Typing tool
|
Complete norovirus genomes
MN394546 | GII.17 | ||
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GII.P17 |
ORF1: 1..5079 ORF2: 5060..6682 ORF3: 6682..7428LOCUS MN394546 7428 bp RNA linear VRL 04-SEP-2019 DEFINITION Norovirus GII isolate 38 nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MN394546 VERSION MN394546.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7428) AUTHORS Huang,Z., Xiao,S. and Ou,X. TITLE Mixed and recombinant norovirus infection in a outbreak in Changsha city, China JOURNAL Unpublished REFERENCE 2 (bases 1 to 7428) AUTHORS Huang,Z., Xiao,S. and Ou,X. TITLE Direct Submission JOURNAL Submitted (30-AUG-2019) Microbiological laboratory, Changsha Center for Disease Control and Prevention, beside the liuyang river bridge, No. 509, wanjiali second north Road, Changsha, Hunan 410000, China COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7428 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="38" /isolation_source="anal swab" /host="Homo sapiens" /db_xref="taxon:122929" /country="China: Changsha" /collection_date="01-Apr-2019" /note="genotype: GII.P17-GII.17/38/Changsha/2019/CHN" gene <1..5079 /gene="ORF1" CDS <1..5079 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QEJ87984.1" /translation="AVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQPPPGETK QIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNTAYS VPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAKIEIT PLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMI QRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRPLNIL NILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVP VVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKEEANE LAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDI VGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVAST LSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCD RIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPG QPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHER MDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDELKQAI KNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRSARIRYY VKCFQEATYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCPKPRDED DLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEY LQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRK RNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITST HVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVSILI KRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIY KRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGDDNKGTYCGAPILGPGNAPKL STKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNP NVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGESFTG KLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCA RAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAV LEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIA HWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPT RPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSE TMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMR FSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide <1..969 /gene="ORF1" /product="p48" mat_peptide 970..2067 /gene="ORF1" /product="NTPase" mat_peptide 2068..2604 /gene="ORF1" /product="p22" mat_peptide 2605..3003 /gene="ORF1" /product="VPg" mat_peptide 3004..3546 /gene="ORF1" /product="Pro" mat_peptide 3547..5076 /gene="ORF1" /product="RdRp" gene 5060..6682 /gene="ORF2" CDS 5060..6682 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QEJ87985.