Typing tool
|
Complete norovirus genomes
MT357897 | GI.7 | ||
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GI.P7 |
ORF1: 1..5388 ORF2: 5372..6991 ORF3: 6991..7638LOCUS MT357897 7658 bp RNA linear VRL 25-APR-2020 DEFINITION Norovirus GI isolate Hu/US/2017/GI.7[P7]/Pennsylvania1021 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MT357897 VERSION MT357897.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7658) 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..7658 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="Pennsylvania1021" /isolate="Hu/US/2017/GI.7[P7]/Pennsylvania1021" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="USA" /collection_date="17-Jun-2017" /note="genotype: GI.7[P7]" gene <1..5388 /gene="ORF1" CDS <1..5388 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QJC14573.1" /translation="ASNDAIAAADVSKQNANTNNENIGSRLMARLKERISSQRGEGTT KIKSTEMALDLIRRSQTPSPTRSDPPPKAQRDRPPRTVSEVKQVLGWDGPTGKDYGAR AWCDLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETPERADGCHPVKWSESAGV DLGVDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLGQGK TIGVHSPQAAFSIARITIHPMAAWWRVCYEPTDQQRLSYDQLKELENEPWPYASITNN CYEFCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILSAIN GLVSQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLAELFDIFWTPPDISNFIA SLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLGQYG LEVFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNILDN EEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCGPPG IGKTKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKITEDC NKLQAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRVDFL VYCTAPEIEQTRRAHPGDTNAIKNLFKTDFSHLKMEIAPQGGFDNQGNTPFGRGAMKS TTLNRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAALGKK LRSVNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVIEKQVTATLQQQAISS VTLALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALEGKP REHNCRVHRAEREGRGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKGKNK KGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEVQAG GDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEIRKRKPIDWTPPKNDW SEDTRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVVPPSAKEIFGE KLSDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPLAVR MGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHA AATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQ PLPPGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVETVTN VLEQTMDTPVPWSYSDACMSLDKTTSSGFPHHKRKNDDWNGSAFVRELGEQAAHANNM YELGKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEAIKP HVIKLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMCKLT ANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCALSEV TGLAPDVLQAQSYFSFYGDDEIVSTDVEFDPIKLTQVLKEYGLKPTRPDKSEGPIIVK QQIDGLVFLRRTISKDAVGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRKIQL ISLLGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTGDRN LLPDYVNDDGV" mat_peptide <1..1203 /gene="ORF1" /product="p48" mat_peptide 1204..2292 /gene="ORF1" /product="NTPase" mat_peptide 2293..2892 /gene="ORF1" /product="p22" mat_peptide 2893..3312 /gene="ORF1" /product="VPg" mat_peptide 3313..3855 /gene="ORF1" /product="Pro" mat_peptide 3856..5385 /gene="ORF1" /product="RdRp" gene 5372..6991 /gene="ORF2" CDS 5372..6991 