Typing tool
|
Complete norovirus genomes
MT357992 | GI.1 | ||
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GI.P1 |
ORF1: 5..5374 ORF2: 5358..6950 ORF3: 6950..7588LOCUS MT357992 7654 bp RNA linear VRL 25-APR-2020 DEFINITION Norovirus GI isolate Hu/US/2018/GI.1[P1]/CS0088, complete genome. ACCESSION MT357992 VERSION MT357992.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7654) AUTHORS Randazzo,W., Houston,K., Montmayeur,A.M., Tatusov,R.L., Chhabra,P., Browne,H., 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..7654 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="CS0088" /isolate="Hu/US/2018/GI.1[P1]/CS0088" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="USA" /collection_date="26-Jun-2018" /note="genotype: GI.1[P1]" gene 5..5374 /gene="ORF1" CDS 5..5374 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QJC14585.1" /translation="MMMASNDAVPTAASSENANNNSSIKSRLLARLKGVSGTTAPPNS IQITNQNMALGLIGQAPAPKATAVEAPKQQRDRPPRTAAEVQQNLCWTEKPQDQNVKA WDELDHTTKQQILDEHAEWFDAGGLGPSTLPSNHERHPNDDSGGHQVKWSAKEGVNLG IDGLTTVPGPEWNMCPLPPADQRSTTPAVEPIIGDMIEFYEGHIYHYAIYIGQGKTVG VHSPQAAFSITRITIQPISAWWRVCYVPQPKQRLTYDQLKELENEPWPYAAVTNNCFE FCCQVMCLEDTWLQRKLISSGRFHHPTQDWSRDTPEFQQDSKLEMVRDAVLAAINGLV SRPFKDLLGKLKPLNVLNLLSNCDWTFMGVVEMAILLLELFGVFWNPPDVSNFIASLL PDFHLQGPEDLARDLVPVVLGGIGLAIGFTRDKVSKMMKNAVDGLRAATQLGQYGLEI FSLLKKYFFGGDQTEKTLKDIESAVIDMEVLSSTSVTQLVRDKQSARAYMAILDNEEE KARKLSVRNADPHVVSSTNALISRISMARAALAKAQAEMTSRMRPVVIMMCGPPGIGK TKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQEDCNKL QAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYC TAPEVEHTRKVSPGDTNALKDCFKPDFSHMKMELAPQGGFDNQGNTPFGKGVMKPTTI NRLLIQAVALTMERQDEFQLQGPTYDFDTDRVSAFTKMARANGIGLVSMASLGKKLRG VSTIEGLKNALLGYKIAKCSIQWQSRVYIIESDGSNVHIKEDKQALTPLQQTINTASL AITRLKAARAVAYASCFQSAVTTILQMAGSALVINRAVKRMFGTRTAAMALEGPEKEH NCRVHKAKEAGKGPIGHDDMIEKFGLCETEEEESEDQIQMTPNDAIPEGKNKGKTKKG RGRKNNYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGD GGIGETEMEIRHRVFYKSKSRKHQQEQRRQLGLVTGSDIRKRKPIDWTPPKNEWAEDD REVDYNEKINFEAPPTMWSRVTKFGSGWGFWVSPTVFITTTHVVPTGVKEFFGEPLTN IAIHQAGEFTQFRFSKKIRPDLTGMVLEEGCPEGTVCSVLIKRDSGELLPLAVRMGAI ASMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATK SGNTVVCAVQASEGETALEGGDKGHYAGHEIVRHGNGPALSTKTKFWRSSPEPLPPGV YEPAYLGGKDPRVQNGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTM DTPSPWSYADACQSLDKTTSSGFPHHKRKNDDWNGTTFVRELGDQAAHANNMYENGKH MKPIYTAALKDELVKPEKVYQKIKKRLLWGADLGTVIRAARAFGPFCDAIKSHVIKLP IKVGMNTIEDGPLIYAEHAKYKNHFDADYTAWDSTQNRQIMTESFSIMSRLTASPELA EVVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWIITLCALSEATGLSPD VVQAMSYFSFYGDDEIVSTDIDFDPARLTQILKEYGLRPTRPDKTEGPIQVRRNVDGL