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Typing tool
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Complete norovirus genomes
OP690427 | GII.12 | ![]() |
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GII.P16 |
ORF1: 5..5104 ORF2: 5085..6692 ORF3: 6692..7471LOCUS OP690427 7527 bp RNA linear VRL 25-OCT-2022 DEFINITION Norovirus GII isolate Hu/US/2021/GII.12[P16]/CA-RGDS-1154, complete genome. ACCESSION OP690427 VERSION OP690427.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7527) AUTHORS Pan,C.-Y., Hatada,A., Morales,C., Montmayeur,A.M., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (20-OCT-2022) 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..7527 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CA0RGDS-1154" /isolate="Hu/US/2021/GII.12[P16]/CA-RGDS-1154" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /geo_loc_name="USA: CA" /collection_date="Apr-2021" /note="Amplicon sequencing:first 35 nt does represent primer sequence; genotype: GII.12[P16]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="UYL33176.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDKPQRPPRPPTPELVKRIPSPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMAKVELTPLSLYWRVVYTPQYLISPDTLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAIIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDV EKAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIVYGGSTYDLESDGKGKVLVEKVKNASVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKPEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPEDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPTGITEAFGVPIKQVQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFIEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYNYHYDADYSRWD STQQRAVLAAALEVMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..1000 /gene="ORF1" /product="p48" mat_peptide 1001..2098 /gene="ORF1" /product="NTPase" mat_peptide 2099..2629 /gene="ORF1" /product="p22" mat_peptide 2630..3028 /gene="ORF1" /product="VPg" mat_peptide 3029..3571 /gene="ORF1" /product="Pro" mat_peptide 3572..5101 /gene="ORF1" /product="RdRp" gene 5085..6692 /gene="ORF2" CDS 5085..6692 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="UYL33177.1" /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKLVFAAVPPHFPLENISPGQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQQNEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP TVESKTKPFTLPVLTIGELTNSRFPVPIDELYTSPNESLVVQPQNGRCALDGELQGTT QLLPTAICSFRGRINQKVSGENHVWNMQVTNINGTPFDPTEDVPAPLGTPDFSGKLFG VLSQRDHDNACRSHDAVIATDSTKFTPKLGAVQIGTWEQDDVHINQPTKFTPVGLFEN EGFNQWTLPNYSGALTLNMGLAPPVAPTFPGEQILFFRSHIPLKGGVADPVIDCLLPQ EWIQHLYQESAPSQTDVALIRFTNPDTGRVLFEAKLHRSGYITVANTGSRPIVVPANG YFRFDSWVNQFYSLAPMGTGNGRRRMQ" gene 6692..7471 /gene="ORF3" CDS 6692..7471 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="UYL33178.1" /translation="MAGAFIAGLAGDIVTNSIGSLVNAGANAINQKVDFENNKQLQQA SFNHDKEMLQAQIQATKQLQADMIAIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG TRHWAPGATKTTAFSGGFTSASHARTVDLTKKTSATPAPMPVSRPSSIASTVSTRSTL ISGSSNSPSSARSSSSVSSQPTSSSSRTSEWVRSQNRALEPYMNGALRTAYVTPPSSR ASSNGTVSTVPKEVLDSWSSAFNTHRQPLFAHLRRRGESQA" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga 61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc 121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaggc ccccaagacc 181 accaactccc gagttggtca agaggatacc ctctcctcca cctaatggtg aagaagaaga 241 agaaccagtt attaggtatg aggttaagag tgggatctcc ggcctgcccg agctcacaac 301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga 361 aaacagggaa gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat 421 ataccactac ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccataagt atggctaaag tggagctgac gccgctgtca ttgtattggc gtgtggtgta 541 cactccccaa tacctcatct cccctgacac tctcaggagg ctcaacggag aggcattccc 601 ttacaccgcc tttgacaaca actgctatgc cttttgctgc tgggtattag acctcaacga 661 ttcatggctt agcaggagaa