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QJC14574.1" /translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAAA TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI PLDDVRNVLYHTNENPPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL FLVPPSVEQKTRQLTVPNIPLNNMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSG TRVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGTTAQVPCTLPQE FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFVTCVPNTGGGPQNLPTNG VFVFSSWVSRYYQLKPVGTAGPARRLGVRRV" gene 6991..7638 /gene="ORF3" CDS 6991..7638 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QJC14575.1" /translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPPRSTGFSNPNYDSSTMISRTTQWVE SQNSIRNLSPFHTSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK" ORIGIN 1 gcgtctaacg acgctattgc cgctgctgat gtcagcaaac aaaatgctaa caccaacaac 61 gaaaacatcg gttctcgcct tatggcgaga ctgaaagagc gtataagctc tcaacgtggt 121 gagggaacca cgaaaatcaa gagtactgaa atggcactgg acctaatacg caggtcccaa 181 acaccatcgc caacgcgctc ggacccccct cctaaggcgc agcgcgatcg ccctccgagg 241 actgtgtcag aagtcaagca ggttttagga tgggatggcc ctactggtaa ggattatggg 301 gcccgagcat ggtgcgactt aacagctgaa gaaaagaagg aaatcctgga caacaacgag 361 cgccttttcg acgctggtgg tgtgactcct tcaacagtgc caagcacctt tgagagatgt 421 gaaacacctg agcgagctga cggctgccat cctgtcaaat ggagcgagtc tgcgggagtg 481 gatttaggcg tggattccct gaccactgtc acaggcccag tgtggaacat gtgccccctt 541 ccaccgattg attcacgtaa caatggccct gctagtgagc cacgcattgg agatatgata 601 gaattttatg aagggcacat atttcattat gccatatatc ttggtcaggg gaagaccata 661 ggagtccact cccctcaggc agccttctcc atagctcgta taaccataca ccctatggca 721 gcatggtggc gtgtctgcta tgagccaaca gaccagcaac gcctcagcta tgaccaatta 781 aaagaacttg agaatgaacc gtggccctat gcatccataa cgaacaactg ttatgaattc 841 tgctgccgtg tcatgtccct ggacgacacc tggttacaac gaaagttggt aacatccggt 901 aggtttaatc accccaccca ggagtggtcc aaggaaacac ctgatttcca tcaagattca 961 aaattggaaa tagtgagaga cgcaatacta tccgccataa acggcttggt ttctcaacct 1021 ttcaagaata tcctctcaaa aattaagcca ttgaatttgt tgtctttgct atcaaattgt 1081 gactggactt tcatgggggt tgtcgagcta gtggtgctat tggctgagtt gttcgacatc 1141 ttctggaccc cacctgatat ctccaacttc atagcatctc ttctacctga ctttcacctg 1201 caagggccag aggatttggc aagagacctg gtcccattga tattgggggg tatcggcctg 1261 gctattggct ttactagaga caaaattaca aaagtcatga agagtgccgt tgatggcctg 1321 cgctcagcca cgcagcttgg acaatatggc cttgaggtgt tttcgatcat aaagaaatat 1381 ttctttggtg gagaccaaac tgagaaaacc ctcaagggca tagagaatgc agtcatagac 1441 atggaggtcc tgtcgagtac caatgtcaca caactggtgc gcgacaagaa attggccaaa 1501 acatacatga atatcctgga caatgaggag gaaaaggcaa ggaaactttc agtgcgcagt 1561 gcagacccac atgttgtaac aacagtcaac aacctcattt cgcgcatatc tatggcgcga 1621 tcagcacttg ccaaggctca agctgagatg actaaccggg cacgccccgt ggtcataatg 1681 atgtgcgggc caccaggtat aggaaagacc aaagctgctg aacacctggc caatcgccta 1741 gctggtgaga taagacctgg gggaaaagtg ggcttagtgc ctagagaatc cattgaccat 1801 tgggatggtt accatgggga agaagtcctg ttgtgggatg actatggtat gtccaagata 1861 acagaggact gcaataaatt acaagctata gctgacactg ccccactcac actcaactgt 1921 gacaggatag agaataaggg catgcaattt gtgtcagatg caataataat aacaacgaat 1981 gcccctgggc cagctcccgt cgactttgtt aaccttggtc cagtttgtcg acgtgtagac 2041 tttttggtgt attgcaccgc ccccgaaatt gaacagacca ggagggccca ccctggggac 2101 accaatgcta tcaagaattt gtttaaaaca gacttttccc atttaaaaat