Typing tool
|
Complete norovirus genomes
MW261794 | GIX.1 | ||
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GII.P15 |
ORF1: 1..5065 ORF2: 5046..6713 ORF3: 6713..7444LOCUS MW261794 7515 bp RNA linear VRL 13-APR-2022 DEFINITION Norovirus GIX isolate DS384 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW261794 VERSION MW261794.1 KEYWORDS . SOURCE Norovirus GIX ORGANISM Norovirus GIX Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7515) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A.U.A., Ford-Siltz,L.A., Green,K.Y., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H. and Parra,G.I. TITLE Genome-wide analyses of human noroviruses provide insights on evolutionary dynamics and evidence of coexisting viral populations evolving under recombination constraints JOURNAL PLoS Pathog 17 (7), e1009744 (2021) PUBMED 34255807 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7515) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Direct Submission JOURNAL Submitted (16-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993, USA COMMENT ##Assembly-Data-START## Assembly Method :: High-performance Integrated Virtual Environment (HIVE) v. 2 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7515 /organism="Norovirus GIX" /mol_type="genomic RNA" /isolate="DS384" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:2594528" /country="Saudi Arabia" /collection_date="1990" /note="genotype: GIX.1 [GII.P15]" gene <1..5065 /gene="ORF1" CDS <1..5065 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="QPC96795.1" /translation="LGSQKATNDSYSTPPPNKEEASVLTNVKVGFKKILGAVPKASRQ HGNTQKPPIVEIDGVAMRVPSPPPNGEDAVHFVKETETIKGLPDLSTVENESEHSPYT VPPLSEREHRPATEPLPGTILEMWDGEFYHYSIYVDNGKALGVHKPPAAISLATIDLT PISLYWRPVYTPPYLVHPETLKGLAGEKFPYTAFSNNCYNFCCWVLDLNDSWLNRRSI NRTTGFFKPYQTWNRKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLLGKLKPLNLL NLLASCDWTFAGVVETVILAAELFNVFWTPPDVSNFIASIIGDFEMQGPEDLAVELVP VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLNAYMKTLDMEEEKARKLSTKSSSPDI VGTINAILARIAAARSLLHKAKEEMFSRARPVVIMVSGRPGIGKTYLARQLAKSIANS MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNTIKDALTLQELADTCPVTLNCD RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACCRRIDFLVYAEAPDIEKVKKDFPG QPDMWRDHFKADSSHIKLSLAPQGGFDKNGNTPHGKGTMRTLTLHSLTARVMGLVCER KDEFQLQGDELQVYNFDTNKVSAFRKLAADNKYSFVETMKVGAVLKNVRTLEDLKSAL KGVMFKECEIIYKGAKYRVASDGCGSVSVSKIKDVASQTANEVHTALLRLRQARARYY ISCFQDLIYTLIQVAGASFVVHRISKRFSWDRWIKPSESPQEEEQPSSEVATGRWEIE PKDTDPEGKKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRIREEKNGKYSIEEYLQDRD RFYEEVAVARATEEDFCEEEVAKIRQRIFRPTKKQRKEERGVLGLVTGSEIRKRRPDD FQPKGNLWADDTRSVDYNEKLEFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPK GVRELFGVDIKQIQIHKSGEFCRFRFPRPIRPDVTGLILEEGAPEGTVCSILIKRPTG EMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTNPGDCGCPYIFKRGND IVVAGVHTAAARGGNTVICATQGADGEAVLEGGEDKGTYCGAPILGLGKAPNLSTKTK FWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMREQLKPFTEPRGKPPNPNVLDE AKKTVMNVLEQTINPAKPWSYSQACASLDKTTSSGSPHHLRKNDHWNGESFTGPLADQ ASKANLMYEQAKHVSPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGG LMDSMKESCVMLPCRVGMNMNEDGPIIFDKHAKYKYHYDADYSRWDSTQQRCILSAAM EVMVKFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQWNSIAHWIIT LSAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPAKLTLKLREYGLVPTRPDKT EGPLVITENLHGLTFLRRHITRDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPH SQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLS TWEGDRNLAPDGVNEDGVE" mat_peptide <1..970 /gene="ORF1" /product="p48" mat_peptide 971..2068 /gene="ORF1" /product="NTPase" mat_peptide 2069..2590 /gene="ORF1" /product="p22" mat_peptide 2591..2989 /gene="ORF1" /product="VPg" mat_peptide 2990..3532 /gene="ORF1" /product="Pro" mat_peptide 3533..5062 /gene="ORF1" /product="RdRp" gene 5046..6713 /gene="ORF2" CDS 5046..6713 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPC96796.1" /translation="MRMASSDAPVSGTDGAAGLVPESQQEVLPLEPVAGVQLAAPVAG QSNIIDPWIRMNFVQAPAGEFTVSPRNAPGEVLIDLELGPELNPYLNHLARMYNGYVG GMEVEVVLAGNAFTAGKILFAAVPPSFPTHGISAAQATMLPHVIVDVRQLEPVRLPLP DVRNVMFHFCQENKEPRMRIVAILYTPLRANGAGDDVFTVSCRVLTRPSPDFDFIFLV PPSVESKLKQFTLPNLQPNEMTNSRFPTGITQLYTSPNTNLVVQFQNGRCLLDGTLLG TTPVRAADICSFRGVTSTEVDATDSPRVAGSHRIMVQLKEPDGEEFSPTGPNPAPVGT PDFQAAIFGTLSQRNTGGAGQNSNRAHFAYFYTRNPTFAPGIGTVVFSFDTTDFQNRQ PTKFSPSGVFDDDSSEPFNQFSLPYYNGSLGAVDAGKLAPPVAPNYPGEQILYFRGNI PFKGGYGEGEIDSLLPQEWITHFYAEQAPTQGDAALLRYYNPDTGRVLFECKLHREGF ITINYTGSNALAVPVNGVFRFEGWVNKFYTLTPMGNGNGRRGRRREL" gene 6713..7444 /gene="ORF3" CDS 6713..7444 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPC96797.1" /translation="MAGAFFAGLASDVLGSGLSSLIGAGANAINQKVEYDYNRHLQSA SFQHDKDMLSSQVEATKHLQREMMAIKEGMLLKGGFSPTDAARGAVNAPMTQILDWNG TRYWAPGAMKTTAYSGRFVSQSTHRPIPNVVHKSEGSTHQTGSSTGSVSSLSTSSTRV PSSTSSSSSTSRTRDWVSEQQRLSPFMRGSLQTAYVTPPSSSASSVSSVSTVPHYVLD SWTPSFNTKHLPLFAHVKKRGQSQV" ORIGIN 1 ccttggcagc cagaaagcta ccaatgacag ctatagcaca ccccctccca acaaggagga 61 ggctagtgtg ctcaccaacg ttaaagttgg ttttaaaaag atcctcgggg ccgttcctaa 121 ggcttcgaga cagcatggca acacgcaaaa accgccgatc gtcgagatcg atggtgtggc 181 catgcgtgtg ccctctcccc ccccaaacgg tgaggacgca gttcactttg tgaaggaaac 241 ggagaccatc aagggattgc cagatttgtc caccgtggaa aacgaatctg aacactcccc 301 atacacagtc ccaccgttga gtgagaggga acacaggcca gcaacagagc ccttgcctgg 361 cactatactt gagatgtggg atggtgagtt ctaccactac tccatatatg tggacaacgg 421 caaggctctt ggtgtgcaca aaccaccggc agcaatcagc ctagcaacga tagatttaac 481 acctatatcg ttgtattgga gaccggtgta cacaccgccg taccttgttc