Typing tool
|
Complete norovirus genomes
MT008459 | GI.7 | ||
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GI.P7 |
ORF1: 85..5388 ORF2: 5372..6991 ORF3: 6991..7638LOCUS MT008459 7660 bp RNA linear VRL 15-JUL-2020 DEFINITION Norovirus GI isolate SCD1061_3 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MT008459 VERSION MT008459.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7660) AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q. TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human Norovirus JOURNAL Unpublished REFERENCE 2 (bases 1 to 7660) AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q. TITLE Direct Submission JOURNAL Submitted (28-JAN-2020) School of Agriculture & Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd. Minhang Dist, Shanghai 200240, China COMMENT ##Assembly-Data-START## Assembly Method :: CLC genome workbench v. 12 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7660 /organism="Norovirus GI" /mol_type="genomic RNA" /isolate="SCD1061_3" /isolation_source="asal swab" /host="Homo sapiens" /db_xref="taxon:122928" /country="China: Shanghai" /collection_date="18-Feb-2018" /note="genotype: GI.7[P7]" gene 85..5388 /gene="ORF1" CDS 85..5388 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QHR93641.1" /translation="MAKLKERISSQRGEGTTRIKNTEMALELIRRSQTPSPTRPDPPP KSQRDRPPRTVSEVKQALGWGDSAHKDYGARAWCDLTAEEKKEILDNNERLFDAGGVT PSTVPSTFERCETLEQTNDNHPVRWNESTGVNLGVGPLTTVAGPVWNMCPLPPIDSRN NGPANEPRIGDMIEFYEGHIFHYAIYLGQGKTIGVHAPRAAFSIARITIHPITAWWRV CYEPTDHQRLSYDQLKELENEPWPYASITNNCYEFCCRVMSLDDSWLQRKLVTSGRFN HPTQEWSRDTPDFHQDSKLEIVRDAILSAINGLVSQPFKNILSKIKPLNLLSLLSNCD WTFMGVVELVVLMAELFDIFWTPPDVSNFIASLLPDFHLQGPEDLAKDLVPLILGGIG LAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEIFSIIKKYFFGGDQTEKTLKGIENA VIDMEVLSSTNVTQLVRDKKLAKTYMNILDNEEEKARKLSVRSADPHVVTTVNNLISR ISMARSALAKAQAEMTSRARPVVIMMCGPPGIGKTKAAEHLANRLAGEIRPGGKVGLV PRESIDHWDGYHGEEVLLWDDYGMSKITEDCNKLQAIADTAPFTLNCDRIENKGMQFV SDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCTAPEIEQTRRTHPGDTNAIKDLFK PDFSHLKMEIAPQGGFDNQGNTPFGRGTMKPTTLNRLLIQAVALTMERQDEFQMQGAV YNFDEDRVTAFTSLARANGLGLLSMATLGKRLRSVNNMEGLRNALKGYKINECDIVWN NRTYTIKGDGSNVSITEKQVAASLQQQAVSSVTLALSRLRAARALAYASCFQSAVVTI LQMAGSAVVISRAVKRMFGTHTNQPALEGKPKEHNCRVHRAEREGHGPIGHDGIIERY GLCESDQDEEKIVMEVPTADKEGKNKGKNKKGRGRKNNYNAFSRRGLSDEEYEEYKKV REEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAEIRHRVFYKSKSGMRKQR QEERRQLGLVTGAEIRKRKPIDWTPPKNDWSEDTREVNYDEHISFEAPPSIWSRVVKF GSGWGFWVSSTVFITTTHVIPPDVREVFGEKLSDIAIHRVGEFTQFRFSKKMRPDLSG MVLEEGCPEGTVCTIMVKRDSGELLPLAVRMGAVASMKIQGKLMHGQSGMLLTGANAK GMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVCAIQSGEGEATLEGGGQN