Typing tool
|
Complete norovirus genomes
MZ229462 | GI.4 | ||
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GI.P4 |
ORF1: 5..5362 ORF2: 5346..6980 ORF3: 6980..7615LOCUS MZ229462 7652 bp RNA linear VRL 24-MAY-2021 DEFINITION Norovirus GI isolate Hu/US/2012/GI.4[P4]/CA-RGDS-1108 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MZ229462 VERSION MZ229462.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7652) AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P., Barclay,L., Vinje,J., Wadford,D.A. and Morales,C. TITLE Direct Submission JOURNAL Submitted (18-MAY-2021) Viral and Rickettsial Disease Laboratory, California Department of Public Health, 850 Marina Bay Parkway, Richmond, CA 94804, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. R10; SPades v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7652 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="CA-RGDS-1107" /isolate="Hu/US/2012/GI.4[P4]/CA-RGDS-1108" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="USA" /collection_date="04-May-2012" /note="Amplicon sequencing: first 35 nt does represent primer sequence; genotype: GI.4[P4]" gene 5..5362 /gene="ORF1" CDS 5..5362 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QVL22419.1" /translation="MMMASNDAIAATAASAENTSDNSDSIKNRFFTKLKNLGSNNKPI KIENTHMALNLISRGPSPIPQDKPPKDQRDKPPRNVAETQQAMGWIDPPMDQNLPTWE ELSQTEKQEILKNNSNWFDAGGLAPASIPTGYVKNTEQQPPDHQVKWSASNGVDLGVG NLTTVPGPAWNLCPMPPIDQRNNGPAKEPLIGDMIEFYEGHIYHYAIYIGQGKTVGVH SPQAAFSIARITIHPIAAWWRVCYVPTPDQRLNYDQLKELENEPWPYAAVTNNCYEFC CRILNLQDSWLERRLVTSGRFNHPAQDWSRDTPDFQQDSKLEIVRDAVLAAINGLVSK PFKDLLNKLKPLNVLNLLSNCDWTFMGVVETIILLMELFGIFWNPPDVSSFIASLLPD MHLQGPEDLAKDLIPLVLGGVGLAIGFTKDKVTKVMKSAVEGLRAATQLGQYGLEIFA VLKKYFFGGDQTEKTLKDIETAVIDMEVISTTAVTQLVRDKQAARTYMNILDAEEEKA RKLSVRHADPHVVSTTNALISRISLARSALAKAQAEMTNRVKPVVIMMCGPPGIGKTK AAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIADDCNKLQA IADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTA PDVEQTRRTNPGDTGALKDCFKSDFSHLKMELAPQGGFDNQGNTPFGKGTMRPTTLNR LLIQAVALTMERQDEFQMQGQVYDFDADRISAFTSLARANGLGLISMASLGKKLRGVD SVHGLKNALSGYTITPCSIKWQARVYDIESDGTNVRIKENTSAQTQRQQSIDTAALAL TRLKAARAAAYAACIQSAITTILQMAGSAIVINRAVKRMFGAHSSTIALEGPPREHRC RAHLAKAAGGGPIGHDDVIDKYGLCETEEEGTSEEINVELPTATSEGKNKGKTKKGRG RRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGG IGETEMEIRHKIFYKSKKGRQNERRQLGLVTGSDIRKRKPIDWTPPKNDWADDNREVD YNEKLSFEAPPTLWSRVVRFGSGWGFWVSPTVFITTTHVIPSGAREFFGEPIESIAIH RAGEFTQFRFSHKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMK IQGRLVHGQSGMLLTGANAKGMDLGTLPGDCGAPYVYKRNNDWVVCGVHAAATKSGNT VVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSTKTKFWRSTPEPLPPGVYEPA YLGGRDPRVKGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPT PWSFSDACQSLDKTTSSGHPYHKRKNDDWNGTSFVGELGEQAAHANNMYELGKSMKPL YTAALKDELVKPEKVYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKPHVIKLPIKVG MNSIEDGPMIYAEHAKYKNHFDADYSAWDSTQNRQIMTESFAIMCRLTASPELASVVA KDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCAMSEVTGLSPDVIQS QSYFSFYGDDEIVSTDIDFDPARLTQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLR RTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPSETLIPHPQRKVQLISLLGEASLH GEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDG V" mat_peptide 5..1192 /gene="ORF1" /product="p48" mat_peptide 1193..2281 /gene="ORF1" /product="NTPase" mat_peptide 2282..2884 /gene="ORF1" /product="p22" mat_peptide 2885..3292 /gene="ORF1" /product="VPg" mat_peptide 3293..3835 /gene="ORF1" /product="Pro" mat_peptide 3836..5359 /gene="ORF1" /product="RdRp" gene 5346..6980 /gene="ORF2" CDS 5346..6980 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QVL22420.1" /translation="MMMASNDAIPSADGATGAGQLVPEVNTADPIPIDPVAGSSTALA TAGQVNLIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLSQMYNG WVGNMRVRVVLAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLDPVEV PLEDVRNVLYHNNDTQPTMRLLCMLYTPLRTGGASGGTDSFVVAGRVLTCPGPDFNFL FLVPPTVEQKTRPFTVPNIPLKYLSNSRIPNPIEGMSLSPDQTQNVQFQNGRCTIDGQ PLGTTPVSVSQLCKFRGRITSGQRVLNLTELDGSPFMAFAAPAPAGFPDLGSCDWHIE MSKIPNSSTQNNPIVVNSVKPNSQQFVPHLSSITLDDNVSSGGDYIGTLQWTSPPSDS GGANTNFWKIPDYGSSLAEASQLAPAVYPPGFNEVIVYFMASIPGPNQSGSPNLVPCL LPQEYITHFISEQAPIQGEAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNSSSTGPQQ LPLDGVFVFASWVSRFYQLKPVGTAGPARGRLGVRR" gene 6980..7615 /gene="ORF3" CDS 6980..7615 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QVL22421.1" /translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQAQRYQQDLTLQQN SFNHDKEMLGYQVEMSNKLLAKNLNTRYSLLQAGGLSPSDAARAVAGAPVTRLVDWGG VRVAAPQSSATTLRSGNFMAVPLPAQPKQKPLASEGYSNPAYDPMQRTASWVQSQNSS RNWSPYHRQALQTVWVTPPGSTSSSSISSVSTAPRGYFNTDRLPLFANLRR" ORIGIN 1 agtaatgatg atggcgtcta acgacgctat tgcagctact gctgctagtg ctgaaaacac 61 tagtgacaat agtgattcta taaagaaccg tttcttcaca aagttgaaga atttaggttc 121 taacaataag cctataaaaa ttgagaacac ccacatggcc cttaacttaa ttagtagggg 181 tccatctcca attccacaag ataagccccc taaagaccag agggataaac ccccaaggaa 241 tgtggctgag acccagcagg caatgggatg gattgacccc cccatggacc agaatctacc 301 aacctgggag gagttgagcc aaacagaaaa acaagagata ctcaagaaca attcaaactg 361 gtttgatgct ggtggtttgg caccagctag catccctact ggttatgtga agaatacaga 421 gcaacaaccc cctgaccacc aagtcaagtg gagtgccagt aatggggttg atcttggggt 481 aggcaatcta acaactgtgc caggtccagc atggaatctg tgccccatgc caccaattga 541 ccaacgcaat aatggtccag caaaggaacc acttattggt gacatgatag aattctatga 601 ggggcacatt taccattatg caatatacat tggccaagga aaaactgttg gggttcactc 661 acctcaagcg gccttttcaa tagccaggat aactatacac cccatcgccg cttggtggag 721 ggtttgttat gtgccaacac