acccagagac 541 acttaagggg ctggctggtg aaaagtttcc ctacacagct ttcagcaaca actgctacaa 601 cttttgttgc tgggttctgg acctcaatga ctcatggttg aaccggagat ccataaatag 661 gacaactgga ttcttcaaac cctaccaaac ctggaacagg aaacccctcc caactgtgga 721 tgatggtaag atcaagaagg tcgcaaacgc agttctgtgc gccctaggat cacttttctc 781 aaaacccatt aaggacctcc ttgggaagtt aaagcccctc aacctcctaa atctgctcgc 841 gtcatgcgac tggacctttg ctggtgtagt ggaaacagtc attcttgcag cagagctctt 901 taacgtcttt tggactccac ctgatgtctc caacttcatt gcctccataa ttggtgactt 961 tgagatgcaa ggaccagaag accttgctgt ggagcttgtt cccgttgtca tgggaggcat 1021 tggtatggtg ttaggattta cagctgagaa gatagggcgc atgttatcat ctgcagcatc 1081 cactcttaga gcttgtaagg accttggcaa ttacgccctg gacatcctaa aactggtcat 1141 gaaatggttc ttccctaaga aggaggagaa ggccgagatg gaaaccctaa gagccattga 1201 ggatgccgtt cttgacatgg aggcaattgg caacaaccac cttacaacat tgcttaaaga 1261 caaggacagc ctaaacgcct atatgaagac cttagacatg gaggaggaaa aggccaggaa 1321 actctcaacc aaatcatcat cacccgacat tgttggcacc atcaatgcga tccttgctcg 1381 cattgccgct gcaagatcac tcctgcacaa agccaaagag gaaatgttca gtcgagcgag 1441 gcctgttgtc ataatggttt ccgggagacc cgggatcggg aagacatacc tggctagaca 1501 acttgctaag tcaattgcaa acagcatgag tggtgatcag agggtaggac ttgtcccccg 1561 caatggggtt gaccactggg atgcctatag gggtgagaga gtcgtcctat gggatgacta 1621 tggcatggga aacacaatta aagatgccct gactctacag gagttagcag acacctgccc 1681 agttaccctc aactgtgaca gaatcgagaa caaggggaag atgtttgaca gtgatgtcat 1741 cataattaca accaatcttg tcaatcctgc tccccttgat tatgttaact ttgaggcttg 1801 ctgcaggcga attgacttcc ttgtctatgc cgaggcacca gacattgaga aagtcaaaaa 1861 ggatttccct ggacaaccag acatgtggcg tgaccatttc aaagctgatt catctcacat 1921 aaagttgtca ctagccccac agggtggttt tgacaaaaat ggaaacaccc ctcatgggaa 1981 gggcaccatg agaaccctca cgctgcactc actcactgca cgtgtgatgg gcttagtgtg 2041 tgagagaaag gatgagttcc aattacaggg ggacgaactg caggtttaca actttgacac 2101 aaacaaggtc tctgcattca gaaagctggc agctgacaac aagtacagtt tcgtggagac 2161 aatgaaagtt ggtgcggtcc tcaagaatgt gagaaccctg gaagacctaa aatctgccct 2221 caaaggagtc atgttcaaag agtgtgaaat aatttacaaa ggggctaagt acagggtcgc 2281 ctcggacggc tgtggcagtg tctcggtctc taagatcaag gatgttgcgt cacagacagc 2341 caatgaagtg cacacagcgc tactgagact gaggcaagcc cgagccagat actacatcag 2401 ctgcttccaa gaccttatct acaccctgat tcaggttgcc ggagcctcat tcgtggtgca 2461 caggatctca aagagattct cctgggaccg ttggattaaa cccagtgaaa gccctcaaga 2521 ggaagaacaa cctagcagtg aggtggccac aggaaggtgg gaaattgagc caaaggacac 2581 agaccctgaa ggtaaaaagg gtaaaaacaa gaaggggagg ggaaggaaac acacagcttt 2641 ctctagcaag ggccttagtg atgaagagta cgatgagttc aagagaatca gagaggagaa 2701 gaacggcaag tactctatag aagaatacct ccaggaccgt gacagatttt atgaggaagt 2761 ggcagttgca agagccacgg aagaggactt ctgtgaggaa gaagtggcga agatcaggca 2821 gaggattttc