KGHYAGHPILRYGNGPSLSTKTKFWKSTPQPLPPGTYEPAYLGGRDPRVEGGPSLQQV LRDQLKPFAEPRGRMPEPSLLEAAVETVTNVLEQTMDTPVPWSYSDACMSLDKTTSSG FPHHKRKNDDWNGSAFVRELGEQAAHANNMYELGKSVKPVYTAALKDELVKPEKVYTK IKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGMNAIEDGPLIYAEHAKYK YHFDADYTAWDSTQNREIMLESFNIMCKLTADPSLAAIVAQDLLSPSEMDVGDYVISV KDGLPSGFPCTSQVNSINHWIYTLCALSEVTGLAPDVLQSQSYFSFYGDDEIVSTDVE FDPTKLTQVLREYGLKPTRPDKSEGPIIVKHQIDGLVFLRRTISKDAAGYQGRLDRNS IERQLWWTRGPNHDDPFETLIPHQQRKIQLISLLGEAALHGEKFYRKIANRVIQEVKE GGLELYIPGWQAIFRWMRFHDLSLWTGDRNLLPDYVNDDGV" mat_peptide 85..1206 /gene="ORF1" /product="p48" mat_peptide 1207..2295 /gene="ORF1" /product="NTPase" mat_peptide 2296..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="QHR93642.1" /translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAVA TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLQLGPHLNPFLQHLSQMYNG WVGNMRVRVMLAGNAFTAGKIIICCVPPGFSSQNISIGQATMFPHVIADVRVLEPIEI PLDDVRNVLFHTNESRPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPSPDFNFL FLVPPSVEQKTRQLTVPNIPLNNLANSRVPAMINKMTISTDQSQVVQFQNGRCTLEGQ LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQEPTGDQLGTLAWVSPSTSG ARVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGNTAQVPCTLPQE FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFITCVPNTGGGPQNLPING 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="QHR93643.1" /translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG VRIAAPMSTATTLRSGNFMSIPVTPRKESQNLSARSVGLTNPNYDSSTMISRTTQWVE SQNSARNLSPFHSSALRTTWVTPPGSTSTSTFSTVSSVPRFFNTERLPLFANNRK" ORIGIN 1 atggcgtcta acgacgctat taccgctgct gatgtcagca aacaaaatgc taacaccaac 61 aacgaaaata tcggttctcg cctcatggcg aaactgaagg agcgtataag ctcccaacgt 121 ggtgaaggca ccacaaggat taaaaacact gaaatggcat tggaattaat acgtaggtcc 181 caaacaccat ccccaacacg cccagatccc cctcctaaat cgcagcgtga tcgccctcca 241 agaactgtat cagaagtcaa acaagcttta ggttggggtg attccgccca taaggactat 301 ggggcccgag cgtggtgtga cctaacagct gaggaaaaga aagagatctt ggacaacaat 361 gagcgcctct ttgatgctgg cggtgtgact ccatcaacag taccgagcac ttttgagagg 421 tgtgagacac ttgaacaaac caatgataac catcctgtta gatggaatga gtctacggga 481 gtgaatctag gtgttggccc tctaaccaca gttgcaggtc cagtatggaa tatgtgtcct 541 cttccgccga ttgactcgcg caataatggc cctgcaaatg aaccacgtat tggggatatg 601 atagagtttt atgaagggca catatttcac tatgccatat accttggcca aggaaagacc 661 ataggggtcc acgccccccg agcagccttc tccatagcac gtatcaccat acatcctatc 721 acagcatggt ggcgtgtctg ctatgagccc acagaccatc aacgcctcag ctatgaccaa 781 ttgaaagagc ttgagaatga gccatggcct tatgcatcca taacaaacaa ttgctatgag 841 ttctgttgcc gcgttatgtc cctggacgac tcctggttgc agcgaaaact agtgacctct 901 ggcaggttta accaccctac tcaggaatgg tctagggaca caccggactt