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISNNDDFQFQPTKFTPVGVN DDDDDHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6682..>7428 /gene="ORF3" CDS 6682..>7428 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QEJ87986.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFA" ORIGIN 1 gccgttgctg gcaaaaacaa caacaacgac aaggaaaaat cttcaagtga cagcttgttt 61 gctaatatgt ctgtcacttt taagaaagcc ctcggggcgc ggtctaaaca accgcccccg 121 ggagaaacaa aacaaataca aaaaccacca aggccaccga caccggaatt ggtgaagaga 181 atacctccac ccccacccaa tggcgaggat gaaccaggga tagtgtacaa ggtgggagag 241 ggtgtgtctg ggctgcccga cctaacaact gtggtacaac ctgacgcaca aaacacagct 301 tatagtgttc ccccacttag ccagagagaa gtcggcgaag ctaaagaacc gctgcctggc 361 tccattctgg aaatgtggga tggtgagatc taccactatg ggctgtatgt tgagcggggg 421 catgtgctcg gagtacacaa accacctgct gcaataagcc ttgccaaaat tgaaataaca 481 ccgctgtctc tctactggag agtggtctac actccccagt atttgataga tccaggaact 541 cttaagaact tgagtggaga gactttccca tacacggcct ttgacaacaa ctgttatgcc 601 ttctgttgtt gggtcctaga cctcaacgac tcctggctta gcaggagaat gatccaaaga 661 acaactggat ttttcaaacc ttatcaggat tggaacagaa aacccttacc aaccatggat 721 gaaccgaaaa tcaagaaggc cgcgaatgct gtcctatgcg ctctctcctc actcttcact 781 agacccatta aggacatcat tgggaagctt agaccactga acattcttaa tatactggca 841 acctgcgatt ggacttttgc aggcatagtg gaatccttga tccttcttgc tgaactcttt 901 ggggtgttct ggacaccccc agatgtgtct gcgatgattg ctcccttact cggtgactac 961 gagatgcaag gccccgaaga cctggccgtg gaacttgtgc ccgtagtgat gggaggaata 1021 ggtttggtgt tgggattcac caaagaaaag atcggcaaga tgctttcatc agctgcgacc 1081 acccttaggg cctgcaagga tctaggatct tatggattgg agatactcaa attggtcatg 1141 aagtggttct tccccaagaa ggaggaggct aacgaactag ccatggtgag ggccattgag 1201 gatgcagtcc tggatttgga ggcaatagaa aacaatcaca tgaccaccct tctcaaggat 1261 aaagacagcc tggccacata catgaggact cttgacttgg aagaagagaa agcaaggaaa 1321 ctgtcaacca aatcggcgtc acctgacatc gtgggtacaa taaacgcatt gttggctagg 1381 atagcagccg ccaggtcact ggtccacaag gctaaggagg agctctcgag cagacagaga 1441 cctgttgttg taatgatatc aggtagacca ggtataggaa agacccatct ggccagagag 1501 ctagccaaga aagttgcgtc aacactgtca ggcgaccaaa ggattggact ggtacctagg 1561 aatggcgtcg accattggga cgcctacaag ggagaaaggg tggtcctgtg ggatgattat 1621 ggtatgagca accctataca ggacgcactg aggctccaag aattggctga cacctgtcct 1681 ctgaccctaa attgtgatag gattgaaaac aaaggaaaag tgttcgacag tgatgccata 1741 attataacaa ccaaccttgc aaacccagca ccactagact atgtcaactt tgaggcctgc 1801 tctagacgca tagacttctt ggtgtatgca gacgcacctg acattgagaa ggctaaacgt 1861 gacttccctg gccaaccaga tatgtggaaa gaccatttca gaccagactt ctcacacatt 1921 aaacttcagc tggcaccaca gggaggtttt gacaaaaatg gcaacacccc acatggcaaa 1981 ggtgtggtaa agtccctgac aattggttct ctgatcgcca gggcctccgg cttgctccac 2041 gagagaatgg atgaattcga gctccaaggt tctgacctgc caaccttcaa ttttgaccgc 2101 aacaaagtcg ccgccttcag