Typing tool
|
Complete norovirus genomes
MZ279714 | GII.17 | ||
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GII.P31 |
ORF1: 1..5094 ORF2: 5075..6697 ORF3: 6697..7476LOCUS MZ279714 7504 bp RNA linear VRL 30-MAY-2021 DEFINITION Norovirus GII isolate Hu/US/2013/GII.17[P31]/CA-RGDS-1124 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MZ279714 VERSION MZ279714.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7504) 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 (24-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..7504 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CA-RGDS-1124" /isolate="Hu/US/2013/GII.17[P31]/CA-RGDS-1124" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="23-Jan-2013" /note="Amplicon sequencing: first 35 nt does represent primer sequence; genotype: GII.17[P31]" gene <1..5094 /gene="ORF1" CDS <1..5094 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QVU61692.1" /translation="MASNDASAAAAANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQ PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDEPVVSYSAKDGVSGLPELTTVRQPDEI NTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVDRGLILGVHKPPAAISRA KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK PLNILNILATCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAK KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVERAK RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPD LKQALKNVAIRKCQIVYGGSTYTLEADGKGSVKIDKVQSAAVQTNNEIAGALHHLRCA RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETASKDGCPK PKEDEEFVASSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQGRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG CPYIYKRGNDYVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG ESFTGRLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLAT MIRCARAFGGLMDEFKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST 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="QVU61693.1" /translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNQPANRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTISELTNSRFPVPVDSLFTAQNNNLNVQCQNGRCTLDGELQGTT QLQPSGICAFRGKITADARPNHDDRWHMQLTNLNGTPFDPTEDVPAPLGTPDFTGLLF GVASQRNVQPHPNTTRAHEAVISTTSSQFVPKLGSINFGSTSDDFTVGQSTKFTPVGI KIEDGHAFDQWTLPRYSGHLTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGISDGIID 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="QVU61694.1" /translation="MAGAFIAGLAGDMLTNTVGSLANAGANAITQKIDFENNKQLQSA SFQHDKDMLQAQVAATKQLQAEMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG TRYWAPNSTRTTGYSGQFTSAPVHMPTKTIQPAPVKRTQPLSSSSGSIYSLSTQSTVL TKPSSGSSSVSSASTQSTKLSSVSSMDRTANWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTPAFNTRRQPLFAHLRVRGESRV" ORIGIN 1 atggcgtcta acgacgcttc cgctgccgct gctgccaaca gcaacaacga catcgcaaaa 61 tcttcaagtg acggtgtgct ctctagcatg gctgtcactt ttaaacgggc cctcggggcg 121 cggcctaaac agccgccccc gaaggaaata ccacccagac ccccacggcc acccacacca 181 gagttggtca aaaagatccc tcctccccca cccaacgggg aggatgaacc agtggtttcc 241 tatagcgcca aagatggtgt ttccggactg cctgagctca ccactgtcag acaaccggat 301 gaaattaaca cggcgttcag tgttcccccg ctcaaccaaa gggagaacag ggacgccaag 361 gaaccattaa ctggaacaat tattgaaatg tgggatggag aaatctacca ttacggcctg 421 tacgtggatc gaggtcttat acttggtgtg cataagccac cggcggccat cagccgtgcc 481 aaagtcgagc tgacaccact ctctctgttc tggagacctg tatacacacc ccagtatctc 541 atctccccag acactctcag gagactacat ggggagtcat tcccctacac tgcatttgac 601 aacaattgct acgccttctg ttgttgggta ttagacctaa acgactcatg gctaagcagg 661 agaatgattc agagaacaac aggtttcttc agaccatacc aggattggaa caggaaaccc 721 ctccccacta tggatgattc caaattgaag aaggtagcca acatattctt atgcaccttg 781 tcttcactat tcaccaggcc cattaaggac ataataggaa agctgaaacc