agacccacaa agaagcagag gaaggaggaa cggggcgtcc ttgggctagt 2881 caccggttca gaaattagga agagaagacc agatgacttc cagcctaaag gtaatttgtg 2941 ggctgatgac accaggagcg tggactacaa cgagaagctg gaatttgaag cccctccgag 3001 tgtgtggtca cgcatcgtac cccttggcac tggttggggt ttttgggtct cctctaacct 3061 cctcataaca acaacgcacg tcctgccaaa aggagtgaga gagctgttcg gagttgacat 3121 caaacaaatt cagatacata aatcaggtga gttttgcagg ttcaggtttc caagaccgat 3181 cagaccagat gtcacaggcc tcatccttga agaaggtgcc cctgaaggca cggtgtgttc 3241 tattctcatc aagaggccga ctggagagat gataccgctc gcagtgagga tgggcaccca 3301 cgcttctatg aaaatccagg gcagaacagt tggtggtcaa atgggcatgt tgctcacagg 3361 ggcaaatgcc aaaaacatgg atttgggcac gaaccctggt gactgtggct gcccgtacat 3421 ctttaaaagg ggcaatgaca ttgtagtagc tggggttcac actgcagctg caagaggtgg 3481 caatactgtg atctgtgcca cgcagggagc tgacggagaa gctgtccttg aaggaggaga 3541 ggacaaagga acatactgtg gtgccccaat acttggactt gggaaggccc ctaatttaag 3601 caccaagaca aagttttggc gttcctcgcc tgatgcacta cctccgggaa cgtatgaacc 3661 agcctatcta ggtggaaaag acccaagagt tgagaagggc ccatctctcc agcaggttat 3721 gagagaacaa cttaaaccat tcaccgaacc cagaggaaaa ccgccaaatc ccaacgttct 3781 tgacgaggcg aagaaaactg tgatgaacgt gttggagcaa accataaacc ctgccaagcc 3841 ctggtcatat tcccaagcat gtgcttcact tgacaaaacg acttcaagtg gtagcccaca 3901 ccacctgagg aagaacgacc actggaatgg tgagtctttc actggccctt tggcagacca 3961 agcttcaaag gcaaacctga tgtatgagca ggcaaaacac gtgagccccg tttacactgc 4021 agccctcaaa gatgaactag tcaagactga caagatttac aagaagataa agaagaggtt 4081 actgtggggt tctgacctgg gcaccatggt caggtgtgcc agagcctttg gtgggttgat 4141 ggacagcatg aaagagagtt gtgtgatgtt gccctgcaga gttggaatga acatgaatga 4201 agatgggcca atcatttttg acaaacatgc aaaatataaa taccactatg atgcagatta 4261 ctccagatgg gattccacac agcaaagatg catcttatct gctgccatgg aagttatggt 4321 aaagttctca gctgaaccgg aattggcaca agtggttgct gaagacttac tcgccccgag 4381 tcaactcgac gtgggcgatt ttgtggtgtc agttcaagaa ggccttccct caggtgtccc 4441 atgtacctcc caatggaact ctatagcaca ctggatcatt acccttagtg caatggcaga 4501 agtttctggt ctctccccag atgtgatcca agcccattca tgcttttctt tttacggtga 4561 tgatgagata gttagcacag acatcaatct ggacccagca aaattaacct taaaacttag 4621 ggaatatgga ctggtcccca ccagaccaga caaaactgag ggcccactag tcatcactga 4681 gaacctccac gggttgacct tcctacgcag gcacattaca cgagaccctg ctggatggtt 4741 tggtaaatta gatcaggatt caatcttaag gcagctttac tggaccagag gacccaatca 4801 tgagaatccc tacgagagca tggttccaca ctcacagcgc gcaacccagc taatggcgct 4861 gttgggtgag gcatcgctgc acggtcccca gttttacaag aaagttagca agatggttat 4921 caatgagatc aagagtggcg gtctggaatt ttacgtgccc agacaggagg ccatgttcag 4981 atggatgaga ttctctgacc tcagcacgtg ggagggcgat cgcaatctgg ctcccgacgg 5041 tgtgaatgag gatggcgtcg agtgacgcgc ccgtttctgg caccgatggt gcggcaggac 5101 tcgtcccaga gagtcaacaa