ggagatagca 2161 ccacaagggg ggtttgataa tcaaggaaac accccttttg ggaggggtgc tatgaaatca 2221 accacactca ataggctact catacaggca gtcgccttga cgatggaaag acaagacgag 2281 ttccaaatgc agggggcagt gtacaacttt gatgaggatc gggttacagc tttcactagc 2341 ctggcccgag ccaacggact ggggcttttg agcatggctg cactcggtaa aaagttgcgg 2401 agcgttaaca acatggaggg acttcgcaac gccctcaaag ggtacaagat cactgagtgt 2461 gacattgtgt ggaacaacag gacttacacc attaaaggag atggatcaaa tgtgagtgtc 2521 atagaaaagc aggtaactgc cactcttcag cagcaagcca tcagctcagt tactctggca 2581 ctttctaggt tgcgcgccgc acgagcgctg gcgtatgcat catgtctcca gagcgcagtg 2641 accaccatct tgcaaatggc tgggtctgca gtggtgatca gcagggcggt caaacgcatg 2701 tttgggaccc acaccaacca gccagcactg gaaggcaagc ccagagaaca caactgcagg 2761 gtccaccggg ctgaaaggga aggtcgtggc cccattggtc atgatggcat catagaacgg 2821 tacggtctgt gtgagactga tcaagaagaa gaagaaaaga tcgagatgga agtgccgact 2881 gcagacaagg aaggtaagaa caaaggcaag aacaagaagg ggcgaggtag gaagaataac 2941 tataacgcct tctctaggcg aggcctaagt gatgaggagt atgaagaata caagaaggtt 3001 agagaagaga agggtggtaa ctacagcatc caagaatacc tcgaggaccg tcaacgatat 3061 gaagaagagt tggctgaggt ccaagcgggt ggagatggcg ggatcggtga aacagaggca 3121 gagatccgcc atcgtgtttt ctacaaatcc aagagtggca tgcgaaagca acgtcaagaa 3181 gaacgccgac agcttggatt ggttacaggc actgaaatca gaaaacgcaa gcccatagat 3241 tggacaccac ccaagaatga ttggtcagaa gacaccagac aggttaacta tgatgagcac 3301 atcagctttg aagccccacc ttctatttgg agtagggtgg tcaaatttgg cagtggatgg 3361 ggtttttggg tgagttcaac agtttttatc acaaccacac acgttgtacc accaagtgct 3421 aaagaaattt ttggggaaaa actttcagat atagcaatac acagagttgg ggagttcaca 3481 caatttagat tctctaagaa aatgagacct gacctcagtg gtatggtcct tgaagaaggt 3541 tgcccggagg gaacggtgtg caccataatg gtgaagagag attcaggtga attgttacct 3601 ctagctgtgc gcatgggagc tgtcgcgtcc atgaagatac aaggtaagct catgcatggg 3661 cagtctggta tgttgctaac cggtgcaaat gcaaagggaa tggacctggg caccatccct 3721 ggtgactgtg gagctccata cgtgcataaa aggggaaatg actgggtggt gtgtggagtg 3781 catgctgccg caaccaagtc aggcaacacc gtagtgtgtg caatacaatc aggtgaaggt 3841 gaagctaccc ttgaaggggg tgggcaaaac aaagggcatt atgcaggcca tccaatttta 3901 aggtatggca atgggccctc cctctccaca aaaaccaaat tctggaaatc aaccccccaa 3961 ccactcccgc ctggaaccta tgaaccagct tacctaggtg ggcgtgaccc tagggtagat 4021 ggaggtccat cccttcaaca agtcctacgt gaccaactca agccatttgc tgagccccgt 4081 ggtagactgc cagaaccgag cttgctcgaa gcagctgtgg agactgtcac aaatgtttta 4141 gaacaaacaa tggacacacc tgtgccatgg agctacagtg atgcctgtat gtcacttgat 4201 aagaccacca gctcgggctt tccacaccac aaacgcaaga atgacgattg gaacggaagt 4261 gcgtttgtgc gtgagcttgg agaacaggcg gcccatgcca acaacatgta tgagttgggt 4321 aaatcagtca agccggttta caccgcagca ctcaaggatg aactggtgaa acccgagaaa 4381 gtgtacacaa aaataaagaa gagactgctt tggggcgcag accttggcac agtcattcga 4441 gccgcccgag cctttggtcc attctgtgaa gccataaaac cacatgtgat aaaactgcca 4501 attaaagttg gcatgaatgc aattgaggac ggccccctca tatatgctga acatgcaaag 4561 tataaatatc actttgatgc agactacaca gcttgggatt caacccaaaa tagagaaatc 4621 atgttagaat ccttcaacat catgtgcaaa ctcacggcta atccgtcact ggctgccgtc 4681 gtggctcagg acctgttatc cccatcagaa atggacgtgg gtgattacgt gatcagtgtc 4741 aaggatggcc ttccctcagg gttcccatgc acctcacagg tcaatagcat aaaccactgg 4801 atatacactc tgtgtgctct gtcggaagtc acaggcctag cccctgacgt tctgcaggcc 4861 caatcctact tctccttcta cggagatgat gaaattgtct