tcttaacatc 841 cttaacattc tggctacatg tgattggacc ttcgcaggcg tagtggaatc cttgatactc 901 ttggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc 961 ttactaggag attatgaact gcaaggacct gaggaccttg cagtagaact ggtcccagtg 1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta 1081 tcatccgctg catctacttt gagagcctgt aaagaccttg gtgcatacgg actggaaatt 1141 ttaaaactag tcatgaaatg gttcttccca aagaaagagg aagcaaatga actggctatg 1201 gtgagatcca tcgaggatgc agtgttagac ctcgaagcaa ttgaaaacaa tcacatgacc 1261 accctgctca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag 1321 gagaaagcta gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac 1381 gctcttctgg caagaatcgc tgccgcacgc tccctagtgc atcgggcgaa agaagagctc 1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggga aaccagggat aggaaaaact 1501 caccttgcca gggagttggc caagaagatc gcagcctccc tcacagggga ccagcgtgtg 1561 ggtcttatcc cgcgcaatgg tgttgaccat tgggacgcat acaagggtga aagagtagtc 1621 ctatgggacg actatggaat gagcaacccc atccatgacg ccctcagatt gcaggaactt 1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt 1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggactatgtc 1801 aacttcgaag cgtgctcgag acgcattgac ttcctcgtgt acgcagaagc tccggaggtg 1861 gaaagggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagccct 1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaatggcaac 1981 accccgcatg gaaaaggtgt catgaagacc ctcaccactg gctccctcat agcccgagca 2041 tcagggttac tccatgagag actagatgaa tatgaactgc aaggtccagc 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 agtgtgaaaa ttgacaaagt gcaaagtgct 2341 gctgtgcaaa ctaacaatga aatagccggc gccctacacc acctaaggtg cgccagaatc 2401 agatactatg ttaagtgtgt ccaggaggca ctgtattcca tcattcaaat cgctggggct 2461 gcattcgtca ccacgcgcat cgctaagcgc atgaacatac agaatctctg gtccaagcca 2521 caggtggaag acacagaaga gacggccagc aaagatggtt gcccaaaacc caaagaagat 2581 gaagagtttg ttgcttcatc cgacgacatc aaaactgagg gcaagaaagg gaagaataaa 2641 tctggtcgtg gcaagaagca cacagccttc tcaagcaaag ggctcagtga tgaggagtac 2701 gatgagtaca agagaatcag agaagaaagg aatggcaagt attccataga agagtaccta 2761 cagggcagag acaagtacta tgaggaggtg gctattgcca gggcaaccga agaagacttc 2821 tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag gaagcaacgc 2881 aaagaagaga gggcctccct cggcttggtc acaggctctg aaatcaggaa gagaaaccca 2941 gaagacttca agcccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat 3001 gagaaactca actttgaggc cccgccaagc atctggtcgc ggatagtcaa ctttggttca 3061 ggttggggct tctgggtctc ccccagtctg ttcataacat caacccatgt cataccccag 3121 ggtgcaaaag agttcttcgg agtccctatc aaacaaatcc agatacacaa atcaggtgaa 3181 ttctgtcgat tgagattccc aaaaccaatc agaactgatg tgacgggcat gattctagaa 3241 gaaggtgcgc ccgaagggac cgtggccaca ctgctcatta agagaccaac tggagaactc 3301 atgcctctgg cagccagaat gggaacccat gcaaccatga agattcaggg gcgcacagtt 3361 ggaggacaaa tgggtatgct cctgacagga tccaacgcca agagcatgga cctaggcaca 3421 acaccaggtg actgcggctg tccctacatc tacaagagag ggaatgacta cgtggccata 3481 ggggtccaca cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt 3541 gagggagaag ccacacttga aggaggtgac aacaaaggaa catactgcgg tgcaccaatc 3601 ttgggcccag ggagtgctcc aaaactcagc accaagacta agttttggag atcatccaca 3661 acaccactcc cgcctggcac ctacgaacca gcctacctcg gtggcaaaga tcccagagtc 3721 aaaggtggcc cttcattaca acaagttatg agggaccagc taaagccatt cacagaaccc 3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcta agaaaaccat catcaacgtt 3841 cttgagcaaa caattgaccc acctcaaaaa tggtcattcg cgcaagcttg cgcatccctt 3901 gacaaaacca cctccagcgg ccacccgcac catatgcgga aaaacgattg ttggaatggg 3961 gagtccttca caggaagatt ggcagatcag gcctccaagg ccaacctaat gtttgaagag 4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgaattggt aaagactgac 4081 