Typing tool
|
Complete norovirus genomes
MT238669 | GII.17 | ||
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GII.P17 |
ORF1: 1..5091 ORF2: 5072..6694 ORF3: 6694..7473LOCUS MT238669 7489 bp RNA linear VRL 01-MAY-2020 DEFINITION Norovirus GII isolate 691-2 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MT238669 VERSION MT238669.1 DBLINK BioProject: PRJNA604000 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7489) AUTHORS Yang,Z., Williams-Hill,D., Wolfe,J., Silva,A.J., Hirneisen,K., Ruelle,S., Kulka,M. and Hellberg,R. TITLE Direct Submission JOURNAL Submitted (24-MAR-2020) Molecular Virology Team/Devision of Molecular Biology, OARSA/CFSAN/FDA, 8301 Muirkirk Rd., Laurel, MD 20708, USA COMMENT ##Assembly-Data-START## Assembly Method :: CLC Genomics Workbench v. 11 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7489 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="691-2" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="17-Nov-2015" /note="genotype: GII.P17-GII.17" gene <1..5091 /gene="ORF1" CDS <1..5091 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QIQ09394.1" /translation="DASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQPPP GETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQN TAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISFAK IEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLS RRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRP LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAV ELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKE EANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA SPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKK VASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLT LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKR DFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGL LHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKNVKTLDEL KQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRSAR IRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCPKP RDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS EIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLF ITSTHVIPKGITDAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVV SILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC PYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGN APKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK PPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGE SFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTM IRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ QRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQW NSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYG LKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHE DPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMF RWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..981 /gene="ORF1" /product="p48" mat_peptide 982..2079 /gene="ORF1" /product="NTPase" mat_peptide 2080..2616 /gene="ORF1" /product="p22" mat_peptide 2617..3015 /gene="ORF1" /product="VPg" mat_peptide 3016..3558 /gene="ORF1" /product="Pro" mat_peptide 3559..5088 /gene="ORF1" /product="RdRp" gene 5072..6694 /gene="ORF2" CDS 5072..6694 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QIQ09395.