Typing tool
|
Complete norovirus genomes
MT357899 | GI.7 | ||
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GI.P7 |
ORF1: 1..5397 ORF2: 5381..6997 ORF3: 6997..7644LOCUS MT357899 7664 bp RNA linear VRL 25-APR-2020 DEFINITION Norovirus GI isolate Hu/US/2017/GI.7[P7]/Pennsylvania1110 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MT357899 VERSION MT357899.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7664) 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..7664 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="Pennsylvania1110" /isolate="Hu/US/2017/GI.7[P7]/Pennsylvania1110" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="USA" /collection_date="21-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="QJC14579.1" /translation="MMMASNDAVAAADVSKQNANTNNENIGSRLMARLKERISSQRGE 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..6997 /gene="ORF2" CDS 5381..6997 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QJC14580.1" /translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAAA TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI PLDDVRNVLYHTNENPPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL FLVPPSVEQKTRQLTVPNIPLNNMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH VSTFKVDQNPGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSGT RVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGTTAQVPCTLPQEF VSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFVTCVPNTGGGPQNLPTNGV FVFSSWVSRYYQLKPVGTAGPARRLGVRRV" gene 6997..7644 /gene="ORF3" CDS 6997..7644 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QJC14581.1" /translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPPRSTGFSNPNYDSSTMISRTTQWVE SQNSIRNLSPFHTSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK" ORIGIN 1 atgatgatgg cgtctaacga cgctgttgcc 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 ctcgggcttc 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 tgactacgtg 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 gcaccagtgg tgccggtcag ctggtcccag aggttaatgc 5461 agctgaacct ttaccccttg aaccggtagt gggcgccgca actgcggctg ccactgctgg 5521 acaagttaat ttaatagacc cctggattat gaataatttt gttcaagccc ctgagggcga 5581 gtttaccatc tcacctaata acacccctgg agatattttg 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 caggagaccc 6421 tatgtccagg ttagatataa aacaaaatgc cccgtttgca ccacaccttg gttccattga 6481 attcacatct gatcaggacc caactgggga tcaattggga acattggcct gggtttcccc 6541 ttccactagt ggaactaggg tagacccctg gaaaattcca tcatatggtt caacagtgac 6601 agaatccact catctggcac cacccatatt tccaccaggc tttggcgagg ccatagttta 6661 ttttatgtca gattttccca ttgtctcagg caccactgcc caagtcccct gcactctgcc 6721 ccaggaattt gtctcacact ttgtggagca acaggcaccg attcgaggag aagctgccct 6781 gcttcattat gtggacccag acactcaccg taatctagga gagttcaaat tgtaccctga 6841 tggatttgtc acctgtgtgc caaacacagg tggtggtcct caaaatttac ctacaaatgg 6901 agtctttgtc ttttcttcct gggtttctag gtattaccaa ttaaagcctg tgggaacagc 6961 cggtccggct aggaggcttg gtgtcagaag ggtataatgg cccaagccat tataggagct 7021 attgccgcca ccgctgctgg cagcgccgtg ggggcaggta tccaggctgg gacagaagca 7081 gcccttcaat accagaggtt tcaacaagat cttacactac aagagaactc atttaaacat 7141 gatgaaagaa tgctaggttt gcagattgag ggatctaacg ctttactaca aaagaacctt 7201 tctactcgct ataatctttt ggttggtgca ggtctttctt cagctgacgc tgcaagatcc 7261 atcgttgggg cccctgtgac aaaaattgtg gactggaacg gagtgaggat tgctgcccct 7321 acgtccactg ccactacact ccgatctggc aattttatga atataccagt cacactcaaa 7381 aaggagcctc aaaacttgcc gccacgctct acgggctttt ctaatcctaa ttatgattca 7441 tctacaatga tttctaggac aactcagtgg gtagagtcac aaaattcaat caggaattta 7501 tcgcctttcc atacctcagc cctgaggacc acctgggtga cccctcctgg ttctacttct 7561 acttctactt tttctactgt ttcttctgcg ccacggttct ttaacaccga gcgcctccct 7621 ctgttcgcaa acaataggaa atagtttttg taatataatg tggg //