Typing tool
|
Complete norovirus genomes
OR687156 | GII.17 | ||
---|---|---|---|
GII.P31 |
ORF1: 1..5094 ORF2: 5075..6697 ORF3: 6697..7476LOCUS OR687156 7476 bp RNA linear VRL 23-OCT-2023 DEFINITION Norovirus GII isolate Hu/US/2022/GII.17[P31]/CA-RGDS-1181 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION OR687156 VERSION OR687156.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7476) AUTHORS Pan,C.-Y., Hatada,A., Padilla,T., Wright,C. and Morales,C. TITLE Direct Submission JOURNAL Submitted (17-OCT-2023) 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 Prime v. 2022.0.2; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7476 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/US/2022/GII.17[P31]/CA-RGDS-1181" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA: CA" /collection_date="Oct-2022" /note="genotype: GII.17[P31]" gene <1..5094 /gene="ORF1" CDS <1..5094 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WOD45360.1" /translation="MASNDASAAAAANSNNDTVKSSSDGVLSSMAVTFKRALGARPKQ PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDEPVVSYSAKDGVSGLPELTTVRQPDEV NTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL SRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK PLNILNILATCDWTFAGVVESMILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVIKWFFPKK EEENELAMVRSIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKARKLSTKS ASPDIVGTINALLARIAAARSLVHRAKEELSSRLRPVVVMISGKPGIGKTHLARELAK KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVERAK RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPD LKQALKNVAIRKCQIVYGGSTYTLEADGKGSVKIDKVQSAAVQTNNEIAGALHHLRCA RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETASKDGCPK PKEDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTG SEIRKRNPDDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL FITSTHVIPQGAKEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVRGGPSLQQVMRDQLKPFTEPRG KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFSQACASLDKTTSSGHPHHMRKNDCWNG ESFTGRLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLAT MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST QQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH EDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..984 /gene="ORF1" /product="p48" mat_peptide 985..2082 /gene="ORF1" /product="NTPase" mat_peptide 2083..2619 /gene="ORF1" /product="p22" mat_peptide 2620..3018 /gene="ORF1" /product="VPg" mat_peptide 3019..3561 /gene="ORF1" /product="Pro" mat_peptide 3562..5091 /gene="ORF1" /product="RdRp" gene 5075..6697 /gene="ORF2" CDS 5075..6697 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WOD45361.1" /translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNQPANRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTISELTNSRFPVPVDSLFTAQNNNLNVQCQNGRCTLDGELQGTT QLQPSGICAFRGKITADVRPNHDDRWHMQLTNLNGTPFDPTEDVPAPLGTPDFTGLLF GVASQRNVQPNPNTTRAHEAVISTTSSQFVPKLGSINFGSTSEDFIVGQPTKFTPVGI KIEDGHAFDQWTLPRYSGHLTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGISDGVID CLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHSGDYPLV VPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6697..7476 /gene="ORF3" CDS 6697..7476 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WOD45362.1" /translation="MAGAFIAGLAGDMLTNTVGSLANAGANAITQKIDFENNKQLQSA SFQHDKDMLQAQVAATKQLQADMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSAPVHIPTKMIQPTPVKRTQPLSSSSGSVYSLSTQSTAL TKPSSGSSSVSSASTQSTKLSSVSSMDRTANWVNQQRNLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTPAFNTRRQPLFAHLRVRGESRV" ORIGIN 1 atggcgtcta acgacgcttc cgctgccgct gctgccaaca gcaacaacga caccgtaaaa 61 tcttcaagtg acggtgtgct ctctagcatg gctgtcactt ttaaacgggc cctcggggcg 121 cggcctaaac agccgccccc gaaggaaata ccacctagac ccccacggcc acccacacca 181 gagttggtca aaaagatccc tcctccccca cccaacggag aggatgaacc agtggtttcc 241 tatagcgcca aagatggtgt ttccgggctg cctgagctca ccactgtcag acaaccggat 301 gaagttaaca cggcgttcag tgttcccccg ctcaaccaaa gggagaacag ggacgccaag 361 gaaccattaa ctggaacaat tattgagatg tgggacggag aaatctacca ttacggcctg 421 tacgtggaac gaggtcttat acttggtgtg cataagccac cggcggccat cagccttgcc 481 aaagtcgagc taacaccact ctctctgttc tggagacctg tatacacacc ccagtacctc 541 atctctccag acactctcag gagactacat ggggagtcat tcccctacac tgcatttgat 601 aacaattgct atgccttctg ttgttgggta ttagacctaa acgactcatg gctaagcagg 661 agaatgattc agagaacaac aggtttcttc agaccatacc aggaatggaa caggaaaccc 721 ctccccacta tggatgattc caaattgaag aaggtggcca acatattctt gtgtactttg 781 tcttcactat tcactaggcc cattaaggac ataataggaa agcttaaacc tcttaacatc 841 cttaatattc tggctacatg tgattggacc ttcgcaggcg tagtggaatc catgatactc 901 ttggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc 961 ttactaggag actatgaact gcaaggacct gaggaccttg cagtagaact ggtcccagtg 1021 gtaatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta 1081 tcatccgctg catctacttt gagagcttgt aaagaccttg gtgcatacgg actggaaatt 1141 ttaaaattag tcataaaatg gttcttccca aagaaagagg aagaaaatga gttagctatg 1201 gtgagatcca tcgaggatgc agtgttagac ctcgaagcaa ttgaaaacaa tcacttgacc 1261 accctgctca aagataaaga cagcttggca acctacatga gaacccttga ccttgaggag 1321 gagaaagcta gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac 1381 gcccttctgg caagaatcgc tgccgcacgc tccctagtgc atcgggcgaa agaagagctc 1441 tccagcaggc tgagacctgt cgttgtgatg atatcaggga aaccagggat aggaaaaact 1501 caccttgcca gggagttggc caagaagatc gcagcctccc tcacagggga ccagcgtgtg 1561 ggtcttatcc cgcgcaatgg tgttgaccac tgggacgcat acaagggtga aagagtggtc 1621 ctatgggatg actatggaat gagcaacccc atccatgacg ccctcagatt gcaggaactt 1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt 1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggactatgtc 1801 aacttcgaag cgtgctcgag gcgcattgac ttcctcgtgt acgcagaagc tccagaggta 1861 gaaagggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct 1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac 1981 accccgcatg gaaaaggtgt catgaaaacc ctcaccactg gttccctcat cgcccgagca 2041 tcagggctac tccatgagag actagatgaa tatgaattgc aaggcccagc cctcaccact 2101 ttcaactttg atcgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat 2161 gggctgatgg atacaatgag agttggaaaa cagctcaagg atgtcaagac tatgccagac 2221 ctcaaacaag cactcaagaa tgtcgcgatc aggaagtgcc agatagtgta cggtggtagc 2281 