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQLNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPTAICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6694..7473 /gene="ORF3" CDS 6694..7473 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QIQ09396.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSAPVHMSSPNAPQSKPVKPRSLAPSSSSSSVYSMYTQST HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 gacgcttccg ctgccgttgc tggcaaaaac aacaacaacg acaaggaaaa atcttcaagt 61 gacagcttgt ttgctaacat gtctgtcact tttaagaaag ccctcggggc gcggtctaaa 121 caaccgcccc cgggagaaac aaaacaaata caaaaaccac caaggccacc gacaccggaa 181 ttggtgaaga gaatacctcc acccccaccc aatggcgagg atgaaccagg gatagtgtac 241 aaggtgggag agggtgtgtc tgggctgccc gacctaacaa ctgtggtaca acctgacgca 301 caaaacacag cttatagtgt tcccccactt agccagagag aagtcggcga agctaaagaa 361 ccgctgcctg gctccattct ggaaatgtgg gatggtgaga tctatcacta tgggctgtat 421 gttgagcggg ggcatgtgct cggagtacac aaaccacctg ctgcaataag ctttgccaaa 481 attgaaataa caccgctgtc tctctactgg agagtggtct acactcccca gtatttgata 541 gatccaggaa ctcttaagaa cttgagtgga gagactttcc catacacggc ctttgacaac 601 aactgttatg ccttctgttg ttgggtccta gacctcaacg actcctggct tagcaggaga 661 atgatccaaa gaacaactgg attcttcaaa ccttatcagg attggaacag aaaaccctta 721 ccaaccatgg atgaaccgaa aatcaagaag gccgcgaatg ctgtcctatg cgctctctcc 781 tcactcttca ctagacccat taaggacatc attggaaagc ttagaccact gaacattctt 841 aatatactgg caacctgcga ttggactttt gcaggcatag tggaatcctt gatccttctt 901 gctgaactct ttggggtgtt ctggacaccc ccagatgtgt ctgcgatgat tgctccctta 961 ctcggtgact acgagatgca aggccccgaa gacctggccg tggaacttgt gcccgtggtg 1021 atgggaggaa taggtttggt gttaggattc accaaagaaa agatcggcaa gatgctttca 1081 tcagctgcga ccacacttag ggcctgcaag gatctaggat cttatggatt ggagatactc 1141 aaattggtca tgaagtggtt cttccccaag aaggaggagg ctaacgaact agccatggtg 1201 agggccattg aggatgcagt cctggatttg gaggcaatag aaaacaatca catgaccacc 1261 cttctcaagg ataaagacag cctggccaca tacatgagga ctcttgactt ggaagaagag 1321 aaagcaagga aactgtcaac caaatcggcg tcacctgaca tcgtgggtac aataaacgca 1381 ttgttggcta ggatagcagc cgccaggtca ctggtccaca aggctaagga ggagctctca 1441 agcagacaga ggcctgttgt tgtaatgata tcaggtagac caggtatagg aaagacccat 1501 ctggccagag agctagccaa gaaagttgcg tcaacactgt caggcgacca aaggattgga 1561 ctggtaccta gaaatggcgt cgaccattgg gacgcctaca agggagaaag ggtggtcctg 1621 tgggatgatt atggtatgag caaccctata caggacgcac tgaggctcca agaattggct 1681 gacacctgtc ctctgaccct aaattgtgat aggattgaaa acaaaggaaa agtgttcgac 1741 agtgatgcca taattataac aaccaacctt gcaaacccag caccactaga ctatgtcaac 1801 tttgaggcct gctctagacg catagacttc ttggtgtatg cagacgcacc tgacattgag 1861 aaggctaagc gtgacttccc tggccaacca gatatgtgga aagaccattt cagaccagac 1921 ttctcacaca ttaaacttca gctggcacca cagggaggtt ttgacaaaaa tggcaacacc 1981 ccacatggca aaggtgtggt gaagtccctg acgattggtt ctctgatcgc cagggcctcc 2041 ggcttgctcc acgagagaat ggatgaattc gagctccaag gctctgacct gccaaccttc 2101 aattttgacc gcaacaaagt cgccgccttc agacaattag cagctgaaaa caaatatggt 2161 cttatggaca cattgagggt cggcaaccaa ctgaaaaatg ttaagaccct