Typing tool
|
Complete norovirus genomes
MF802553 | GII.5 | ||
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GII.P40 |
ORF1: 5..5140 ORF2: 5121..6743 ORF3: 6743..7238LOCUS MF802553 7238 bp RNA linear VRL 07-AUG-2018 DEFINITION Norovirus GII isolate NoV/12196/16/NJ ORF1 and ORF2 genes, complete cds; and ORF3 gene, partial cds. ACCESSION MF802553 VERSION MF802553.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7238) AUTHORS Wang,X., Ding,J., Yong,W. and Xie,G. TITLE Multiple noroviruses including three recombinant ones: GII.P16-GII.2, GII.P7-GII.6, and GII.P22-GII.5, caused outbreaks in Nanjing, China, 2016/17 winter season JOURNAL Unpublished REFERENCE 2 (bases 1 to 7238) AUTHORS Wang,X., Ding,J., Yong,W. and Xie,G. TITLE Direct Submission JOURNAL Submitted (05-SEP-2017) Department of Microbiology, Nanjing Municipal Center for Disease Control and Prevention, Zizhulin No. 2, Nanjing, Jiangsu 210003, China COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7238 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="NoV/12196/16/NJ" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="China: Nanjing" /collection_date="Dec-2016" CDS 5..5140 /codon_start=1 /product="ORF1" /protein_id="AXJ20708.1" /translation="MKMASNDAATATAGNTSTNSVIHNQDVNSTSSLFANMTVGLKRA LGARPKQPAPRIPSPNREGRHETTPRAPPPNKGGNANIPPIPPPPPNGEDIVIKYTKQ DDAVEGVPTVATVDVPPTHNTAYSVPPLDQREKIEAKEPLTGSILEMWDGEIYHYGLY VEKGLVLGVHKPPAAISFARIELTPLSLYWRTVYTPPYLIAPETLRKLHGESFPYTAF DNNCYSFCCWVLDLNDSWLNRKFVSRTTGFYRPYQEWNRKPLPTMDEGKLKKVANVLL CGLSGLFTRPIKDLIGKLRPLNILNIITNCDWTFPGIVEAFILLAELFGVFWTPPDIS TFIASLLGDYEMQGPEDIAVEVVPVILGGIGMVLGFTKERIGRLLSSAASSLRACREI GNYGIEVVKLVMKWFFPTKDETNEMDMVRAIEDAVLDFEAIQNNHMTALLKDKNSLAT FLRELDMEEEKARKLSTKSASPDIIGTINALLARIAAARSLVHKAKEEMSSRMRPVVI MISGRPGIGKTHLARDLAKKMAATLSGDQRVGLVPRNGVDHWDAYKGERIVLWDDYGM SNPVTDALRLQELADTCPLTLNCDRIENKGKVFDSDTIIITTNLANPAPLDYVNFEAC SRRIDFLVYADSPSVDKAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPH GKGVMKTLTTHSLIARATGLLHERLDEFDLQGPELPVYNFDHNRVAAFRRLAADNKYG LMETIKVGNKLKSVKTLEQLKDALKDISIMPCRIVYNSMAYDLDSNGSGRVSVKKVVD HKVQTNNELNSALNNLRGARVRYYVKCVQEMVYSLLQIAGAAFVTSRITRRLNVSSIW VRPEKQVEATEEPPSPPTEDWTITPANAVQEGKKGKNKSGRGKKHTAFSSKGLSDEEY DEYKRIREERQGKYSIEEYLQDRDRYYEELAIAKATEENFCEEEEIKIRQRVFRPTRK QRKEERATLGLVTGSEIRKRNPDDFKPRGKLWADDDRSVNYNEKIDFEAPPSLWSRIV NFGSGWGFWVSSNLLITSTHVIPPNMTEAFGVPISQIQVHRSGEFCKMRFPKAIRPDV SGMILEEGAPEGTVVTILIKRTTGELMPLAARMGTHATMKIQGKMLGGQMGMLLTGSN AKNMDLGTIPGDCGCPYVYKRGNDWVVIGVHTAAARGGNTVICATQGPDGEATLEGRD NHGTYCGAPILGPGSAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQ VMREQLKPFTAPRGKPPRPAILEAAKETICNVLEQIIDPPQKWSYAQACASLDKTTSS GHPHHMKKNDNWNGESFTGVLADQASKANLMFEQGKHMQPVYTAALKDELVKTSKIYE KIKKRLLWGSDLGTMIRCARAFGGLMDEMKANCVNLPIRVGMNMNEDGPIIFEKHSKY KYHYDADYSRWDSTQQRHILGAALEIMVRFSAEPELAQIVSEDLLAPSVVDVGDFKIT INEGLPSGVPCTSQWNSISHWLITLCAISEISGLSPDVVQTNSCFSFYGDDEIVSTDI KLDPMKLTNKLREYGLIPTRPDKTEGPLIIKENLDGLTFLRRDVCRDPAGWYGKLDQS SIMRQLFWTKGPNHDDPNETMIPHSQRPIQLMSLLGEAALHGPVFYKKVSKLVITELK EGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE" CDS 5121..6743 /codon_start=1 /product="ORF2" /protein_id="AXJ20709.1" /translation="MKMASNDATPSNDGAAGLVPESNNEAMALEPVVGASLAAPVTGQ TNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILVNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKIIFAAVPPYFPVENLSPSQITMFPHVIIDVRTLEPVLLPMPD VRSTLFHFNQKDEPKMRLVAMLYTPLRSNGSGDDVFTVSCRILTRPSPEFDFTYLVPP TVESKTKPFTLPVLTLGELSNSRFPLSIDEMVTSPNESIVVQPQNGRVTLDGELLGTT QLQACNICSIRGKVTGQVPNEQHMWNLEVTNLNGTQFDPTDDVPAPLGVPDFAGEVFG VLSQRNRGESNPANRAHDAVVATYSDKYTPKLGLVQIGTWNTNDVENQPTKFTPIGLN EVANGHRFEQWTLPRYSGALTLNMNLAPAVAPLFPGERLLFFRSYVPLKGGFGNPAID CLVPQEWVQHFYQESAPSLGDVALVRYVNPDTGRVLFEAKLHKGGFLTVSSTSTGPVV VPANGYFRFDSWVNQFYSLAPMGTGNGRRRFQ" CDS 6743..>7238 /codon_start=1 /product="ORF3" /protein_id="AXJ20710.1" /translation="MAGAFIAGLAGDVLSNGLGSLIGAGANAINQRAEFDFNRQLQQN SFNHDKEMLNAQIQATKQLQADMIAIKQGVLAAGGFSPTDAARGAVNAPMTQALDWSG TRYWAPGSMKTTSYSGKFVSMNPVRQVEFPQPKKSAAIPSSASSVSSGRTNFTNSTQS TVVST" ORIGIN 1 gtgaatgaag atggcgtcta acgacgctgc cactgcgacc gctggcaata ccagcacaaa 61 cagtgtgatt cacaaccaag atgtaaattc tacatctagc ctctttgcca acatgactgt 121 tggcctgaag agggccctgg gggcgagacc aaaacagccc gctcccagga ttccttcccc 181 caacagggag ggaagacatg aaaccacccc tagagctccc cctccgaaca agggaggtaa 241 tgctaacatc ccaccaatac cacccccacc gcccaacggg gaggacatag tcatcaagta 301 taccaagcaa gatgacgcgg ttgaaggggt gcccaccgtc gccacggttg acgttccccc 361 cacacacaac accgcttaca gtgtcccccc cctggatcag agggaaaaga ttgaagcgaa 421 ggaacccttg acagggtcga tacttgagat gtgggacggt gagatctacc actatggtct 481 ctacgtggag aaaggcttgg ttcttggtgt gcacaaacct ccagctgcca taagctttgc 541 acgcatagaa cttactcccc tctccctata ctggagaaca gtctacactc caccttacct 601 gatagcccca gaaaccctaa ggaagctcca tggggagtca tttccatata cagcctttga 661 caacaattgt tactccttct gctgctgggt cctggacctg aacgattctt ggctcaacag 721 aaaatttgtg tcaaggacaa cgggtttcta caggccctac caagagtgga atagaaagcc 781 tttgccaacc atggatgaag gaaagctcaa gaaagtggcc aatgtgcttc tatgtggtct 841 ctctgggctt ttcactaggc ccatcaagga cctcataggg aagttgaggc cactaaacat 