VFLRRTISRDAAGFQGRLDRASIERQIFWTRGPNHSDPSETLVPHTQRKVQLISLLGE ASLHGEKFYRKISSKVIHEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFV NDDGV" mat_peptide 5..1198 /gene="ORF1" /product="p48" mat_peptide 1199..2287 /gene="ORF1" /product="NTPase" mat_peptide 2288..2890 /gene="ORF1" /product="p22" mat_peptide 2891..3304 /gene="ORF1" /product="VPg" mat_peptide 3305..3847 /gene="ORF1" /product="Pro" mat_peptide 3848..5371 /gene="ORF1" /product="RdRp" gene 5358..6950 /gene="ORF2" CDS 5358..6950 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QJC14586.1" /translation="MMMASKDATSNVDGASGAGQLVPEANTSDPLAMDPVAGSSTAVA TAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNG WVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQSTLFPHVIADVRTLDPIEV PLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLF LVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPIGSMGISPDNVQSVQFQNGRCTLDGRL VGTTPVSLSQVGKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHINMTQ FGHSSQTQFDVDTTPETFVPHLGSIQANGVGSGNYIGVLSWISPPSHPSGSQVDLWKI PNYGSSVTEATHLAPSVFPPGFGEVLVFFMSKIPGPGAYNLPCLLPQEYISHFASEQA PTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGSSSGPQQLPINGVFVFVSWVS RFYQLKPVGTASTARGRLGLRR" gene 6950..7588 /gene="ORF3" CDS 6950..7588 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QJC14587.1" /translation="MAQAIIGAIAASTVGSALGAGIQVGGEAALQSQRYQQNLQLQEN SFKHDKEMIGYQVEASNQLLAKNLATRYSLLRAGGLSSADAARSIAGAPVTRIVDWNG VRVSAPESSATTLRSGGFMSVPIPYASKQKQIQPSGISNPNYSPSSISRTASWVESQN SLRFGNLSPYHTEALNTVWLTPPGSTASSTLSSVPRGYFNTDRLPLFANNRR" ORIGIN 1 gtgaatgatg atggcgtcta acgacgctgt tcctactgct gctagcagtg aaaatgctaa 61 caacaacagt agtatcaagt ctcgcctatt ggcgagactt aaaggtgtga gcggaacaac 121 agctccacct aattctatac aaataactaa ccaaaatatg gctttggggc taattggcca 181 ggccccagca ccaaaggcca cggccgtgga ggcccccaaa caacagaggg ataggcctcc 241 gcggactgct gccgaagtcc aacaaaactt atgttggacc gagaaaccgc aggaccaaaa 301 tgtcaaggcg tgggacgaac tagaccacac aacaaaacaa cagatacttg atgagcatgc 361 tgaatggttt gatgctggtg gtttgggccc aagcacactc cctagcaacc atgaacgtca 421 cccaaacgat gatagtggag gccaccaagt taaatggtcg gctaaagagg gtgtgaatct 481 cggaatagat gggctcacaa ctgttcccgg gcctgagtgg aacatgtgcc cgctaccccc 541 agcagaccaa aggagcacga cgcctgcagt cgagcctata ataggtgata tgatcgaatt 601 ttatgaaggt cacatctacc attatgccat ctatatcggt caaggcaaga cagtgggtgt 661 ccattctcct caagcagcat tctcaataac aagaatcacc atacaaccta tatcagcatg 721 gtggcgggtg tgctacgtcc cacagccaaa acagagactt acatatgatc aactcaaaga 781 attggagaac gaaccatggc catacgccgc ggtcaccaat aactgctttg aattctgttg 841 ccaagttatg tgcctagaag acacttggct acaaagaaag ctcatctcct ctggacgatt 901 ccaccatcca acccaggatt ggtctcggga cactccagaa ttccaacaag acagcaaact 961 tgagatggtc