Typing tool
|
Complete norovirus genomes
MT357898 | GI.7 | ||
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GI.P7 |
ORF1: 1..5397 ORF2: 5381..7000 ORF3: 7000..7647LOCUS MT357898 7732 bp RNA linear VRL 25-APR-2020 DEFINITION Norovirus GI isolate Hu/US/2017/GI.7[P7]/Pennsylvania1060 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MT357898 VERSION MT357898.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7732) AUTHORS Chhabra,P., Husband,B., Montmayeur,A.M., Tatusov,R.L., Barclay,L. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (17-APR-2020) Division of Viral Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 11.1.2; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7732 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="Pennsylvania1060" /isolate="Hu/US/2017/GI.7[P7]/Pennsylvania1060" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="USA" /collection_date="17-Jun-2017" /note="genotype: GI.7[P7]" gene <1..5397 /gene="ORF1" CDS 1..5397 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QJC14576.1" /translation="MMMASNDAIAAADVSKQNANTNNENIGSRLMARLKERISSQRGE GTTKIKSTEMALDLIRRSQTPSPTRSDPPPKAQRDRPPRTVSEVKQVLGWDGPTGKDY GARAWCDLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETPERADGCHPVKWSES AGVDLGVDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLG QGKTIGVHSPQAAFSIARITIHPMAAWWRVCYEPTDQQRLSYDQLKELENEPWPYASI TNNCYEFCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILS AINGLVSQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLAELFDIFWTPPDISN FIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLG QYGLEVFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNI LDNEEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCG PPGIGKTKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKIT EDCNKLQAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRV DFLVYCTAPEIEQTRRAHPGDTNAIKNLFKTDFSHLKMEIAPQGGFDNQGNTPFGRGA MKSTTLNRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAAL GKKLRSVNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVIEKQVTATLQQQA ISSVTLALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALE GKPREHNCRVHRAEREGRGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKG KNKKGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEV QAGGDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEIRKRKPIDWTPPK NDWSEDTRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVVPPSAKEI FGEKLSDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPL AVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCG VHAAATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKS TPQPLPPGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVET VTNVLEQTMDTPVPWSYSDACMSLDKTTSSGFPHHKRKNDDWNGSAFVRELGEQAAHA NNMYELGKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEA IKPHVIKLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMC KLTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCAL SEVTGLAPDVLQAQSYFSFYGDDEIVSTDVEFDPIKLTQVLKEYGLKPTRPDKSEGPI IVKQQIDGLVFLRRTISKDAVGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRK IQLISLLGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTG DRNLLPDYVNDDGV" mat_peptide 1..1212 /gene="ORF1" /product="p48" mat_peptide 1213..2301 /gene="ORF1" /product="NTPase" mat_peptide 2302..2901 /gene="ORF1" /product="p22" mat_peptide 2902..3321 /gene="ORF1" /product="VPg" mat_peptide 3322..3864 /gene="ORF1" /product="Pro" mat_peptide 