acaattagca gctgaaaaca aatatggtct tatggacaca 2161 ttgagggtcg gcaaccaact gaaaagtgtt aagaccctgg atgagctgaa gcaggccata 2221 aagaacatca gtatcaagaa gtgtcagata gtgtataatg gatgcaccta taccatggaa 2281 tctgatggga ggggcaaggt tgtggttgaa aaggtacaaa acgcaacagt tcaaaccaac 2341 aatgaacttg taggggcgct ccaccacctg agatctgcaa ggataagata ctatgttaaa 2401 tgtttccaag aagccactta ctctctactc caaattgctg gtgcagcctt tgtcacctca 2461 cgcatcgtga ggcgcatgaa catatcaaac ctctggtcga agccacccat cgaggagggt 2521 gatgagcctg aagacagagg aggatgcccc aagcccaggg atgaagatga cctcactatt 2581 gactctagag acattaaagt ggaagggaag aagggcaaga acaagtctgg ccggggcaag 2641 aaacacacag ccttctcttc caagggcctc agtgatgaag agtacgatga gtacaagaga 2701 atcagagagg agaggaatgg caaatactca atagaggaat acctccaaga tagggacaga 2761 tactatgaag agcttgccat tgctaaggcc actgaggagg acttctgtga agaggaggag 2821 atcaaaatcc gtcagagaat cttccgaccc accaggaagc agcggaaaga ggaaagggcc 2881 acgcttgggc ttgtcacagg atcggaaatc agaaagagga atccagatga ctttaaacca 2941 aaaggaaaat tgtgggctga tgacaacagg agcgtggatt acaatgagag gatagatttt 3001 gaggctcccc cgagtgtttg gtctaggata gtcaactttg gcacaggctg gggattctgg 3061 gtttctccaa gtctctttat aacttcaaca catgtcatac caaaaggaat cactgaggcc 3121 tttggagtgc ccataaacca aatccaaatc cacaaatctg gagaattttg ccgcttgcgg 3181 tttccaaagc caattagacc agacgtgagt gggatgatct tggaagaggg cgcccctgaa 3241 ggcactgttg tgtctattct catcaaaagg acaacagggg agctgatgcc tcttgcagtc 3301 agaatgggga ctcatgccac aatgaaaatc caaggtagaa cggtgggtgg tcagatgggt 3361 atgcttctca ctggctcaaa tgctaaaggc atggatctag gcacaacgcc aggtgactgc 3421 ggatgtccat acatatacaa aaggggcaat gaccttgtgg tcattggggt gcacactgca 3481 gcagctcgtg gaggcaacac ggtcatatgt gccacacagg gaagtgaggg tgaagccact 3541 cttgaaggag atgacaacaa gggtacctat tgtggagccc ccattttggg acctggcaat 3601 gcaccaaaat tgagcacaaa gacaaaattc tggagatcct ctaacgcacc gcttccccca 3661 ggtacttatg aaccagcata ccttggtggg agagacccgc gcgtgaaggg aggcccatct 3721 ctgcagcaag ttatgagaga tcaactcaaa ccttttacag agcccagagg gaagccacca 3781 aacccaaatg tcttagagtc agcaaagaag actatcatca atgttctgga acaaaccatt 3841 gacccccctc aaaagtggtc atatgcccaa gcttgtgcat ccctcgacaa gacaacctcc 3901 agtggatacc cgcaccacgt ccggaagaat gactactgga gtggtgaatc cttcacagga 3961 aaacttgcag atcaggcttc aaaagcaaat ctcatgtatg aggaaggcaa gcacatgcaa 4021 ccagtttaca ccgcagcact caaagacgag ctcgtgaaaa ctgacaaaat ttatggcaaa 4081 atcaagaaaa gactcctgtg gggctctgac ctctccacaa tgattcgatg cgccagagca 4141 tttggtggtc tcatggatga attcaaagca aattgtatta cactccctat cagagttggt 4201 atgaatatga atgaagatgg tcccataata tttgagaaac actccaggta caggtaccac 4261 tatgatgctg attactcccg ctgggactcc acacaacagc gggcagtgct ggaagcggca 4321 cttgaaatca tggtgagatt ttctgctgag ccacagctgg cacaaatagt ggcagaggac 4381 ctgctgtcac caagtgtggt cgatgtgggc gatttcaaaa ttgctatcaa tgaaggccta 4441 ccatctggcg tgccttgcac ctcacaatgg aattctattg cccactggtt acttaccttg 4501 tgtgcccttt ctgaagtgac aggattaggt cctgacatca tacaagctaa ctccatgtac 4561 tctttctatg gtgatgatga gattgtgagc acagacataa aattggaccc agagaaattg 4621 accgcaaagc tcaaagaata tggccttaaa cccactcggc ccgacaaaac tgaggggccg 4681 ttggtgatta gtgaggacct gaatgggttg actttcctcc gccgaacagt cacccgtgat 4741 ccagcaggtt ggtttggaaa gttggaccaa aactccatcc