agagatgcag tgctagccgc gataaatggg ttagtatcgc ggccctttaa 1021 ggatctctta ggcaaactta aacctttgaa tgtgctcaac ttgctttcaa attgtgattg 1081 gacatttatg ggggtcgtgg aaatggcgat cctccttttg gagctttttg gagtgttctg 1141 gaatccaccc gatgtgtcca attttatagc ttcactccta ccagattttc atctacaggg 1201 ccctgaagac cttgctagag accttgtgcc agtggtcttg ggcggtattg gtctagccat 1261 aggatttact agggacaagg tgagtaagat gatgaagaat gctgtcgacg gactgcgggc 1321 tgcaacccag ctcgggcagt atggcctgga aatattctca ctattaaaga agtacttctt 1381 tggtggagac cagacagaga agaccctaaa agacatagaa tcagctgtca ttgacatgga 1441 ggtgttgtca tccacctcag tgacccagct cgtgagggat aaacaatctg cgcgggctta 1501 catggctatc ttggataatg aagaagaaaa agctaggaaa ctgtccgtca ggaatgctga 1561 tccacacgtg gtatcttcca ccaatgctct catatcccga atatcaatgg ctagagccgc 1621 cctagccaag gcccaggctg aaatgactag caggatgcgt cctgtagtca ttatgatgtg 1681 tggaccccct ggcataggaa agaccaaggc agcggaacac ctggccaaac ggttggccaa 1741 cgaaatacgg cctggtggta aagttggact agtcccacgt gaagctgtgg accattggga 1801 tggttatcat ggtgaggaag tgatgttatg ggatgactat gggatgacca aaatacagga 1861 ggattgcaac aaactacaag ccatagctga ctcggccccc ctgacgctca attgcgatcg 1921 aatagagaat aaagggatgc aattcgtgtc tgatgctata gtcataacca ctaatgcccc 1981 tggcccagcc cccgtggact ttgtcaatct cggacctgtt tgtcgaaggg tggacttcct 2041 tgtgtactgt acggctccag aagtggaaca cacgaggaaa gttagccctg gcgacactaa 2101 tgcactaaag gactgtttta aacctgactt ttctcacatg aaaatggaac tcgcccccca 2161 gggtggtttt gataaccaag ggaacacccc gtttggcaaa ggtgtaatga aaccaaccac 2221 cataaacagg ttattgatcc aagctgtggc attgacaatg gagaggcagg atgagttcca 2281 acttcaaggt cccacttatg actttgatac tgatagggtc tctgcattta caaagatggc 2341 ccgagctaat gggataggtc ttgtgtccat ggcctcctta ggcaagaaat tgcgtggggt 2401 ttccaccatt gaaggtttga agaatgccct tctagggtac aagatagcaa agtgcagcat 2461 acagtggcag tcaagggtgt acatcataga atcagatggt agtaatgtac acatcaagga 2521 ggacaagcaa gccctaaccc ccctacaaca aacaattaac acagcctcct tggctatcac 2581 acgacttaaa gcagctaggg ctgtggctta cgcctcatgc ttccaatctg ctgtcaccac 2641 catattacaa atggcagggt ctgcattggt catcaatcgg gcagtcaagc gcatgtttgg 2701 cacccgtacg gcagccatgg cgctagaggg accagaaaaa gaacacaatt gcagggttca 2761 taaagctaag gaggctggga agggacctat aggacacgat gacatgatag aaaagttcgg 2821 tctgtgtgag actgaagagg aagaaagtga agaccaaatc caaatgaccc caaatgatgc 2881 cattccagaa gggaagaaca aaggtaagac caagaaaggc cgcggccgca aaaacaatta 2941 caatgcattc tcccgacgtg ggctgagtga tgaggagtat gaagaataca agaagatcag 3001 ggaagagaag aatggtaatt acagcataca agaatatttg gaggatcgtc aacggtatga 3061 ggaagagttg gcagaggtcc aagcaggtgg cgacggcggt ataggggaga ctgagatgga 3121 gattcgccac agagttttct acaaatccaa aagcagaaag caccaacagg aacagcgacg 3181 tcaactcggc ctggtaactg