3865..5394 /gene="ORF1" /product="RdRp" gene 5381..7000 /gene="ORF2" CDS 5381..7000 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QJC14577.1" /translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAAA TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI PLDDVRNVLYHTNENPPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL FLVPPSVEQKTRQLTVPNIPLNNMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSG TRVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGTTAQVPCTLPQE FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFVTCVPNTGGGPQNLPTNG VFVFSSWVSRYYQLKPVGTAGPARRLGVRRV" gene 7000..7647 /gene="ORF3" CDS 7000..7647 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QJC14578.1" /translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPPRSTGFSNPNYDSSTMISRTTQWVE SQNSIRNLSPFHTSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK" ORIGIN 1 atgatgatgg cgtctaacga cgctattgcc gctgctgatg tcagcaaaca aaatgctaac 61 accaacaacg aaaacatcgg ttctcgcctt atggcgagac tgaaagagcg tataagctct 121 caacgtggtg agggaaccac gaaaatcaag agtactgaaa tggcactgga cctaatacgc 181 aggtcccaaa caccatcgcc aacgcgctcg gacccccctc ctaaggcgca gcgcgatcgc 241 cctccgagga ctgtgtcaga agtcaagcag gttttaggat gggatggccc tactggtaag 301 gattatgggg cccgagcatg gtgcgactta acagctgaag aaaagaagga aatcctggac 361 aacaacgagc gccttttcga cgctggtggt gtgactcctt caacagtgcc aagcaccttt 421 gagagatgtg aaacacctga gcgagctgac ggctgccatc ctgtcaaatg gagcgagtct 481 gcgggagtgg atttaggcgt ggattccctg accactgtca caggcccagt gtggaacatg 541 tgcccccttc caccgattga ttcacgtaac aatggccctg ctagtgagcc acgcattgga 601 gatatgatag aattttatga agggcacata tttcattatg ccatatatct tggtcagggg 661 aagaccatag gagtccactc ccctcaggca gccttctcca tagctcgtat aaccatacac 721 cctatggcag catggtggcg tgtctgctat gagccaacag accagcaacg cctcagctat 781 gaccaattaa aagaacttga gaatgaaccg tggccctatg catccataac gaacaactgt 841 tatgaattct gctgccgtgt catgtccctg gacgacacct ggttacaacg aaagttggta 901 acatccggta ggtttaatca ccccacccag gagtggtcca aggaaacacc tgatttccat 961 caagattcaa aattggaaat agtgagagac gcaatactat ccgccataaa cggcttggtt 1021 tctcaacctt tcaagaatat cctctcaaaa attaagccat tgaatttgtt gtctttgcta 1081 tcaaattgtg actggacttt catgggggtt gtcgagctag tggtgctatt ggctgagttg 1141 ttcgacatct tctggacccc acctgatatc tccaacttca tagcatctct tctacctgac 1201 tttcacctgc aagggccaga ggatttggca agagacctgg tcccattgat attggggggt 1261 atcggcctgg ctattggctt tactagagac aaaattacaa aagtcatgaa gagtgccgtt 1321 gatggcctgc gctcagccac gcagcttgga caatatggcc ttgaggtgtt ttcgatcata 1381 aagaaatatt tctttggtgg agaccaaact gagaaaaccc tcaagggcat agagaatgca 1441 gtcatagaca tggaggtcct gtcgagtacc aatgtcacac aactggtgcg cgacaagaaa 1501 ttggccaaaa catacatgaa tatcctggac aatgaggagg aaaaggcaag gaaactttca 1561 gtgcgcagtg cagacccaca tgttgtaaca acagtcaaca acctcatttc gcgcatatct 1621 atggcgcgat cagcacttgc caaggctcaa gctgagatga ctaaccgggc acgccccgtg 1681 gtcataatga tgtgcgggcc accaggtata ggaaagacca aagctgctga acacctggcc 1741 aatcgcctag ctggtgagat aagacctggg ggaaaagtgg gcttagtgcc tagagaatcc 1801 attgaccatt gggatggtta ccatggggaa gaagtcctgt tgtgggatga ctatggtatg 1861 tccaagataa cagaggactg caataaatta caagctatag ctgacactgc cccactcaca 1921 ctcaactgtg acaggataga gaataagggc atgcaatttg tgtcagatgc aataataata 1981 acaacgaatg cccctgggcc agctcccgtc gactttgtta accttggtcc agtttgtcga 2041 cgtgtagact ttttggtgta ttgcaccgcc cccgaaattg aacagaccag