tcaggcagtt gtactggaca 4801 agaggaccca accatgaaga ccccagtgag accatgatac cacacgcaca aagacctgtg 4861 cagctcatgg cactactagg agaatcctcc ctacacggac cctcatttta cagcaaggtt 4921 agcaagttag tcatatctga acttaaagag ggaggaatgg atttttatgt gcccagacaa 4981 gagtcaatgt tcagatggat gaggttctca gatctaagca catgggaggg cgatcgcaat 5041 ctggctccca attttgtgaa tgaagatggc gtcgaatgac gccgctccat ctaatgatgg 5101 tgctgctggt ctcgtaccag agggcaacaa cgagaccctt cccctagaac cagttgcggg 5161 cgcagctata gccgcacccg tcactggcca aaataatata attgacccct ggattagaac 5221 aaattttgtg caagcaccaa atggagagtt cacagtgtca cccagaaact ctcctggaga 5281 aattttatta aatttagagt tgggccctga tttgaaccct tatttggctc atttgtcaag 5341 gatgtacaat gggtatgctg gtggagtgga agttcaggtt ctcctggcag ggaacgcgtt 5401 cactgccgga aagatcctct tcgccgccgt cccgccaaat ttcccagtgg aattcttaag 5461 cccagcccag atcacaatgc tcccacattt aatagtagat gttaggactc ttgaaccaat 5521 tatgatccca ctccctgatg ttaggaatac attcttccat tatagtaacc agcctaacag 5581 ccgcatgaga ttagtggcta tgctctatac cccacttaga tctaatggct caggtgatga 5641 tgtctttact gtctcttgca gggttttgac taggcctact cctgattttg agttcactta 5701 tttagtgcca ccttctgtcg aatctaaaac taagcctttt tccttaccta ttttaaccct 5761 ttctgagctc acaaattcga ggtttccagt ccccatcgat tcgcttttta ccgcccagaa 5821 taatgtgttg caggtgcagt gtcaaaatgg caggtgtaca cttgatggtg agttacaagg 5881 cacaacccag ttgctcccaa ctggcatctg tgcattcaga ggacgggtga cagcacaaat 5941 taaccaacgt gacaggtggc acatgcaact gcaaaacctc aatggtacaa catatgaccc 6001 aactgatgat gtgccagccc cgctgggtac acctgacttc aagggcgtcg tgtttggaat 6061 ggtaagccaa agaaatgtgg gtaatgatgc gcctggctca accagggccc aacaggcgtg 6121 ggtttcaacc tatagccccc aatttgtccc caaattaggt tctgtcaatc ttagaattag 6181 taataatgat gatttccaat tccagccaac aaaattcaca ccagtgggcg tcaatgatga 6241 cgatgatgat cacccgttca gacagtggga actaccaaac tattcagggg agcttacctt 6301 gaatatgaat cttgcccccc cagttgctcc aaattttcct ggtgaacaat tgttattctt 6361 cagatctttc gtgccatgct caggaggtta caaccaaggt attatagatt gtcttattcc 6421 ccaagaatgg atccaacatt tctatcagga atcagcaccc tcccagtcag acgtggccct 6481 aatcaggtat gtcaaccccg atacgggacg tacactgttt gaagcaaaat tgcacagatc 6541 tggttacatt actgtggctc actctggaga ctatcctctt gttgttccgg ctaatggaca 6601 ctttagattt gattcttggg taaatcagtt ttactcactc gccccaatgg gaactgggaa 6661 tgggcgaagg agggctcagt aatggctggg gctttcattg caggattggc aggcgacatg 6721 ctcacgtcat ctgtgggctc ccttgtgaac gcaggggcaa acgccatcaa ccaaaagata 6781 gactttgaaa acaacaaaca actccagtct gcttcctttc agcatgataa agagatgctc 6841 caagcgcagg tgagggcaac caagcagctg caatctgaaa tgatagccct aaaacagggg 6901 gttttggccg caggcggctt ttcccccact gatgcagcaa ggggatccat tggtgcaccc 6961 atgacaaagg tgcttgactg gtctggcact cgatactggg cgcccaattc cacaaagaca 7021 actggctatt cgggacaatt tacctcttca cctgtgcata tgtctagccc aaatgctcca 7081 caatcaaaac ctgcaaagcc taggtctcta gctccttcct cttcttctag tagtgtctat 7141 agtatgtata ctcaatctac tcatttgaca tctggctctt ctagtaatgc ttcttctgcc 7201 tccacaaaat tgacaaattt aagctctggc tcctctcaaa acagaacagc agaatgggta 7261 aatcaacaga gaagtcttag ccctttcatg agtggcgcac ttaacatctc acatgtcacg 7321 ccaccctcaa gtagggcttc cagttctggg acggtctcga ccgtgcccaa ggaagttttg 7381 gactcctgga cgtctgcgtt taacacacac agacagccgc tcttcgca //