acctacacac ttgaggccga tggtaagggt agtgtaaaaa ttgataaagt gcaaagtgct 2341 gctgtacaaa ctaacaatga aatagctggc gccctacacc acctaaggtg tgccagaatc 2401 agatactatg ttaagtgtgt ccaggaggca ttgtattcca tcattcaaat cgctggggct 2461 gcattcgtca ccacgcgcat cgctaagcgc atgaacatac agaatctctg gtccaagcca 2521 caggtggaag acacagaaga gacggccagc aaagatggtt gcccaaaacc caaagaagat 2581 gaagagtttg ttgtttcatc cgacgacatc aaaactgaag gcaagaaagg gaagaacaag 2641 tctggtcgtg gcaagaagca cacagccttc tcaagtaaag ggctcagtga tgaggagtac 2701 gacgagtaca agagaatcag agaagaaagg aatggcaagt attccataga agagtaccta 2761 caggatagag acaagtacta tgaggaggtg gctattgcca gggcaaccga agaagacttc 2821 tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag gaaacaacgc 2881 aaagaagaga gggtctctct cggcttggtc acaggttctg aaatcagaaa gagaaaccca 2941 gacgacttta agcccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat 3001 gaaaaactca actttgaggc cccgccaagc atctggtcgc ggatagtcaa ctttggttca 3061 ggttggggtt tctgggtctc ccccagtctg ttcataacat caacccatgt cataccccag 3121 ggtgcaaaag agttcttcgg agtctctatc aaacaaatcc agatacacaa atcaggtgaa 3181 ttctgtcgat tgagattccc aaaaccaatc aggactgatg tgacgggcat gattctagaa 3241 gaaggtgcgc ccgaaggaac cgtggccaca ctgctcatca agagaccaac tggagaactc 3301 atgcctctgg cagccagaat gggaacccat gcaaccatga agattcaagg gcgcacagtt 3361 ggaggacaaa tgggtatgct cctgacagga tccaacgcca agagcatgga cctaggcaca 3421 acaccaggtg actgcggctg tccctacatc tacaagagag ggaatgacta cgtggtcata 3481 ggggtccaca cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt 3541 gagggagaag ccacacttga aggaggtgat aacaaaggaa catactgtgg tgcaccaatc 3601 ttgggcccag ggagtgctcc aaagctcagc accaaaacta aattttggag gtcatccaca 3661 acaccactcc cgcctggcac ctacgaacca gcctacctcg gtggaaaaga tcccagagtc 3721 agaggtggcc cttcattgca acaagttatg agggaccagc taaagccatt cacagaaccc 3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaacgtt 3841 cttgagcaaa caattgaccc accacaaaaa tggtcattct cgcaagcttg cgcatccctt 3901 gacaaaacca cctccagcgg ccatccgcac catatgcgga agaacgattg ctggaatggg 3961 gaatccttca caggaagatt ggcagatcag gcctccaagg ccaacctaat gtttgaagag 4021 ggaaagaaca tgactccagt ctacacgggt gcacttaaag atgaattggt aaagactgac 4081 aaaatttatg gtaagatcaa gaagaggctt ctttggggct cagacctggc gaccatgata 4141 cggtgcgccc gagcttttgg aggtcttatg gatgaactta aggcacactg tgtcactctt 4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca ttatctttga gaaacactcc 4261 agatataaat atcactatga tgctgattat tcccggtggg actcgacaca acaaagggat 4321 gtgctggcag cagcactaga aatcatggtc aaattctctc cagaaccaca cttggctcag 4381 gtagttgcag aagacctcct ctctcctagt gtaatggatg taggtgactt tcaaatatca 4441 ataagtgagg ggctcccctc tggggtgcct tgcacctccc agtggaactc catcgcccac 4501 tggcttctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga tatcattcag 4561 gccaactccc ttttctcctt ctatggtgat gatgagattg tgagcacgga cataaagttg 4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgtcccgac 4681 aaaactgaag gaccccttgt tatctctgaa gatctggatg gcctgacatt cctccggagg 4741 actgtgaccc gtgacccagc tggttggttt ggaaaattgg aacaaagctc aattctcagg 4801 caaatgtact ggactagggg tcccaatcat gaagacccat ctgaaacaat gataccacac 