901 actaaacatc atcaccaatt gcgactggac cttccccgga attgtggaag ctttcatact 961 gcttgcagag ctctttggag ttttctggac accaccagac atttccacct tcatagcttc 1021 acttctgggt gactatgaaa tgcagggccc cgaggatatc gcggttgaag tcgtaccggt 1081 gatcctcggc ggcataggta tggtacttgg attcaccaaa gaaagaattg gccggttgct 1141 gagctctgcc gcttcctcac ttagagcatg cagggagatc ggcaactatg ggatagaggt 1201 agtgaagctg gtgatgaaat ggtttttccc caccaaagat gagacaaatg agatggatat 1261 ggtgagggca atagaggatg ctgttcttga ctttgaagcc atacagaaca atcacatgac 1321 agcattgctt aaagacaaaa acagccttgc aaccttcctc agggagctag atatggaaga 1381 ggaaaaggcg cggaagctat caacaaaatc tgcgtcccca gatattatcg gcaccataaa 1441 cgccctccta gccagaattg ccgctgctag gtccctagtc cacaaggcca aggaagaaat 1501 gtcatctagg atgcgtcctg ttgtcatcat gatctccggc cgacccggga tagggaagac 1561 gcatctggcc cgcgacctgg ctaagaagat ggcggcgacc ctctcaggtg atcagagagt 1621 ggggctcgtg ccgaggaatg gtgttgacca ttgggacgca tataaaggag agaggatcgt 1681 gctctgggac gattatggaa tgagcaaccc tgtgactgat gcgctgcggc tccaggagct 1741 tgccgacaca tgccccctaa cgctcaactg tgatagaata gaaaataagg gaaaagtgtt 1801 tgacagtgac actataatca tcaccactaa tttggccaat cctgctcctc tagattatgt 1861 caactttgaa gcttgctccc gccgaatcga cttccttgtc tatgcagact ccccctcggt 1921 ggacaaggcg aagagagact tccctggtca accagacatg tggaaggatg cttttaaatc 1981 ggacttttca cacataaaac ttcagttggc accacaggga ggctttgata agaacgggaa 2041 cacccctcat gggaaaggtg tcatgaaaac gctaaccaca cactcactca ttgcccgcgc 2101 cacgggcctc ctacatgaga gattggatga atttgacctg cagggacccg agttgcccgt 2161 gtacaatttt gaccacaaca gggtggctgc tttcaggaga ctggcagctg acaacaagta 2221 tgggcttatg gaaaccataa aggtgggtaa caaattgaaa agcgtcaaga ctctagaaca 2281 actcaaggac gctctaaaag acataagtat catgccttgc agaatagtct acaactcgat 2341 ggcttacgat ctcgattcga acggatcagg gagagtcagt gtcaaaaagg ttgtagacca 2401 caaggtccag accaacaacg agctcaattc cgccctcaac aatctgcgcg gtgccagggt 2461 gagatactat gttaaatgtg ttcaagagat ggtatattcc ctccttcaaa ttgctggcgc 2521 agccttcgtc acttcaagaa taacacggag gttgaacgtc agcagcattt gggtcagacc 2581 agaaaaacag gtggaggcca ctgaggaacc cccatccccc ccaactgagg actggactat 2641 aaccccagca aatgcagtcc aggaaggtaa aaagggcaag aacaagagcg gcagaggcaa 2701 gaaacatacc gccttctcca gtaaaggcct aagtgatgag gagtatgatg agtataaaag 2761 aatcagagaa gagagacaag gaaaatactc catagaagaa taccttcagg atagggaccg 2821 gtattatgaa gaattggcca tagccaaggc aacagaggag aacttctgtg aggaggaaga 2881 aataaaaatc agacagaggg tcttccgtcc gaccaggaaa caacgcaagg aagagagggc 2941 aactctagga ctggttacag gtagtgaaat aaggaagagg aacccagatg atttcaagcc 3001 aaggggaaaa