaattag 4921 tcattgcaga gttgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt 4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctctggagc ccgttgttgg tgccgccatt 5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa caattttgta 5221 caagcccctg gtggagagtt tacagtatcc cctagaaacg ctccaggtga aatactatgg 5281 agcgcgccct taggccctga tctaaatccc tacctatccc atttggccag aatgtacaac 5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg 5401 aagatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttaag ccccagccag 5461 gtcactatgt tcccccatat aatagtagat gttaggcaac tagaacctgt gttgattccc 5521 ttacccgatg ttaggaataa tttctatcat tacaatcaat caaatgaccc caccattaag 5581 ttgatagcaa tgttgtatac accacttagg gctaataatg ctggggacga tgtcttcaca 5641 gtttcttgcc gagttctcac gagaccatcc cccgattttg atttcatatt tttagtgcca 5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttttaactgt tgaggagatg 5761 accaattcaa gattccccat tcctttggaa aagttgttta cgggtcccag cagtgccttt 5821 gttgttcaac cacaaaacgg caggtgcacg actgatggcg tgctcctagg caccacccaa 5881 ctgtctcctg tcaacatctg caacttcaga ggggatgtca cccatatcac aggtagtcgt 5941 aactacacaa tgaatttggc ttctcaaaat tggaacaatt atgacccaac agaagaaatc 6001 ccagcccctc taggaactcc agattttgtg gggaagattc aaggcatgct cacccaaacc 6061 acaaggacag atggctcaac acgcggccac aaagctacag tgtacactgg gagcgccgac 6121 tttgctccaa aactgggtag agttcaattt gaaactgaca cagaccatga ttttgaagct 6181 aaccaaaaca caaagttcac cccagtcggt gtcatccaag atggtagcac cacccaccga 6241 aatgaacccc aacagtgggt gctcccaagt tactcaggca gaaatactca taatgtgcat 6301 ctggcccccg ctgtagcccc cacttttccg ggtgagcaac ttctcttctt tagatccacc 6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctgctccc ccaggaatgg 6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg acgtggctct gctaagattt 6481 gtgaatccag acacaggtag ggttttgttt gagtgtaagc ttcataaatc aggctatgtt 6541 acagtggctc acactggcca acatgatttg gttatccccc ccaatggtta ttttaggttc 6601 gattcctggg tcaaccaatt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga 6661 cgtgtagtat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg 6721 gacttggttc tcttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa 6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatctacaa caggcttcct 6841 ttcaacatga caaagagatg ctccaagcac aaattgaggc caccaaaaag ctacaacagg 6901 aaatgatgaa agtcaagcag gcaatgctcc tagagggtgg gttctctgag acagatgcag 6961 cccgcggggc aatcaacgcc cccatgacaa aagctttgga ctggagcggg acaaggtact 7021 gggctcccga tgctaggact acaacataca atgcaggccg cttttccacc cctcaaccat 7081 cgggggcact gccaggaaga gctaatctta gggatgctgt ccctgctcat ggttcctcca 7141 gcaaatcttc taacttttct actgctactt ctgtgtactc aaatcaaact acttcaacga 7201 gacttggttc tacagctggt tctggtacca gtgtctcgag cctcccgtca actgcaagga 7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc tttcatgagg ggggcccaca 7321 acatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg 7381 tgcctaaaga ggttttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct 7441 tcgctcacat tcgtaagcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta 7501 cctttctttt tctttcttta gtgtctttt //