ccatcaagac 961 tcgaaattag agatagtgag agatgcgatt ctatctgcta taaatggcct agtctctcaa 1021 cctttcaaaa acattctttc aaagatcaag ccactaaatc tgttatccct gttatcaaat 1081 tgtgactgga cttttatggg ggtcgtcgag ctggtggtgt tgatggctga actgtttgat 1141 atcttctgga ccccccctga tgtttccaac ttcatagcgt ctcttttgcc tgatttccac 1201 ctgcaaggac cagaggattt ggctaaagat ctggttccac tgatattggg gggtattggc 1261 ttggccattg gcttcaccag agataagata acaaaagtca tgaagagcgc cgttgatggc 1321 ttgcgatcag ccacacagct cggacaatat ggcctcgaga tattctcaat cattaaaaag 1381 tatttctttg gtggagatca aaccgagaaa acccttaagg gcatagaaaa tgctgtcata 1441 gacatggaag tcttgtcgag caccaatgtc acccagttgg tgcgcgataa aaaattggct 1501 aagacctaca tgaacatcct agataatgaa gaagagaaag caagaaaact ttcagtacgt 1561 agtgctgacc cacatgttgt aacgacggtc aacaatctca tttcgcgcat atccatggcg 1621 cgttcagctc tcgccaaagc ccaagctgaa atgactagtc gggcgcgccc agtagtcata 1681 atgatgtgtg gaccaccagg cataggaaaa accaaagctg ctgagcactt agccaaccgt 1741 ttagctggtg agataagacc agggggcaaa gtggggctag tgcctagaga atccattgac 1801 cattgggatg gctatcatgg ggaagaagtt ctattgtggg atgactatgg catgtctaag 1861 ataacagagg attgcaacaa attgcaggcc atagctgaca ctgccccgtt cacactcaac 1921 tgtgacagga tagagaacaa aggcatgcaa tttgtgtcgg atgcaataat aataacaaca 1981 aatgcccctg ggccagcccc cgttgacttt gtcaaccttg gtccagtgtg tcgacgtgtg 2041 gacttcctgg tgtactgtac cgcccccgaa attgaacaga ctaggagaac ccatcccgga 2101 gacaccaatg ctatcaaaga cctgttcaaa ccagactttt cccaccttaa aatggagata 2161 gcaccacaag gggggtttga caatcaaggt aacaccccct ttgggagggg cactatgaag 2221 ccaaccacac ttaataggtt acttatacaa gctgttgcac taactatgga aagacaggat 2281 gagttccaaa tgcaaggggc ggtatataat tttgatgagg accgggtgac agctttcacc 2341 agtttggccc gagccaatgg actaggtctc ctgagtatgg caacacttgg aaaaagacta 2401 cggagtgtca acaacatgga aggacttcgc aatgctctca aggggtacaa gatcaatgag 2461 tgtgatattg tgtggaacaa tagaacttac accattaaag gggatggatc aaatgtgagc 2521 attactgaga aacaggtggc agcctctctc cagcagcaag ccgtcagctc agtaaccctg 2581 gcgctttcta ggttgcgcgc cgcgcgagcg ctggcgtatg catcttgctt tcagagcgca 2641 gtggttacca tcctacaaat ggccgggtct gcagtggtga tcagtagggc agtcaaacgt 2701 atgttcggga cccacacaaa ccagccggcc ctggagggca agcccaagga acacaactgc 2761 agagtccacc gtgctgaaag ggaaggccat ggacctattg ggcatgacgg catcatagaa 2821 cgatacggcc tgtgtgagag cgaccaggat gaggagaaga tcgtgatgga agtgccaact 2881 gctgacaaag agggcaaaaa taaaggcaaa aacaagaagg ggcgaggcag gaagaacaac 2941 tacaacgcct tctctaggcg aggcctgagt gatgaggagt atgaagaata taaaaaagtt 3001 agagaagaaa agggtggcaa ctacagcatc caagagtacc ttgaggaccg tcagcgttac 3061 gaagaagaac tcgctgaggt ccaagctggt ggagatggcg gaatcggtga gacggaggca 3121 gagatccgcc atcgggtctt ctataaatcc aaaagtggta tgcgtaaaca gcgccaagag 3181 gagcgccgac