ttgtgggctg atgatgaccg cagtgtaaat tacaatgaga aaatagattt 3061 tgaagcgcct cccagccttt ggtctcgaat agtcaacttc ggatcaggtt ggggtttttg 3121 ggtttcttcc aacttgctca tcacatcaac acatgtcatc cccccgaaca tgactgaggc 3181 cttcggtgta ccaataagcc agatacaagt acataggagt ggagagttct gtaaaatgag 3241 gttccccaaa gctataagac ctgatgtctc aggcatgatc cttgaggaag gagctcccga 3301 gggaacggtg gtgaccatac tgatcaagag gaccaccggt gagctcatgc cactggccgc 3361 ccgaatgggc acccacgcca ccatgaaaat tcaagggaaa atgcttggag gccaaatggg 3421 catgctcctc acggggtcca acgccaagaa catggacctc ggtaccatcc ctggagactg 3481 tggttgtccc tatgtttaca agagaggtaa cgattgggtg gtcatagggg tgcacaccgc 3541 agccgccaga ggtggcaaca ctgtgatttg tgccactcag ggtccagacg gtgaggccac 3601 gcttgagggg agagacaacc acgggactta ctgtggggca ccaatacttg gaccaggaag 3661 tgcaccaaaa ctcagcacca agactaaatt ctggaggtca tccaacgccc cactcccgcc 3721 tggtacttat gagcccgctt acctaggcgg aaaagaccca agagtcaagg ggggaccatc 3781 gctacagcaa gttatgaggg aacaactcaa acctttcaca gccccccgag ggaagccccc 3841 acgaccggcg atcctggagg ctgctaagga aaccatctgt aatgtacttg agcagatcat 3901 tgacccaccc caaaaatggt cttatgctca ggcctgtgcc tctctagaca aaacaacatc 3961 cagtggccat ccccaccata tgaaaaagaa tgataactgg aacggagagt cctttaccgg 4021 tgtgttggct gatcaagctt ccaaggcaaa tctcatgttt gaacaaggga aacacatgca 4081 acctgtgtat actgccgccc tcaaagacga actcgtcaag actagcaaga tctatgagaa 4141 aattaagaag aggctcctat ggggttcaga tctgggcaca atgatccgct gtgctagagc 4201 ttttggaggc ctcatggatg agatgaaagc aaattgtgtg aacttaccaa tcagagttgg 4261 catgaacatg aatgaagatg gacccatcat tttcgagaaa cattcaaagt ataagtacca 4321 ttatgatgct gactactcta ggtgggattc aacccaacag agacatatct tgggggctgc 4381 ccttgagata atggttaggt tctcagctga acctgaattg gcccaaattg tatctgaaga 4441 tctcctagcc cccagcgtgg tggatgttgg tgacttcaag atcaccataa acgagggttt 4501 accctctgga gtgccgtgca catcacaatg gaactcaatt tcccactggc taataacact 4561 atgtgccata tcagaaattt cagggctgtc gccagatgtg gtacaaacaa actcctgttt 4621 ttccttctat ggggatgatg agatagtcag cactgacatt aagttagatc ccatgaaatt 4681 aactaacaag ttgagggagt atggactgat cccaacaaga ccagacaaga cagaggggcc 4741 actcataatc aaagagaacc ttgatggctt gacctttctg aggagggatg tgtgtcggga 4801 cccagctggt tggtatggaa agcttgatca atcctcaatt atgagacaat tgttttggac 4861 caaggggccc aaccatgacg atcccaatga gacaatgatt ccacactccc agaggcccat 4921 acaactaatg tcattgctgg gggaggcagc attacacgga ccagttttct acaagaaagt 4981 cagtaaatta gttatcactg agctcaaaga gggtggaatg gatttttacg tgccaaggca 5041 agaacctatg tttaggtgga tgagattctc tgacctcagc acttgggagg gcgatcgcaa 5101 tcttgctccc gaaggtgtga