tggtacaaag aacaacgggc ttcttcagac cttaccaaga 721 gtggaacaga aagcccctac ctaccatgga tgactccaaa attaagaagg tagcaaatat 781 attcctatgt tcattgtcca cattgttcac tagacccata aaagacctca taggaaaaat 841 taaaccatta aacatattga atatcctggc gacgtgtgac tggacgtttg ccggaatagt 901 ggagtctcta atactatttg ctgaactctt cggagttttc tggacacccc cagatgtgtc 961 tgctataatc gctcccttac ttggggatta cgagttgcaa gggccagaag acctcgccgt 1021 tgaactcgta cctgtggtga tgggggggat tggtttggtg ttgggattca ccaaagagaa 1081 aattggcaaa atgttgtctt cggcagcatc aacactcagg gcttgcaaag atcttggtgc 1141 atatggcttg gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc 1201 taatgagcta gccatggtga gggccataga ggacgctgta ctagatcttg aggcaataga 1261 aaataaccac atgacagccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac 1321 actggacatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgccc tactggctcg aatagcagcg gccaggtcat tagtccacag 1441 ggccaaggaa gagctatcta gcaggatgag accagtagtt gttatgatat ctggcaaacc 1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac 1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatataa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgccct 1681 tcgcatacaa gaattggctg atacgtgtcc cctcacctta aattgtgaca gaattgaaaa 1741 taaaggaaaa gtttttgata gtgaagtcat aataatcaca acaaaccttg ccaacccagc 1801 cccgcttgat tatgtcaact ttgaggcctg ctccaggaga attgatttcc tggtgtacgc 1861 tgaggcacca gatgtggaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa 1921 ggacgccttc aaatcggact tttcacacat caagcttcag cttgcgcctc agggcggctt 1981 tgacaaaaac ggcaacaccc cacatgggaa aggggtgatg aagaccctca ctaccggttc 2041 tctgattgcc cgcgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg 2101 tcctacaatc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc 2161 tgcagaaaac aagtatggac tggtggacac catgaaagtc ggcaatcaat taaaaggagt 2221 gaaaaccatg gaagagctca aacaagcaat caggaatgtg accatcaaga ggtgccggat 2281 cgtctacggt ggctccacat atgaccttga atctgatggc aagggcaaag ttttggtgga 2341 aaaggttaag aacgcctctg tgcagaccaa caacgagttg gccggggccc tgcaccatct 2401 caaacacgcc cgaatcaggt actatgtcaa gtgtgtgcaa gaagcagtct actctatcat 2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga 2521 actctggtcg aagccacaat tggatcaaaa tgaatcagag actaaggaag aggcccccaa 2581 gccagaagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg 2641 caaaaataaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga 2701 tgaggagtac gacgagtaca agaggataag agaggagaga aatgggaagt actctataga 2761 ggaatatctt caagacagag acaggtacta tgaagaactc gccattgcca aggccacgga 2821 agaagacttc tgtgaagagg aggagataaa aatccgtcag agaattttcc gtcctaccag 2881 gaaacaaagg aaggaagaga gggccacatt agggctagta acaggttcag aaatcagaaa 2941 aagaaacccc gaagacttca aacctaaagg gaagctgtgg gccgatgaca acagaagtgt 3001 tgactacaat gagaaactgg attttgaggc ccccccaagc atatggtcta ggattgtgag 3061 ctttggttct ggctggggtt tctgggtgtc accaagcctg ttcataacat caactcatgt 3121 aatccccaca ggcataacag aagcatttgg agtccccatc aaacaagttc aaatccacaa 3181 atcgggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat 3241 gatcttggaa gaaggtgcgc ctgagggcac cgtggcaact gtgctcatca aacgccccac 3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg 3361 ccgcatggtt ggcggacaga tgggcatgtt gctcactgga tcaaatgcta aaggaatgga 3421 tttggggaca actcctggag actgtggctg cccttacatc tataaaaggg gcaatgacta 3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac 3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catattgtgg 3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc actaaaacca aattttggag 3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gcggccgtga 3721 cccgcgtgtc aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt 3781 cattgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat 3841 catcaatgtc ctcgagcaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg tcatccctat cacgttcgaa agaatgaatt 3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt 4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgatttgtc 4141 caccatgatc cggtgtgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg 4201 catatcactc ccagtccgag ttggcatgaa catgaatgaa gatggcccaa taatatttga 4261 gaaacactcc agatacaact atcactatga tgcagactac tctcgttggg attcaacaca 4321 acagagggca gtactggcag cagccttgga agtcatggtc agattctctg cagaaccaca 4381 attggcacaa atagtcgctg aggacctact ggcccctagt gtagtagatg taggagattt 4441 taaaatcaca ataaatgagg ggctcccctc tggtgtgcca tgcacttctc aatggaactc 4501 catcgcacac tggttgctaa ctctctgtgc cttgtctgaa gtcactaagc tgtcacctga 4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga 4621 cataaaattg gaccccgaac agttgaccgc caaattgaag gagtacggcc taaaaccaac 4681 ccgcccagac aaaaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt 4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc 4801 aattctgaga cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat 4861 gataccccat tctcagaggc ccatacagct catggcacta cttggtgaag cctctcttca 4921 cggaccctct ttctacagta aaatcagtaa attggtcata actgaactca aagaaggtgg 4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctaat gatggtgcag ccggtctcgt accagaggtc aacaatgaga 5161 ccatggcact tgaaccggtg gctggggctt cgatagccgc cccactcacc ggccaaaata 5221 atgttataga cccctggatt agattaaatt ttgtgcaggc ccctaatgga gagtttacag 5281 tctcaccccg caactcgcct ggggaagtcc tactcaattt ggaattaggt cccgaattga 5341 atccatattt ggcacacctt tctagaatgt ataatggtta tgcaggtgga gttgaggtac 5401 aagtgctact ggctgggaac gcgttcacgg ctggaaaatt ggtatttgct gcagttcccc 5461 ctcattttcc attagagaat ataagccctg gtcaaataac catgttccct catgtaatta 5521 ttgatgttag gactttggaa ccagttttat tgcctttacc agatgtcaga aataatttct 5581 tccattacaa tcagcaaaat gagccgagga tgaggcttgt tgcaatgctt tatacccctc 5641 ttagatctaa tggttctggt gatgatgtgt tcaccgtttc ctgtagggtg ctcactagac 5701 cctctcctga ttttgatttt aattatttgg tgcccccaac agttgaatct aaaacaaaac 5761 cattcacact ccctgtcttg accattgggg agttaaccaa ttccaggttc cccgtgccca 5821 tagatgaact ctacactagc cccaatgaga gtttggtggt tcaaccccag aatgggaggt 5881 gcgcgctgga tggggagttg cagggcacca cccagctcct ccccacggcg atttgctcat 5941 ttaggggtcg gatcaatcag aaagtgagtg gagagaatca tgtttggaac atgcaagtca 6001 ccaacattaa cggaacccct tttgatccaa cagaggatgt tccagcccct ctgggcacgc 6061 cagacttttc tggcaagctc tttggtgtcc taagccagag ggaccatgat aatgcctgca 6121 ggagtcatga tgctgtgatt gcaactgatt ctaccaaatt taccccaaaa ttgggtgctg 6181 tgcaaattgg cacatgggaa caagatgatg tacatatcaa ccaacccacc aagtttactc 6241 cagttggatt gtttgagaat gaaggtttta atcaatggac acttcctaat tattctggag 6301 ctttaacact caatatgggg ttggcccccc ctgtggcccc cacattccct ggtgagcaaa 6361 ttctcttctt caggtcccac attcccctta aaggaggtgt tgcagaccca gttattgatt 6421 gtcttctacc ccaagaatgg atccaacacc tttatcagga gtcagcccct tcacaaacag 6481 atgtggcact gattagattc acaaatccag acacagggcg tgtcctattt gaagcaaaat 6541 tgcacaggag tggctacatc acagtggcca acactggcag tagaccaatt gtggtgccag 6601 ctaatggtta tttcaggttt gactcttggg ttaatcagtt ttactctctt gcccccatgg 6661 gaactgggaa tgggcgcaga aggatgcagt aatggccgga gctttcatag cagggcttgc 6721 cggtgacata gtcaccaata gcattggctc actcgtgaac gctggggcca atgcaataaa 6781 ccagaaagta gactttgaaa acaacaagca actacaacag gcatctttca accatgacaa 6841 agagatgttg caagctcaaa ttcaggccac taaacagcta caggctgaca tgattgcaat 6901 cagacaaggg gtgttgaccg caggcggctt ctcccctact gatgcagcaa gaggtgcagt 6961 caatgcgccc atgacccaag tcttggattg gaatgggacc agacattggg cccccggagc 7021 cacgaaaaca actgctttct ccggtgggtt taccagtgcc tctcatgcca ggaccgttga 7081 cctgaccaag aagacatcag ccacaccagc ccctatgcct gtttctaggc ctagttctat 7141 tgcttctact gtttctactc gctctacttt gattagtggg tcttctaatt ctccttcttc 7201 agctaggagc tcttctagtg tttcttccca acccacttcc tcatcctccc gaactagtga 7261 gtgggtacgc agtcaaaata gggcgctgga gccttatatg aatggggcgc tgcgtacagc 7321 ctacgtgacg cctccatcca gtagggcttc tagcaatggc acagtctcaa ccgtgccaaa 7381 agaggttttg gactcctggt cgtctgcgtt taatacacac agacagccgc tgtttgctca 7441 tctccgtcgg agaggggagt cacaagctta gtgaaaagat agtcttttct ttctttcctt 7501 tgaaaatttc tgtcttttaa aaaaaaa //