gagggcccac 2101 cctggggaca ccaatgctat caagaatttg tttaaaacag acttttccca tttaaaaatg 2161 gagatagcac cacaaggggg gtttgataat caaggaaaca ccccttttgg gaggggtgct 2221 atgaaatcaa ccacactcaa taggctactc atacaggcag tcgccttgac gatggaaaga 2281 caagacgagt tccaaatgca gggggcagtg tacaactttg atgaggatcg ggttacagct 2341 ttcactagcc tggcccgagc caacggactg gggcttttga gcatggctgc actcggtaaa 2401 aagttgcgga gcgttaacaa catggaggga cttcgcaacg ccctcaaagg gtacaagatc 2461 actgagtgtg acattgtgtg gaacaacagg acttacacca ttaaaggaga tggatcaaat 2521 gtgagtgtca tagaaaagca ggtaactgcc actcttcagc agcaagccat cagctcagtt 2581 actctggcac tttctaggtt gcgcgccgca cgagcgctgg cgtatgcatc atgtctccag 2641 agcgcagtga ccaccatctt gcaaatggct gggtctgcag tggtgatcag cagggcggtc 2701 aaacgcatgt ttgggaccca caccaaccag ccagcactgg aaggcaagcc cagagaacac 2761 aactgcaggg tccaccgggc tgaaagggaa ggtcgtggcc ccattggtca tgatggcatc 2821 atagaacggt acggtctgtg tgagactgat caagaagaag aagaaaagat cgagatggaa 2881 gtgccgactg cagacaagga aggtaagaac aaaggcaaga acaagaaggg gcgaggtagg 2941 aagaataact ataacgcctt ctctaggcga ggcctaagtg atgaggagta tgaagaatac 3001 aagaaggtta gagaagagaa gggtggtaac tacagcatcc aagaatacct cgaggaccgt 3061 caacgatatg aagaagagtt ggctgaggtc caagcgggtg gagatggcgg gatcggtgaa 3121 acagaggcag agatccgcca tcgtgttttc tacaaatcca agagtggcat gcgaaagcaa 3181 cgtcaagaag aacgccgaca gcttggattg gttacaggca ctgaaatcag aaaacgcaag 3241 cccatagatt ggacaccacc caagaatgat tggtcagaag acaccagaca ggttaactat 3301 gatgagcaca tcagctttga agccccacct tctatttgga gtagggtggt caaatttggc 3361 agtggatggg gtttttgggt gagttcaaca gtttttatca caaccacaca cgttgtacca 3421 ccaagtgcta aagaaatttt tggggaaaaa ctttcagata tagcaataca cagagttggg 3481 gagttcacac aatttagatt ctctaagaaa atgagacctg acctcagtgg tatggtcctt 3541 gaagaaggtt gcccggaggg aacggtgtgc accataatgg tgaagagaga ttcaggtgaa 3601 ttgttacctc tagctgtgcg catgggagct gtcgcgtcca tgaagataca aggtaagctc 3661 atgcatgggc agtctggtat gttgctaacc ggtgcaaatg caaagggaat ggacctgggc 3721 accatccctg gtgactgtgg agctccatac gtgcataaaa ggggaaatga ctgggtggtg 3781 tgtggagtgc atgctgccgc aaccaagtca ggcaacaccg tagtgtgtgc aatacaatca 3841 ggtgaaggtg aagctaccct tgaagggggt gggcaaaaca aagggcatta tgcaggccat 3901 ccaattttaa ggtatggcaa tgggccctcc ctctccacaa aaaccaaatt ctggaaatca 3961 accccccaac cactcccgcc tggaacctat gaaccagctt acctaggtgg gcgtgaccct 4021 agggtagatg gaggtccatc ccttcaacaa gtcctacgtg accaactcaa gccatttgct 4081 gagccccgtg gtagactgcc agaaccgagc ttgctcgaag cagctgtgga gactgtcaca 4141 aatgttttag aacaaacaat ggacacacct gtgccatgga gctacagtga tgcctgtatg 4201 tcacttgata agaccaccag ctcgggcttt ccacaccaca aacgcaagaa tgacgattgg 4261 aacggaagtg cgtttgtgcg tgagcttgga gaacaggcgg cccatgccaa caacatgtat 4321 gagttgggta aatcagtcaa gccggtttac accgcagcac tcaaggatga actggtgaaa 4381 cccgagaaag tgtacacaaa aataaagaag agactgcttt ggggcgcaga ccttggcaca 4441 gtcattcgag ccgcccgagc ctttggtcca ttctgtgaag ccataaaacc acatgtgata 4501 aaactgccaa ttaaagttgg catgaatgca attgaggacg gccccctcat atatgctgaa 4561 catgcaaagt ataaatatca ctttgatgca gactacacag cttgggattc aacccaaaat 4621 agagaaatca tgttagaatc cttcaacatc atgtgcaaac tcacggctaa tccgtcactg 4681 gctgccgtcg tggctcagga cctgttatcc ccatcagaaa tggacgtggg tgattacgtg 4741 atcagtgtca aggatggcct tccctcaggg ttcccatgca cctcacaggt caatagcata 4801 aaccactgga tatacactct gtgtgctctg tcggaagtca caggcctagc ccctgacgtt 4861 ctgcaggccc aatcctactt ctccttctac ggagatgatg aaattgtctc