gatcggacat caggaaacgc aagcctattg attggacccc 3241 accaaagaat gaatgggctg aagatgacag ggaagttgac tataatgaaa agatcaattt 3301 tgaggccccc ccaacaatgt ggagccgggt tacaaagttt gggtcaggat ggggcttctg 3361 ggtcagtcca accgtgttca ttaccaccac gcatgtggtg ccaactggcg tgaaggaatt 3421 ctttggcgaa cctctcacca atatagcaat ccatcaagca ggtgagttca cacagttcag 3481 gttctccaag aagatacgcc ctgacctgac gggcatggtg ttggaggaag gctgccctga 3541 aggaacagtt tgttcagtcc tgatcaaacg agactcaggc gagcttctcc cactggctgt 3601 ccgtatgggg gccattgcct ctatgaggat acagggccgc cttgttcatg gccaatcagg 3661 aatgctactg acaggagcga atgcaaaagg gatggacctt gggactatac caggggattg 3721 tggagcgcca tacgtccaca agcgcggtaa cgactgggtc gtgtgcggag tccacgctgc 3781 agccacaaaa tcaggcaaca ctgtggtctg tgctgtgcag gctagtgaag gtgagaccgc 3841 gttagaaggc ggagacaaag ggcactatgc gggtcatgaa attgtgaggc acgggaatgg 3901 cccggcattg tcaactaaaa caaaattctg gagatcctcc ccagagccat tgccccctgg 3961 tgtttatgag cctgcatacc taggaggaaa ggacccacgt gtccagaatg gtccctccct 4021 tcaacaggtt ctgcgtgacc aattgaaacc cttcgcagaa ccccgtggcc gcatgcctga 4081 acctggtttg ctggaggcgg cggtcgagac tgtaacatcc atgttagaac aaacaatgga 4141 cactccaagc ccatggtctt atgctgatgc ctgtcaatct cttgataaaa ctacaagctc 4201 aggctttccc caccacaaaa ggaagaacga tgattggaac ggtactacct ttgtcaggga 4261 gcttggtgat caggctgcac atgctaacaa catgtatgag aatggcaaac acatgaaacc 4321 catctataca gcagctttga aagatgagtt agtcaaaccc gaaaaggtct accaaaagat 4381 caaaaagcgc ctattatggg gtgccgacct cgggactgta atcagagctg cccgagcttt 4441 tggcccattc tgtgatgcta taaagtcaca tgtcatcaag ctaccaataa aggttggcat 4501 gaacacaata gaagatggcc ccctgattta tgctgagcat gccaagtaca aaaaccactt 4561 tgatgcggat tacacagcat gggactcaac gcagaataga caaatcatga cagaatcctt 4621 ctccatcatg tcacgcctta cggcctctcc tgagctggcc gaagtcgtgg cccaagattt 4681 attggcacca tctgagatgg atgtgggtga ctatgtcata agagttaagg aaggcttacc 4741 atctgggttc ccgtgtactt cccaagtgaa tagcataaat cattggataa ttaccctctg 4801 tgcactctct gaagccactg gtctgtcacc tgacgtagtg caagccatgt catacttctc 4861 attttatggc gatgatgaaa ttgtgtcaac tgacatagat tttgacccag cccgtctcac 4921 ccaaatcctt aaggaatatg gtctcaggcc aacaaggcca gataaaactg aagggccaat 4981 acaggtcagg aggaatgtgg atggattagt tttcttgcgc cgcaccatct cccgtgacgc 5041 tgcagggttc cagggtaggc tagacagggc ctcaattgaa cggcaaattt tctggacccg 5101 cgggcccaac cattcagacc cctcagagac gttagtgccg catacccaaa gaaaagtgca 5161 attgatctca ctcttaggag aggcttcact ccatggagaa aagttctata gaaagatctc 5221 cagcaaagtc atacatgaaa ttaagactgg tgggttggag atgtatgtcc cagggtggca 5281 ggccatgttc cgctggatgc gcttccatga cctcggattg tggacaggag atcgcaatct 5341 tctgcccgaa ttcgtaaatg atgatggcgt ctaaggacgc tacgtcaaac gtggatggcg 5401 ccagtggcgc tggtcagttg gtaccggagg