caactgatgt ggaatttgac 4921 ccaataaagc tcacccaagt gcttaaggaa tatggcttga agcccacccg gcctgacaaa 4981 tcggagggac ccatcatagt gaaacaacag atagatgggc tagttttcct gaggcgcact 5041 atatcaaaag atgctgtcgg ttaccaagga cgcctggacc gtaactccat tgaaagacaa 5101 ttatggtgga ctcggggccc gaaccatgat gatccctttg agacattgat accccatcaa 5161 caaagaaaga tccaactaat ttccctgctt ggtgaagccg cacttcatgg agaaaaattc 5221 tataggaaga ttgccaacag agttatacag gaagtcaagg agggggggct tgagctctat 5281 ataccgggtt ggcaggccat gttccgctgg atgcgattcc atgacttgag tatgtggaca 5341 ggagatcgca atctcttgcc cgattatgta aatgatgatg gcgtctaagg acgccccctc 5401 aaacatggat ggcactagtg gtgccggtca gctggtccca gaggttaatg cagctgaacc 5461 tttacccctt gaaccggtag tgggcgccgc aactgcggct gccactgctg gacaagttaa 5521 tttaatagac ccctggatta tgaataattt tgttcaagcc cctgagggtg agtttaccat 5581 ctcacctaat aacacccctg gagatattct gtttgatctg catctaggac cacaccttaa 5641 tccctttttg cagcatttat cccaaatgta caatggttgg gtgggcaata tgagagttag 5701 agttatgctt gcagggaatg cgttcactgc cggtaagatc ataatttgtt gtgtcccacc 5761 tggctttgca tcccaaaata tatcaattgg ccaggccact atgttcccac atgtcatagc 5821 tgatgtgaga gtgctggagc ctatagaaat ccctcttgat gatgtgcgca atgtcttgta 5881 ccacaccaat gagaaccctc ccaccatgcg gttgctttgc atgctataca caccccttcg 5941 tgctggtggt gcttcatcgg gcacggaccc ctttgtcatt gcgggtcgtg tattaacttg 6001 ccctgcccct gattttaatt tcctgttcct tgtaccccct agtgtagagc agaaaaccag 6061 gcagttgact gtgcccaaca tacccctgaa caatatggcc aattccagag tgcccgcaat 6121 gataaacaag atgacagttt ctgctgatca gaaccaggtg gtccaattcc agaatggtcg 6181 ttgcacactt gaaggacagc tcttgggcac aactccagtt tcagctagcc aagtggcccg 6241 catacgtggc aaagtctttt ccaccgcatc tgggaaagga ctcaatctga ctgagttgga 6301 tggaacccct taccacgcat ttgagagccc agcccccctt ggtttccctg acatcggagc 6361 ctgtgattgg catgtgtcaa cctttaaagt ggatcagaac ctttcaggag accctatgtc 6421 caggttagat ataaaacaaa atgccccgtt tgcaccacac cttggttcca ttgaattcac 6481 atctgatcag gacccaactg gggatcaatt gggaacattg gcctgggttt ccccttccac 6541 tagtggaact agggtagacc cctggaaaat tccatcatat ggttcaacag tgacagaatc 6601 cactcatctg gcaccaccca tatttccacc aggctttggc gaggccatag tttattttat 6661 gtcagatttt cccattgtct caggcaccac tgcccaagtc ccctgcactc tgccccagga 6721 atttgtctca cactttgtgg agcaacaggc accgattcga ggagaagctg ccctgcttca 6781 ttatgtggac ccagacactc accgtaatct aggagagttc aaattgtacc ctgatggatt 6841 tgtcacctgt gtgccaaaca caggtggtgg tcctcaaaat ttacctacaa atggagtctt 6901 tgtcttttct tcctgggttt ctaggtatta ccaattaaag cctgtgggaa cagccggtcc 6961 ggctaggagg cttggtgtca gaagggtata atggcccaag ccattatagg agctattgcc 7021 gccaccgctg ctggcagcgc cgtgggggca ggtatccagg ctgggacaga agcagccctt 7081 caataccaga ggtttcaaca agatcttaca ctacaagaga actcatttaa acatgatgaa 7141 agaatgctag gtttgcagat tgagggatct aacgctttac tacaaaagaa cctttctact 7201 cgctataatc ttttggttgg tgcaggtctt tcttcagctg acgctgcaag atccatcgtt 7261 ggggcccctg tgacaaaaat tgtggactgg aacggagtga ggattgctgc ccctacgtcc 7321 actgccacta cactccgatc tggcaatttt atgaatatac cagtcacact caaaaaggag 7381 cctcaaaact tgccgccacg ctctacgggc ttttctaatc ctaattatga ttcatctaca 7441 atgatttcta ggacaactca gtgggtagag tcacaaaatt caatcaggaa tttatcgcct 7501 ttccatacct cagccctgag gaccacctgg gtgacccctc ctggttctac ttctacttct 7561 actttttcta ctgtttcttc tgcgccacgg ttctttaaca ccgagcgcct ccctctgttc 7621 gcaaacaata ggaaatagtt tttgtaatat aatgtggg //