aactgatgtg 4921 gaatttgacc caataaagct cacccaagtg cttaaggaat atggcttgaa gcccacccgg 4981 cctgacaaat cggagggacc catcatagtg aaacaacaga tagatgggct agttttcctg 5041 aggcgcacta tatcaaaaga tgctgtcggt taccaaggac gcctggaccg taactccatt 5101 gaaagacaat tatggtggac tcggggcccg aaccatgatg atccctttga gacattgata 5161 ccccatcaac aaagaaagat ccaactaatt tccctgcttg gtgaagccgc acttcatgga 5221 gaaaaattct ataggaagat tgccaacaga gttatacagg aagtcaagga gggggggctt 5281 gagctctata taccgggttg gcaggccatg ttccgctgga tgcgattcca tgacttgagt 5341 atgtggacag gagatcgcaa tctcttgccc gattatgtaa atgatgatgg cgtctaagga 5401 cgccccctca aacatggatg gcactagtgg tgccggtcag ctggtcccag aggttaatgc 5461 agctgaacct ttaccccttg aaccggtagt gggcgccgca actgcggctg ccactgctgg 5521 acaagttaat ttaatagacc cctggattat gaataatttt gttcaagccc ctgagggtga 5581 gtttaccatc tcacctaata acacccctgg agatattctg tttgatctgc atctaggacc 5641 acaccttaat ccctttttgc agcatttatc ccaaatgtac aatggttggg tgggcaatat 5701 gagagttaga gttatgcttg cagggaatgc gttcactgcc ggtaagatca taatttgttg 5761 tgtcccacct ggctttgcat cccaaaatat atcaattggc caggccacta tgttcccaca 5821 tgtcatagct gatgtgagag tgctggagcc tatagaaatc cctcttgatg atgtgcgcaa 5881 tgtcttgtac cacaccaatg agaaccctcc caccatgcgg ttgctttgca tgctatacac 5941 accccttcgt gctggtggtg cttcatcggg cacggacccc tttgtcattg cgggtcgtgt 6001 attaacttgc cctgcccctg attttaattt cctgttcctt gtacccccta gtgtagagca 6061 gaaaaccagg cagttgactg tgcccaacat acccctgaac aatatggcca attccagagt 6121 gcccgcaatg ataaacaaga tgacagtttc tgctgatcag aaccaggtgg tccaattcca 6181 gaatggtcgt tgcacacttg aaggacagct cttgggcaca actccagttt cagctagcca 6241 agtggcccgc atacgtggca aagtcttttc caccgcatct gggaaaggac tcaatctgac 6301 tgagttggat ggaacccctt accacgcatt tgagagccca gccccccttg gtttccctga 6361 catcggagcc tgtgattggc atgtgtcaac ctttaaagtg gatcagaacc tttcaggaga 6421 ccctatgtcc aggttagata taaaacaaaa tgccccgttt gcaccacacc ttggttccat 6481 tgaattcaca tctgatcagg acccaactgg ggatcaattg ggaacattgg cctgggtttc 6541 cccttccact agtggaacta gggtagaccc ctggaaaatt ccatcatatg gttcaacagt 6601 gacagaatcc actcatctgg caccacccat atttccacca ggctttggcg aggccatagt 6661 ttattttatg tcagattttc ccattgtctc aggcaccact gcccaagtcc cctgcactct 6721 gccccaggaa tttgtctcac actttgtgga gcaacaggca ccgattcgag gagaagctgc 6781 cctgcttcat tatgtggacc cagacactca ccgtaatcta ggagagttca aattgtaccc 6841 tgatggattt gtcacctgtg tgccaaacac aggtggtggt cctcaaaatt tacctacaaa 6901 tggagtcttt gtcttttctt cctgggtttc taggtattac caattaaagc ctgtgggaac 6961 agccggtccg gctaggaggc ttggtgtcag aagggtataa tggcccaagc cattatagga 7021 gctattgccg ccaccgctgc tggcagcgcc gtgggggcag gtatccaggc tgggacagaa 7081 gcagcccttc aataccagag gtttcaacaa gatcttacac tacaagagaa ctcatttaaa 7141 catgatgaaa gaatgctagg tttgcagatt gagggatcta acgctttact acaaaagaac 7201 ctttctactc gctataatct tttggttggt gcaggtcttt cttcagctga cgctgcaaga 7261 tccatcgttg gggcccctgt gacaaaaatt gtggactgga acggagtgag gattgctgcc 7321 cctacgtcca ctgccactac actccgatct ggcaatttta tgaatatacc agtcacactc 7381 aaaaaggagc ctcaaaactt gccgccacgc tctacgggct tttctaatcc taattatgat 7441 tcatctacaa tgatttctag gacaactcag tgggtagagt cacaaaattc aatcaggaat 7501 ttatcgcctt tccatacctc agccctgagg accacctggg tgacccctcc tggttctact 7561 tctacttcta ctttttctac tgtttcttct gcgccacggt tctttaacac cgagcgcctc 7621 cctctgttcg caaacaatag gaaatagttt ttgtaatata atgtgggcat catattcata 7681 tttaattttg ttgatttggc ttaattagct aattagattt gaattggatg tt //