aacttgggct ggtcacgggt gctgaaatta ggaaacgcaa acccatagat 3241 tggacaccgc caaagaatga ctggtcggaa gatactaggg aagtcaacta tgacgaacac 3301 atcagttttg aagccccacc ctctatttgg agtagggtcg taaaatttgg cagtggatgg 3361 ggcttttggg taagttcaac agttttcatt acaaccacac acgtcatacc accagatgtt 3421 agagaagttt ttggtgaaaa gctctcagac atagcaatac acagagttgg ggaattcaca 3481 caatttagat tttccaaaaa gatgagacct gacctcagtg gtatggtatt ggaagagggt 3541 tgcccagaag gaactgtatg cactataatg gtgaagagag actcaggtga actactacca 3601 ttggccgtgc gcatgggagc tgtcgcatcc atgaagatac aaggaaagct tatgcacggt 3661 caatctggca tgctgctaac tggtgcgaat gcaaagggaa tggatctagg caccattcct 3721 ggtgattgtg gagctccata tgtacacaaa agaggaaatg attgggtagt gtgtggagtg 3781 cacgcagccg caaccaagtc aggcaacact gttgtttgtg caatacagtc aggtgaaggt 3841 gaagccactc ttgagggggg tgggcaaaac aaagggcatt atgcaggcca cccaatttta 3901 aggtatggta atgggccctc cctctctaca aaaaccaaat tttggaagtc aactccccaa 3961 cccctccccc ctgggaccta cgaaccagcc tacttaggcg ggcgtgaccc cagagtggaa 4021 ggcggaccat cactccaaca ggtcctacgt gatcagctca agccctttgc tgaaccccgt 4081 ggtaggatgc cagagccaag cttgctagaa gcggctgtgg agaccgtcac aaacgtctta 4141 gagcaaacca tggacacgcc tgtgccatgg agttacagcg acgcctgcat gtcgctagac 4201 aagactacta gctcaggctt tccacaccac aaacgcaaga acgatgactg gaatggcagt 4261 gcgtttgtgc gtgagcttgg tgaacaggca gcccatgcca acaacatgta tgaattaggc 4321 aaatcagtca aaccagttta cactgcagca cttaaagatg aattggtgaa acccgaaaaa 4381 gtgtatacaa agataaagaa aagactgctt tggggtgcag acctcggtac ggtcattcga 4441 gctgctcgag cctttggccc attctgtgaa gctataaaac cacatgtgat aaaattgccg 4501 attaaagtcg gcatgaatgc aattgaagat ggccccctca tatatgctga acatgctaag 4561 tataaatatc actttgatgc agattacaca gcttgggatt caacacagaa cagggagatt 4621 atgttagaat ccttcaacat catgtgtaag cttacagctg atccatcact ggctgccatt 4681 gtcgcacagg acttgttgtc cccgtcggaa atggacgtgg gggactacgt gatcagtgtc 4741 aaggatggtc tcccctcagg attcccatgc acctcacaag tgaatagcat aaaccattgg 4801 atttataccc tgtgcgccct ttcggaagtc acaggtttgg cccctgatgt tctgcaatcc 4861 caatcttact tttccttcta tggggatgat gaaattgtat caactgatgt ggaatttgac 4921 ccaacaaaac tcacccaagt gcttagagag tatggcttga aacccacgcg gcctgacaaa 4981 tcagaagggc ctatcatagt gaagcatcaa atagatgggt tggtttttct gaggcgcact 5041 atatcaaaag atgctgctgg ctaccaaggg cgcctggacc gcaattccat tgaaagacag 5101 ttatggtgga cccggggccc aaaccatgat gatccctttg agacattaat accccatcaa 5161 caaagaaaga ttcaattgat ttccttactt ggtgaggctg cgctccacgg agagaaattc 5221 tatagaaaga ttgccaacag agtcatacag gaagtcaaag agggaggcct tgagctctat 5281 ataccaggtt ggcaggccat attccgctgg atgcgtttcc atgacttgag cttgtggaca 5341 ggagatcgca atctcctgcc cgattatgta aatgatgatg gcgtctaagg acgccccctc 5401 aaacatggat ggcactagtg