ctgatcagag gttaaattat gaccaactca aagaacttga 781 gaatgagcca tggccatatg ctgcagttac caataattgt tatgagttct gctgcaggat 841 tctcaatctt caagactctt ggttggaacg tcgcttggtc acatctggcc gtttcaacca 901 cccagcacaa gactggtcca gggacacgcc tgacttccag caagatagca agttagaaat 961 agtcagggat gccgtgcttg ctgctatcaa tggcttggta tcaaaacctt tcaaagacct 1021 cctaaacaaa cttaagccac tcaacgtgct caacctactc tctaactgtg attggacatt 1081 tatgggggtg gttgagacga taatactact tatggaactg tttgggatct tctggaaccc 1141 ccctgatgtg tccagcttca tagcctcatt attgcctgat atgcacttac aaggaccgga 1201 agatctggct aaagacttga taccattggt attggggggt gtggggcttg caattgggtt 1261 caccaaggac aaagttacaa aggtcatgaa gagtgctgtt gaagggctca gggcagccac 1321 acaattaggc cagtatggcc tggagatatt tgcagtttta aagaaatatt tctttggtgg 1381 agaccaaaca gagaagacct taaaagatat tgagacagcc gtaattgaca tggaggttat 1441 ctcaacaact gctgttactc aactagtcag ggacaaacag gctgcccgga cctacatgaa 1501 catcttagat gctgaagaag agaaggcaag aaagctttca gttagacatg cagaccccca 1561 tgttgtgtcc acgaccaatg ccctgatctc acgtatttca ttggctcgct ccgcacttgc 1621 taaggcacaa gctgagatga ctaatagggt taaaccagta gtgataatga tgtgtggtcc 1681 cccaggtata ggcaagacaa aggcagccga gtaccttgct aagagattgg ccaatgagat 1741 acggcctgga ggaaaagtgg gcctcgtgcc aagggaggct gtggatcact gggatggata 1801 tcatggtgaa gaggttatgc tatgggatga ctatggtatg tctaagatag ctgatgactg 1861 taataaatta caggctatag ccgacacagc tccactcact ttgaactgtg accgaattga 1921 gaagaaaggg ttacaatttg tctctgatgc catagtgata acaacaaatg ccccaggacc 1981 agccccagtt gactttgtca atcttggccc ggtgtgtcgg cgggtagatt tcctggttta 2041 ctgcactgca cctgacgttg aacaaacacg tcgcactaac cctggagaca ccggagccct 2101 taaggattgc tttaaaagtg atttctctca tctaaaaatg gagttggctc cacagggcgg 2161 attcgacaat caaggaaaca ctccatttgg taaagggacc atgcggccta ccacattaaa 2221 ccgcctcctt atacaggccg tggcactaac catggagcgt caggatgagt tccagatgca 2281 aggtcaagtg tacgattttg atgctgacag gatctctgcc ttcaccagtt tagcaagagc 2341 caatggtttg ggtctcatta gcatggcctc tctaggaaag aaattaaggg gtgtggactc 2401 ggttcatggc ctcaagaatg cactatcagg ctataccata accccctgta gcataaagtg 2461 gcaagctagg gtatatgaca ttgaatcaga tggtaccaat gtacgcataa aggaaaacac 2521 ctcagcccag acacaacgcc agcaatcaat tgacacagca gccctagcac ttaccagact 2581 taaagcagca cgggcagcag catatgcagc ttgcatacaa agcgcaataa caactatcct 2641 gcagatggct gggtcagcca tcgttataaa tcgtgctgtt aaaaggatgt tcggtgcaca 2701 ctcgagcact atagcccttg aaggaccccc aagagaacat cggtgcaggg ctcacttagc 2761 taaggctgca ggtggtgggc caataggcca tgatgatgtc attgataagt atggcctatg 2821 tgagactgaa gaagagggta ccagtgagga gataaatgtg gagctaccca ccgccacttc 2881 cgaaggtaaa aacaaaggaa agaccaagaa aggaaggggc agaagggcca actacaatgc 2941 tttttcacgg cgcggcctga gtgatgagga gtatgaggag tataagaaga tcagggaaga 3001 aaagaatggc aactacagca ttcaggagta ccttgaagac aggcaacgct