ctaacacttc tgaccccctt gcaatggatc 5461 ctgtggcagg ttcttcgacg gcggttgcga ctgctggaca agtaaacccc attgaccctt 5521 ggataattaa taattttgtg caagctcccc aaggggagtt cacaatctct ccaaataata 5581 cccccggtga tgttttattt gatctgagtt taggtcccca tcttaatccc ttcttgctac 5641 atctgtcaca aatgtataat ggttgggttg gtaatatgag agttaggatt atgttggccg 5701 gcaatgcctt tactgcaggt aagatcatag tttcctgtat acctcctggt tttgggtcgc 5761 ataatcttac tatagcacaa tcaactctat tcccacatgt gattgctgat gttaggactt 5821 tagaccctat tgaagtacct ctggaagatg ttaggaatgt tctctttcat aataatgata 5881 ggaaccaaca aactatgcgc cttgtgtgca tgttatatac ccctctccgc actggtggtg 5941 gtacaggtga ttcctttgtt gtggcggggc gagtcatgac ctgccctagt cctgatttta 6001 atttcttgtt tttggttccc cccacagtgg agcagaaaac taggcctttc acccttccaa 6061 atttgccttt gagctctttg tccaactcac gtgctcctct tccaattggc agcatgggca 6121 tttctccaga caatgttcag agtgtacaat tccaaaatgg tcggtgtact ttggacggtc 6181 gtttggttgg caccacccca gtttcactgt cccaggttgg caagataagg ggcacttcca 6241 atggcactgt catcaacctc actgaattgg atggtacacc ttttcaccct tttgaaggcc 6301 ctgcccccat tggattccca gatctcggtg gttgtgactg gcacatcaac atgacacaat 6361 ttggccactc tagtcagaca caatttgatg tggataccac ccctgaaacc tttgtccctc 6421 atttaggttc aatccaggca aatggtgttg gtagtggcaa ttacattggt gttctcagtt 6481 ggatctcccc cccatcacac ccttctggtt cccaggtaga cctttggaag atccccaatt 6541 atgggtcgag cgttactgag gcaacacacc tggccccatc agtgttccca cccggctttg 6601 gggaagtgct ggttttcttc atgtcgaaga taccaggacc tggcgcctac aatctgccat 6661 gcctgctgcc acaagagtac atctcacact ttgcaagtga gcaagccccc actgtgggtg 6721 aggccgctct gctccattat gttgaccctg atacagggcg gaaccttggg gagttcaaag 6781 cataccccga tggatttctc acttgtgtcc ccaatggatc cagctcaggt ccacaacaat 6841 taccaatcaa tggagttttt gtttttgtct cttgggtatc taggttctat caattgaagc 6901 ctgtgggaac tgccagtacg gcaagaggta ggcttggact gcgccgataa tggcccaagc 6961 tataattggt gcaattgctg cctccacagt aggcagtgcc cttggggcag gtatacaggt 7021 tggtggtgag gcagcactcc aaagtcaaag atatcaacag aatctgcaat tgcaagagaa 7081 ttcctttaaa catgacaaag aaatgattgg atatcaagtt gaggcttcaa atcaactgct 7141 agccaagaat cttgcaacca gatactcact ccttcgtgct ggaggtctat ccagtgctga 7201 cgcagcaagg tccatcgcgg gagccccagt gacccgaatc gtggattgga atggtgtgag 7261 agtgtcagct cctgaatctt ctgcaactac attgaggtct ggtggcttta tgtcagtgcc 7321 aataccatat gcatctaagc aaaaacagat tcaaccatct ggtattagta atccaaatta 7381 ctctccttct tccatttctc gaaccgctag ttgggttgaa tcacaaaatt cattaagatt 7441 tgggaatcta tccccatacc atacagaggc ccttaacaca gtgtggttga ccccacctgg 7501 ttcaacagca tcctccacac tgtcttctgt gccacgtggt tatttcaata cagatagatt 7561 gccattgttc gcaaacaata ggcgataatg ttgtaatatg aaatgtgggc atcatattca 7621 gttaattagg tttaattaga tttgatttga tgtt //