gtgccggtca gctggttcca gaggttaatg cagctgaacc 5461 cctacccctt gagccggtgg tgggtgccgc aactgcggtg gccactgctg ggcaagttaa 5521 tttaatagac ccctggatca tgaataattt tgtccaagcc cctgagggcg aattcactat 5581 ctcccctaac aatacccctg gagatatttt atttgatttg caattgggac cacatcttaa 5641 cccttttctc caacatctgt cccaaatgta taatggttgg gtgggaaaca tgagagttag 5701 agtcatgctc gcaggaaatg cgttcactgc tggtaaaatc ataatttgtt gtgtcccacc 5761 tggcttttca tcccaaaata tatcaattgg acaagccaca atgttcccac atgttatagc 5821 tgatgtgaga gtattagaac ctattgaaat cccccttgat gatgtacgca atgtcttgtt 5881 tcacactaat gaaagccgcc caactatgcg gttactctgt atgctgtaca cacccctccg 5941 cgctggaggc gcttcatcag gcacggaccc ttttgtcatt gcaggccgtg tcctaacctg 6001 cccttcccct gatttcaatt ttctgttcct cgtacctcct agcgtggaac agaagaccag 6061 gcaattgact gtacccaata tacccttgaa caatttggcc aactccagag tgcctgcaat 6121 gataaataag atgacaatct ccactgatca aagtcaggta gtccagttcc aaaatggtcg 6181 ttgcacactc gaggggcaac ttttgggcac aacccctgtc tcagctagtc aagtggcccg 6241 catacgcggt aaagttttct ccacagcatc tggaaaaggg ctcaatttaa ctgaattgga 6301 tgggaccccc tatcatgcat tcgagagccc agcccccctt ggttttcctg acataggggc 6361 ttgtgattgg catgtatcaa ctttcaaggt ggatcaaaat ctttcaggag accccatgtc 6421 caggctagat ataaaacaaa atgccccgtt tgcaccacat cttggttcca ttgaattcac 6481 ctctgaccag gaaccaaccg gggatcaatt gggcacacta gcttgggtct ccccttccac 6541 tagtggagct agggtcgatc cttggaaaat cccatcatat ggttcaactg taactgagtc 6601 cactcacctg gcaccaccta tctttccgcc aggttttggt gaagctatag tctatttcat 6661 gtcagacttt cccattgtgt caggcaacac tgctcaagtt ccctgtacct tacctcaaga 6721 atttgtttca cactttgtgg aacaacaggc accaattcga ggtgaagctg ccctattgca 6781 ttatgtagat ccagacaccc accgtaattt gggagagttc aaattgtacc ctgatgggtt 6841 tatcacctgt gtgccaaata caggcggtgg cccccaaaac cttcctataa atggggtttt 6901 tgtcttttct tcttgggttt ctagatatta tcaattaaag cctgtgggaa cagccggtcc 6961 ggccaggagg cttggtgtga gaagggtata atggctcaag ccattatagg agcaattgcc 7021 gccaccgctg ctggcagcgc agtgggggca ggtatccaag ctggcacaga agcagccctg 7081 caatatcaga gatttcaaca agatctcacc ctacaggaaa actcttttaa acacgatgag 7141 agaatgttgg gtttacaaat tgagggatct aatgctttat tacaaaagaa tctttccacc 7201 cgctataacc tattagttgg tgcaggtctt tcttcggctg atgctgcaag gtctattgtt 7261 ggggcccctg tgacaaaaat tgtggattgg aatggggtga ggattgccgc ccccatgtcc 7321 actgccacca ctctccgatc tggcaatttt atgagcatac cagtcacgcc gagaaaggag 7381 tcccaaaatc tgtcagcacg ttctgtaggt ctcactaatc ccaattatga ttcatctact 7441 atgatctcta gaacaaccca gtgggtggag tcacagaatt cagctagaaa tttatcacct 7501 tttcatagct cagccctaag gaccacatgg gtaactcctc ctggctctac ttctacttca 7561 actttttcta ctgtctcttc ggtgccacgg ttctttaaca ccgagcgcct tcccttgttc 7621 gcaaacaata ggaagtagtt tttgtaatat aatgtgggcg //