ggatgagctg 2221 aagcaggcca taaagaacat cagtatcaag aagtgtcaga tagtgtataa tggatgcacc 2281 tataccatgg aatctgatgg gaggggcaag gttgtggttg aaaaggtaca aaacgcaaca 2341 gttcaaacca acaatgaact tgtaggggcg ctccaccacc tgagatctgc aaggataaga 2401 tactatgtta aatgtttcca agaagccatt tactctctac tccaaattgc tggtgcagcc 2461 ttcgtcacct cacgcatcgt gaggcgcatg aacatatcaa acctctggtc gaagccaccc 2521 atcgaggagg gtgatgagcc tgaagacaga ggaggatgcc ccaagcccag ggatgaagat 2581 gacctcacta ttgactctag agacattaaa gtggaaggga agaagggcaa gaacaagtct 2641 ggccggggca agaaacacac agccttctct tccaagggcc tcagtgatga agagtacgat 2701 gagtacaaga gaatcagaga ggagaggaat ggcaaatact caatagagga atacctccaa 2761 gatagggaca gatactatga agagcttgcc attgctaagg ccactgagga ggacttctgt 2821 gaggaggagg agatcaaaat ccgccagaga atcttccgac ccaccaggaa gcagcggaaa 2881 gaggaaaggg ccacgcttgg gcttgtcaca ggatcggaaa tcagaaagag gaatccagat 2941 gactttaaac caaaaggaaa attgtgggct gacgacaaca ggagcgtgga ttacaatgag 3001 aggatagatt ttgaggctcc cccgagtgtt tggtctagga tagtcaactt tggcacaggc 3061 tggggattct gggtttctcc aagtcttttt ataacttcaa cacacgtcat accaaaagga 3121 atcactgatg cctttggagt gcccataaac caaatccaaa ttcacaaatc tggagaattt 3181 tgccgcttgc ggtttccaaa gccaattaga ccagacgtga gtgggatgat cttggaagag 3241 ggcgcccctg aaggcactgt tgtgtctatt cttatcaaga ggacaacagg ggagctgatg 3301 cctcttgcag tcagaatggg gactcatgcc acaatgaaaa tccaaggtag aacggtgggt 3361 ggtcagatgg gtatgcttct cactggctca aatgctaaaa gcatggatct aggcacaacg 3421 ccaggtgact gcggatgtcc atacatatac aaaaggggca atgaccttgt ggtcattggg 3481 gtacacactg cagcagctcg tggaggcaac acggtcatat gtgccacaca gggaagtgaa 3541 ggtgaagcca ctcttgaagg aggtgacaac aagggtacct attgtggagc ccccattttg 3601 ggacctggca atgcaccaaa attgagcaca aagacaaaat tctggagatc ctctaacgca 3661 ccgcttcccc caggtactta tgaaccagca taccttggtg ggagagaccc gcgcgtgaag 3721 ggaggcccat ctctgcaaca agttatgaga gaccaactta aaccttttac agagcccaga 3781 gggaagccac caaacccaaa tgtcttagag tcagcaaaga agactatcat caatgttctg 3841 gaacaaacca ttgacccccc tcaaaagtgg tcatatgccc aagcttgtgc atccctcgac 3901 aagacaacct ccagtggata cccgcaccac gtccggaaga atgactattg gagtggtgaa 3961 tcctttacag gaaaacttgc ggatcaggct tcaaaagcaa atctcatgta tgaggaaggc 4021 aagcacatgc aaccagttta caccgcagca ctcaaagacg agctcgtgaa aactgacaaa 4081 atttatggca aaatcaagaa aagactcctg tggggttctg acctctccac aatgattcga 4141 tgcgccagag catttggtgg tctcatggat gaattcaaag caaattgtat tacgctccct 4201 atcagagttg gtatgaatat gaatgaagat ggtcccataa tatttgagaa acactccagg 4261 tacaggtacc actatgatgc tgattactcc cgctgggact ccacacaaca gcgggcagtg 4321 ctggaagcgg cacttgaaat catggtgaga ttttctgctg agccacagct ggcacaaata 4381 gtggcagagg acctgctgtc accaagtgtg gttgatgtgg gcgatttcaa aatcgctatc 4441 aatgaaggcc taccatctgg cgtgccttgc acctcacaat ggaattctat tgcccactgg 4501 ttacttacct tgtgtgccct ttctgaagtg acaggattag gtcctgacat catacaagct 4561 aactccatgt actctttcta tggtgatgat gagattgtga gcacagacat aaaattggac 4621 ccagagaaat tgaccgcaaa gctcaaagaa tatggcctta aacccactcg gcccgacaaa 4681 actgaggggc cgttggtgat tagtgaggac ctgaatgggt tgactttcct ccgccgaaca 4741 gtcacccgtg atccagcagg ttggtttgga aagttggacc aaaactccat cctcaggcag 4801 ttgtactgga caagaggacc caaccatgaa gaccccagtg agaccatgat