4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccagca 4921 ttttacagca aaattagtaa attggttatt gcagagttga aggaaggtgg tatggatttt 4981 tacgtgccta gacaagagcc aatgttcaga tggatgaggt tctcagatct gagcacgtgg 5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga atgacgccgc 5101 tccatctaat gatggtgcca cgggcctcgt cccagagatc aacaacgaga cccttccttt 5161 ggaaccggta gcgggtgcag ctattgccgc gcctgttact ggccaaaata atataattga 5221 tccctggatt agaacaaatt ttgtacaagc acccaatggg gagttcacag tctcacccag 5281 aaactctcct ggagaaattc ttctaaattt ggaattgggt cctgatttaa atccatatct 5341 ggcacattta tctagaatgt ataatgggta tgctggtggc gtagaagtcc aagtcctcct 5401 tgcagggaat gcgttcactg caggaaagat tctcttcgct gccgttccac caaatttccc 5461 agttgaattc ttgagtcctg cgcaaatcac catgttgcca cacttaatag ttgatgttag 5521 aacccttgaa cccatcatga taccactccc tgatgtcagg aacaccttct ttcattacaa 5581 taatcaacct gccaatcgta tgcgattggt agccatgttg tatacccccc tgagatctaa 5641 tggttctggt gatgatgttt tcacagtgtc atgtagagtg ctaactagac ccaccccaga 5701 ttttgagttt acatatttgg tccccccttc ggtagagtct aagactaaac ccttttctct 5761 gcccatactg accatctctg aattgaccaa ttcaagattt cctgtaccgg tggattcatt 5821 attcacagcc caaaacaata atcttaatgt tcaatgtcaa aatggtcgct gcacattaga 5881 tggtgagttg cagggaacca ctcagttgca accatcaggc atctgcgcct tcagaggcaa 5941 aataacggca gatgtacgtc caaaccacga tgacagatgg catatgcaac tgacaaatct 6001 caatggaacc cccttcgacc caacagagga tgtgccagct ccactgggca ccccagattt 6061 tacaggcctt ctcttcggag tggcgagcca aagaaatgtc caacccaacc caaacaccac 6121 cagggcacat gaagccgtga tatccacaac cagttcacag tttgtgccaa aattaggatc 6181 aattaacttt ggtagcacaa gtgaagattt cattgtgggc cagcccacaa aattcacacc 6241 agttggcatc aagattgagg acggacatgc atttgatcag tggaccctac ccaggtactc 6301 aggccattta actctcaata tgaaccttgc cccacctgtt gccccaaatt tccctggtga 6361 acaactactc ttctttaggt caaatgtccc ctgtgccggc ggcattagtg atggtgtcat 6421 cgactgcctg ctgcctcagg agtggataca gcacttttac caggagtctg ctccctccca 6481 gtccgatgtg gccctgatca gatacgtcaa ccccgacacg ggccgcacac ttttcgaggc 6541 gaaactccat agaacaggct atatcactgt tgctcattca ggtgattacc cccttgttgt 6601 cccctccaat ggatacttta gatttgattc ttgggtgaat caattttatt cacttgcccc 6661 catgggaact gggaatgggc gcaggcgggt gcagtaatgg caggagcttt catagcaggt 6721 ctagcaggtg acatgctcac caacacagtt ggctcactgg cgaacgccgg ggccaatgcc 6781 atcactcaaa agatagactt tgaaaacaac aaacagctcc aatctgcctc cttccaacat 6841 gacaaagaca tgctccaagc acaagtggct gccaccaagc agttacaggc tgacatgatc 6901 gccatcaagc aggggatact gaccgcgggc ggcttttccc ctactgatgc ggcgagagga 6961 gcagtgggtg cacccatgac caaagtcctc gactggtctg gtactcgtta ctgggctcca 7021 aattccacga agacaacagg ttattcaggg cagttcacat cagcaccagt gcacataccc 7081 acaaaaatga ttcagcctac tcctgttaaa aggactcaac ctctttcttc ctcttcaggt 7141 agtgtctata gtctttcaac acagagcact gccttgacca agccttcttc aggctcttct 7201 tctgtttctt ctgcttctac acaatctaca aaattgagtt cagtttcttc aatggataga 7261 acagcaaatt gggtaaatca gcaaagaaac ctcagcccct tcatgagtgg tgcactcaac 7321 atatctcatg taacacctcc atcgagcagg gcttcgagtt cggggacagt ctcaactgta 7381 cccaaagaag ttttggactc ctggacacct gcattcaaca cacgcaggca gccgctcttc 7441 gcacacctca gagtgagggg ggagtcacgt gtttag //