aaaatttatg gtaagatcaa gaagaggctt ctgtggggct cagacctggc gaccatgata 4141 cggtgcgccc gagcttttgg aggccttatg gatgaattca aggcacactg tgtcaccctt 4201 cctgtcagag ttggtatgaa catgaacgaa gatggcccca tcatctttga gaaacactcc 4261 agatataaat atcactatga tgctgattat tcccggtggg actcgacaca acaaagggat 4321 gtgctagcag cagcactaga aatcatggtt aaattctctc cagaaccaca cctggctcag 4381 gtagttgcag aagacctcct ctcccctagt gtaatggatg taggtgactt tcaaatatca 4441 ataagtgagg ggctcccctc tggggtgcct tgcacctccc agtggaactc catcgcccac 4501 tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga cattatccag 4561 gccaactccc ttttctcctt ctatggtgat gatgagattg tgagcacaga 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 tcccaaccat gaagatccat ctgaaacaat gataccacac 4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccagca 4921 ttttacagca aaattagtaa attggtcatt gcagagctga aggaaggtgg catggatttt 4981 tacgtgccca gacaagagcc aatgttcagg tggatgagat tctcagatct gagcacgtgg 5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga atgacgccgc 5101 tccatctaat gatggtgcca cgggcctcgt cccagagatc aacaacgaga cccttcctct 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 gtagaagttc aagtcctcct 5401 tgcagggaat gcgttcactg caggaaagat tctcttcgct gccgtaccac caaatttccc 5461 agttgaattc ttgagtcctg cacaaatcac catgttgcca catttaatag ttgatgttag 5521 aacccttgaa cccatcatga taccactccc tgatgtcagg aacaccttct ttcactacaa 5581 taatcaacct gccaatcgca tgcgattggt agccatgttg tatacccccc tgagatctaa 5641 tggttctggt gatgatgttt tcacagtgtc atgtagagtg ctaactagac ccaccccaga 5701 ttttgagttt acatacttgg tccccccttc ggtagagtct aagactaaac ccttttctct 5761 gcccatacta accatctctg aattgaccaa ttcaagattt cctgtaccgg tggattcatt 5821 gttcacagcc caaaacaata atcttaatgt tcaatgtcaa aatggtcgct gcacattaga 5881 tggtgagttg cagggaacca ctcagttgca accatcaggc atctgcgcct tcagaggcaa 5941 aataacggca gatgcacgtc caaaccacga tgacagatgg catatgcaac tgacaaatct 6001 caatggaacc cccttcgacc caacagagga tgtaccagct ccactgggca ccccagattt 6061 cacaggcctt ctcttcggag tggcaagcca aagaaatgtt caacctcacc caaacactac 6121 cagggcacat gaagccgtga tatccacaac cagttcacag tttgtgccaa aattaggatc 6181 aatcaacttt ggtagcacaa gtgatgattt cactgtgggc cagtccacaa aattcacacc 6241 agttggcatc aagattgagg atgggcatgc atttgatcaa tggaccctac ccaggtattc 6301 aggccattta actctcaata tgaatcttgc cccacctgtt gctccaaatt tccctggtga 6361 acaactactc ttctttaggt caaatgtccc ctgtgccggc ggcattagtg atggtatcat 6421 cgactgcctg ttgcctcagg agtggataca gcacttctac caggagtctg ctccctccca 6481 atctgatgtg gccctgatca gatacgtcaa ccccgacacg ggccgcacac ttttcgaggc 6541 gaaactccat agaacaggct acatcactgt tgcccattca ggtgattatc cccttgttgt 6601 cccctccaat gggtacttta gatttgattc ttgggtgaac caattttatt cacttgcccc 6661 catgggaact gggaatgggc gcagacgggt gcagtaatgg caggagcttt catagcaggt 6721 ctagcaggtg acatgctcac caacacagtt ggctcactgg cgaacgccgg ggccaatgcc 6781 atcactcaaa agatagactt tgaaaacaac aaacagctcc aatctgcctc cttccaacat 6841 gacaaagaca tgctccaagc acaagtggct gccaccaagc agttacaggc tgagatgatc 6901 gccatcaagc aggggatact gaccgcgggc ggcttttccc ccactgatgc ggcgagagga 6961 gcagtgggtg cacccatgac caaagtcctc gactggtctg gtactcgtta ctgggctcca 7021 aactccacga ggacaacagg ttactcaggg cagtttacat cagcaccagt gcatatgccc 7081 acaaaaacaa ttcagcctgc tcctgttaaa aggactcaac ctctttcttc ctcttcaggt 7141 agtatctata gtctttcaac acagagcact gtcttgacca agccttcttc aggctcttct 7201 tctgtttctt ctgcttctac acaatctaca aaattgagtt cagtttcttc aatggataga 7261 acagcaaatt gggtaaatca gcaaagaagc ctcagcccct tcatgagtgg tgcactcaac 7321 atatctcatg taacacctcc atcgagcagg gcttcgagtt cggggacagt ctcaactgta 7381 cccaaagaag ttttggactc ctggacacct gcattcaaca cacgcagaca gcctctcttc 7441 gcacacctca gagtgagggg ggagtcacgt gtttagtgaa aagaatcaat tagttttaat 7501 taaa //