accacacgca 4861 caaagacctg tgcagctcat ggcactacta ggagaatcct ccctacatgg accctcattt 4921 tacagcaagg ttagcaaatt agtcatatct gaacttaaag agggaggaat ggatttttat 4981 gtgcccagac aagagtcaat gttcagatgg atgaggttct cagatctaag cacatgggag 5041 ggcgatcgca atctggctcc cagttttgtg aatgaagatg gcgtcgaatg acgccgctcc 5101 atctaatgat ggtgctgctg gtctcgtacc agagggcaac aacgagaccc ttcccctaga 5161 accagttgcg ggcgcagcta tagccgcacc cgtcactggc caaaataata taattgaccc 5221 ctggattaga acaaattttg tgcaagcacc aaatggagag ttcacagtgt cacccagaaa 5281 ctctcctgga gaaattttat taaatttaga gttgggccct gatttgaacc cttatttggc 5341 tcatttgtca aggatgtaca acgggtatgc tggtggagtg gaagttcagg ttctcctggc 5401 agggaacgcg ttcactgccg gaaagatcct cttcgccgcc gtcccgccaa atttcccagt 5461 ggaattctta agcccagccc agatcacaat gctcccacat ttaatagtag atgttaggac 5521 tcttgaacca attatgatcc cactccctga tgttaggaat acattcttcc attatagtaa 5581 ccagcttaac agccgcatga gattagtggc tatgctctat accccactca gatctaatgg 5641 ctcaggtgat gatgtcttta ctgtctcttg tagggttttg actaggccta ctcctgattt 5701 tgagttcact tatttagtgc caccttctgt tgaatccaaa actaagcctt tttccttacc 5761 tattttaacc ctttctgagc tcacaaattc gaggtttcca gtccccatcg attcgctttt 5821 caccgcccag aataatgtgt tgcaggtgca gtgtcaaaat ggcaggtgta cacttgatgg 5881 tgagttacaa ggcacaaccc agttgctccc aactgccatc tgtgcattca gaggacgggt 5941 gacagcacaa attaaccaac gtgacaggtg gcacatgcaa ctgcaaaacc tcaatggtac 6001 aacatatgac ccaactgatg atgtgccagc cccgctgggt acacctgact tcaagggcgt 6061 cgtgtttggg atggtaagcc aaagaaatgt gggtaatgat gcgcctggct caaccagagc 6121 ccaacaggcg tgggtttcaa cctatagccc ccaatttgtc cccaaattag gttctgtcaa 6181 tcttagaatt agtgataatg atgatttcca attccagccg acaaaattca caccagtggg 6241 cgtcaatgat gacgatgatg gccacccgtt cagacaatgg gaactaccaa actattcagg 6301 ggagcttacc ttgaatatga atcttgcccc cccagttgct ccaaattttc ctggtgaaca 6361 attgttattc ttcagatctt tcgtgccatg ctcaggaggt tacaaccaag gtattataga 6421 ttgtcttatt ccccaagaat ggatccaaca cttctatcag gaatcagcac cctcccagtc 6481 agacgtggcc ctaatcaggt atgtcaaccc cgatacggga cgtacactgt ttgaagcaaa 6541 attgcacaga tctggttaca ttactgtggc tcactctgga gactatcctc ttgttgttcc 6601 ggctaatgga cactttagat ttgattcttg ggtaaatcag ttttactcac tcgccccaat 6661 gggaactggg aatgggcgaa ggagggctca gtaatggctg gggctttcat tgcaggattg 6721 gcaggcgaca tgctcacgtc atctgtgggc tcccttgtga acgcaggggc aaacgccatc 6781 aaccaaaaga tagactttga aaacaacaaa caactccagt ctgcttcctt tcagcatgat 6841 aaagagatgc tccaagcgca ggtgagggca accaagcagc tgcaatctga aatgatagcc 6901 ctaaagcagg gggttttggc cgcaggcggc ttttccccca ctgatgcagc aaggggatcc 6961 attggtgcac ccatgacaaa ggtgcttgac tggtctggca ctcgatactg ggcgcccaat 7021 tccacaaaga caactggcta ttcgggacaa ttcacctctg cacctgtgca tatgtctagc 7081 ccaaatgctc cacaatcaaa acctgtaaag cctaggtctc tagctccttc ctcttcttct 7141 agcagtgtct atagtatgta tactcaatct acacatttaa catctggctc ttctagtaat 7201 gcttcttctg cctccacaaa attgacaaat ttaagctctg gctcctctca aaacagaaca 7261 gcagagtggg taaatcaaca gagaagtctt agccctttca tgagtggcgc acttaacatc 7321 tcacatgtca cgccaccctc aagtagggct tccagttctg ggacggtctc gaccgtgccc 7381 aaggaagttt tggactcctg gacgtctgcg tttaatacac acagacagcc gctcttcgca 7441 cacctcagag tgagggggga gtcacgtgtt tagtgaaaag aaataattg //