atgaagaaga 3061 gctcgcagaa gtgcaagctg gtggtgatgg aggcattggt gagacagaaa tggagatccg 3121 acataaaatc ttttacaagt ccaaaaaggg ccgccagaat gaacgccgcc aattagggct 3181 agtcactggt agtgatatca gaaagagaaa accaattgat tggacccccc ccaaaaacga 3241 ttgggcagat gataataggg aagtggacta caatgaaaaa ctcagttttg aagccccacc 3301 aaccctctgg agccgggttg tgagatttgg ctctgggtgg ggcttttggg tgagcccgac 3361 tgtttttatc accaccactc acgtcatacc atctggggcg cgtgaattct ttggggaacc 3421 cattgagtcc attgcaatcc atcgtgctgg tgaattcaca caattcagat tttcacacaa 3481 ggtccgccca gatctgactg gaatggtgct ggaggaaggc tgtcctgagg gtgtcgtgtg 3541 ttctattctc attaaacgtg actctggtga gctgctaccc cttgctgtcc gaatgggtgc 3601 tatagcgtcc atgaagattc agggaaggct agtgcatggt cagtctggga tgctgcttac 3661 tggagctaac gctaagggga tggatttagg taccctacca ggtgattgtg gtgcccctta 3721 tgtgtacaaa aggaataacg actgggtggt ttgtggcgta catgcagccg ctacaaagtc 3781 aggcaacact gtggtgtgtg ctgtccaggc tggagagggt gaaaccaccc tagagggtgg 3841 tgacaaaggc cactatgcag gccatgaaat aatcaagcat agtaagggcc cagctctatc 3901 cactaagacc aagttttgga ggtcaacccc tgaaccattg ccgccaggtg tttatgaacc 3961 agcatacctt gggggtcgtg atccaagggt aaaaggtggg ccctctctgc aacaggtctt 4021 gcgtgatcag ctgaaaccat ttgctgagcc gcgaggtcga atgccagagc ctggtctact 4081 tgaggcagct gttgaaactg tcacgtccat gcttgaacaa acaatggata caccaacccc 4141 ctggtctttc tctgatgcat gtcaatcact tgacaaaacc acaagttcgg gacacccata 4201 tcataagagg aagaatgatg attggaatgg aacttcattt gttggagagc ttggagaaca 4261 ggcagcacat gccaacaaca tgtacgaatt aggcaaatct atgaaaccac tatacactgc 4321 agccttaaaa gacgagttag tcaagcccga gaaagtttac caaaagatca agaagaggct 4381 tctctggggt gctgatctct caacagttat aagagctgcc agggcctttg gaccattttg 4441 tgatgctata aagccccatg tcattaaact ccccatcaaa gtcggtatga actccataga 4501 ggatggccca atgatttatg cagagcatgc aaaatataag aaccattttg atgcagatta 4561 ttcggcctgg gattccacgc aaaatagaca gattatgact gaatccttcg caatcatgtg 4621 ccgcctcacg gcatcaccgg aattggcttc tgttgtagct aaagatctac tagcgccttc 4681 agaaatggat gttggtgatt acatcatccg tgtaaaagaa ggcttgccat caggattccc 4741 ttgcacatca caggtgaaca gtataaacca ctggttgatc acactgtgtg ccatgtctga 4801 agtcacgggt ttgtcacccg atgtcataca atcccaatct tacttttctt tctatggtga 4861 tgatgagata gtctcaacag acattgactt tgaccccgct cgcctcaccc aagtgcttaa 4921 ggaatatggg ttgagaccca ccagaccaga caagtcagaa gggcccatca tactcagaag 4981 acaggtggat ggtcttgttt tcttaaggag gacaatttcc aaagatgctg caggctttca 5041 gggaaggcta gataggggct caattgaaag acagctgtgg tggacccggg gccctaacca 5101 tgatgacccc agtgaaactc tgatcccaca cccccagagg aaagttcagc ttatatccct 5161 tcttggagag gcctccctcc atggtgagaa gttttacagg aaaatctcca gtaaagtcat 5221 acaggagata aagaccggtg gcttagaaat gtatgtgcca ggttggcagg ccatgttccg 5281 ctggatgcgc ttccatgatc tcggattatg gacaggagat cgcaatctcc tgcccgaatt 5341 cgtgaatgat