atgaagatgg cgtcgaatga cgctactcca tcaaatgatg 5161 gtgctgccgg cctcgtgcca gaaagtaaca atgaggcaat ggctctggaa cccgtggtgg 5221 gggcgtcttt agccgcccct gtcactggcc aaactaatat aatagacccc tggattagaa 5281 ctaattttgt ccaagcccct aatggtgaat ttacagtttc ccctagaaat tcccctggag 5341 agatattggt caatttggag ttaggtccag aactgaaccc ttatctggca catttagcta 5401 ggatgtacaa tggttatgcg ggtggtatgg aggtgcaagt gatgctcgcg gggaacgcgt 5461 tcactgctgg caagatcatc tttgccgccg tgccacctta ctttccagtg gaaaatctta 5521 gcccttccca aataacaatg ttcccacatg tgattatcga tgttagaacc ttagaacctg 5581 tattgctccc aatgcctgat gtcagaagca cccttttcca ctttaatcaa aaggatgaac 5641 ctaagatgag acttgttgcc atgctctaca cccctcttcg ttctaatggc tctggtgacg 5701 atgttttcac tgtctcatgt aggattctta ctaggccctc tcctgaattt gatttcacat 5761 acttggtgcc accaacagtg gagtcaaaga ccaagccatt cacactacct gtgctgacat 5821 tgggagaatt gtccaattct agattccctc tctccattga tgaaatggtc accagcccta 5881 atgagtccat agttgttcag ccacagaatg gtagggtcac actagatggg gagttgttgg 5941 gcacaaccca actgcaagca tgtaacattt gttccatacg ggggaaagtg acaggacagg 6001 tccctaatga acaacacatg tggaacctgg aggttacaaa cctaaatggg acgcaatttg 6061 accctacaga tgatgtccca gcccctcttg gtgtgcccga ctttgcaggt gaggtctttg 6121 gtgtactcag tcagagaaat agaggtgaaa gcaatccagc aaacagggct catgatgctg 6181 ttgtggctac ctacagtgat aaatacaccc ctaaattggg cttagtgcaa attgggactt 6241 ggaacaccaa cgatgttgaa aaccagccaa caaaattcac cccaattggt ttgaatgagg 6301 tcgccaatgg ccatcgattt gaacagtgga ccttgcctag gtattctggt gccctgacac 6361 taaatatgaa tttagctcct gctgtggccc cgctctttcc tggagagcgt ctccttttct 6421 tccgctctta cgtcccatta aaaggtggat ttggaaaccc tgctatagat tgtctagtgc 6481 ctcaggagtg ggtccaacat ttctatcagg aatctgcccc atctctgggg gatgtggcct 6541 tagtcaggta cgtcaaccca gacaccgggc gcgtcctttt tgaggccaaa ctccacaaag 6601 gtgggttcct gaccgtctca agcactagca cagggcctgt tgtggtccca gccaatggtt 6661 atttcagatt tgattcttgg gttaatcaat tttactctct tgcccccatg ggaactggga 6721 atgggcgcag aaggtttcag taatggcagg agctttcata gcaggtttag caggtgatgt 6781 gcttagtaat ggcctcggtt cgctgattgg tgccggagcc aatgctatca atcaaagagc 6841 agaatttgat tttaataggc aattgcagca aaattctttt aatcatgata aggagatgtt 6901 aaatgcccaa attcaagcaa caaaacagtt gcaggctgat atgatagcaa tcaaacaggg 6961 agtcctagct gctgggggtt tctcaccaac tgatgcagcc agaggagctg tcaatgcacc 7021 catgacccaa gcattagatt ggagtggcac taggtattgg gcccctggtt caatgaagac 7081 caccagctat tctggaaagt ttgtgtccat gaatcctgtt aggcaggttg agttcccgca 7141 gcccaaaaag agtgcggcca taccatcaag tgccagctct gtgtcttctg gtaggactaa 7201 tttcacaaat tctactcagt caactgttgt tagcactt //