gatggcgtct aacgacgcta ttccaagcgc agatggcgcc actggcgccg 5401 gccagctggt accggaggtt aatacagctg accctatacc cattgaccct gtggctggct 5461 cctctacagc ccttgccact gcgggccaag ttaatttgat tgatccctgg ataatcaata 5521 attttgtgca agcccctcag ggcgagttca caatatcccc aaataatacc cccggtgatg 5581 tgctatttga tttgcagtta gggcctcatc tgaatccttt cctttcccat ctttctcaga 5641 tgtacaatgg ctgggtgggt aacatgcgag tacgcgttgt tttggctggt aatgctttta 5701 cagctggaaa ggttataatt tgttgtgttc cccctggctt tcaatctcgc actctttcca 5761 tagctcaggc tactctattt ccccatgtta ttgctgatgt taggaccctt gatcctgtag 5821 aagtgcccct tgaagatgtt aggaatgtat tgtatcacaa taatgacact caacctacca 5881 tgcgcctcct ttgcatgttg tacacccctc ttcgaactgg gggggcgtct ggtgggactg 5941 attcttttgt ggtagctggg cgtgtgctca cttgcccagg ccctgacttt aacttcttat 6001 tcctagttcc tcctacagtc gagcaaaaga ctcgcccttt tactgtgcct aatatccctt 6061 tgaagtatct gtctaattct aggatcccaa accctattga gggtatgtct ttgtcacctg 6121 accagaccca aaatgttcaa ttccagaatg gtaggtgtac aattgatggt cagcccctcg 6181 ggaccacacc tgtctcagtt agccagttat gtaagtttag gggtaggatt acatctggac 6241 agagggtgct caatttgaca gaattggatg gttcaccttt tatggccttt gccgctcccg 6301 cccccgcggg ctttccagat cttggatctt gtgattggca tattgaaatg agtaaaattc 6361 caaactccag cacccagaac aatccaatag tagttaattc tgtcaaaccc aatagtcaac 6421 agtttgtccc gcatttgtca agtatcaccc ttgatgataa tgtttctagt gggggtgact 6481 atattggcac tttacaatgg acctctcctc cttctgattc tggcggagcc aacacaaatt 6541 tttggaagat tcctgactat gggtctagtc tagcagaagc ctcacagctg gcccccgctg 6601 tctatccacc tggtttcaat gaggtgattg tgtactttat ggcatctata cctggcccca 6661 atcaatctgg ttcccccaat ttggtgccat gccttctccc ccaggaatat ataacacact 6721 ttatcagtga gcaggccccc attcagggtg aggctgcctt actccattat gtagacccag 6781 acaccaaccg taatttaggt gagttcaagt tgtatcctgg tggttatctg acttgtgttc 6841 ctaatagttc tagtacagga cctcaacagc ttcctcttga tggtgtgttt gtctttgctt 6901 cttgggtttc tagattttat caattaaagc ctgtgggaac agccggaccg gctagaggta 6961 ggcttggtgt ccgcagatga tggcccaagc cattatagga gccattgctg cctccgcggc 7021 tggcagtgcc ctgggtgctg gcatccaggc tggtgctgaa gctgcgttac aggcacagag 7081 atatcaacaa gatttgactt tacagcaaaa ttctttcaat catgataagg agatgttagg 7141 ttatcaagta gaaatgtcta ataagttatt agctaaaaat ctcaataccc gctattctct 7201 tctccaggcg ggtggtctct ccccctctga tgcggctagg gctgtggccg gggcccctgt 7261 cactaggttg gttgactggg gtggagttcg tgttgcggca cctcaatcat ctgccaccac 7321 actgagatct ggcaatttta tggcagtgcc actcccagcc cagccaaagc agaaacctct 7381 tgctagtgag ggatattcca atccagctta tgaccccatg cagcgtacag cttcttgggt 7441 tcaatcccaa aattccagcc ggaattggtc cccataccac aggcaagctc tccaaactgt 7501 gtgggtgacc ccccctggtt ccacctcttc ttcttctatt tcttctgttt ctactgcccc 7561 tcgagggtat tttaatacag atagattgcc tctgttcgca aacttgaggc gctaatgttg 7621 taataagatt agtgagcatc ctattcaaat tt //