gaagtcttgc ctttagagcc cgtcgcggga gttcagctgg 5161 ctgctcccgt tgcagggcaa agtaacataa ttgacccctg gattagaatg aattttgtgc 5221 aagccccggc cggtgagttc actgtgtccc ctcggaacgc accgggtgag gtacttattg 5281 atttagaatt aggaccagaa ttaaatccct atctcaatca ccttgcaaga atgtataatg 5341 ggtatgttgg aggaatggag gtggaagttg tccttgccgg gaatgcgttc acggcgggta 5401 agatcctgtt tgcagctgtg ccccccagct tcccaaccca tggcatctct gcagcacagg 5461 caactatgct accacatgtg attgtggatg tcaggcagct ggagcctgtc cggctccccc 5521 tccctgacgt caggaatgtg atgttccatt tttgtcaaga gaataaagaa ccgcgtatga 5581 gaattgtggc aatattgtac acccccctcc gtgctaacgg tgcgggtgat gatgttttca 5641 ctgtctcatg tcgtgtgcta acgagacctt caccagattt tgattttatt ttcttggtcc 5701 ccccctctgt agagagtaag ttgaaacagt ttaccctccc aaacctacag ccaaatgaga 5761 tgaccaattc aagatttccc acaggtatca cacagcttta caccagtcca aacaccaatt 5821 tggtcgtcca gttccagaat ggcaggtgtc tgcttgatgg cacacttctt ggcaccaccc 5881 ctgtcagagc tgctgacatc tgcagtttta gaggggttac atcaaccgaa gttgatgcaa 5941 ctgacagccc cagggtggca gggtcacata gaattatggt gcagcttaag gagccagatg 6001 gagaggagtt ttcacccaca ggtcccaacc ctgcccctgt tggcacccca gactttcaag 6061 cagccatatt tggcactctc agtcaaagaa acactggcgg agctgggcag aattccaaca 6121 gagcccactt cgcatacttt tacacaagaa accctacatt tgcaccaggc atagggactg 6181 ttgtattttc ttttgatacc actgatttcc aaaatcgtca acctactaaa ttttctcctt 6241 ctggtgtgtt tgatgatgat tcttctgaac cttttaatca gttctccctg ccatattaca 6301 atggatcact cggtgcagtg gacgctggaa aactagctcc gcctgtggca cccaattatc 6361 caggtgagca gattctttat tttagaggga atataccttt caaaggtggg tatggagagg 6421 gtgaaattga cagcttgctt ccccaggaat ggattactca cttttatgca gagcaggccc 6481 ccacacaagg tgacgcagcc ctgctgcgct actacaaccc tgacactggt agagtcctct 6541 ttgagtgcaa actccaccgc gagggattca tcacaatcaa ttacacggga tccaatgctc 6601 ttgctgtacc agtcaatgga gtcttcaggt ttgagggctg ggttaacaaa ttctacacac 6661 tgacccccat gggaaatggc aatggccgca ggggtagaag aagggagtta taatggctgg 6721 agctttcttc gcaggtcttg cttctgatgt tcttggcagc ggtttgtctt ctcttattgg 6781 tgccggtgcc aatgctataa atcaaaaagt tgagtatgat tacaataggc atttgcaatc 6841 agcatctttc caacatgaca aggacatgct tagctcacag gtggaagcca caaagcatct 6901 gcaaagggaa atgatggcca tcaaggaagg catgctgctt aagggcgggt tttcccccac 6961 tgatgcagca aggggggctg tcaacgcccc tatgacacaa atcttggatt ggaatggcac 7021 cagatattgg gccccaggcg caatgaaaac tacggcctat tcaggccgtt ttgtcagcca 7081 atccactcac aggcctattc ccaatgttgt gcataagagt gagggatcca cacaccaaac 7141 tgggtcatct accggatctg tctcttctct ttccacatca tccacccgtg ttccatcatc 7201 tacatcctca tctagtagta cttctagaac aagagactgg gtgtcagaac aacaaagact 7261 cagccctttc atgagaggct ctcttcaaac tgcatatgtg actcctcctt caagctctgc 7321 ctcttcagta agctctgttt ctacagtccc acactatgtt ttagattcat ggactccttc 7381 ttttaacact aagcatttac cactgtttgc ccatgttaag aaaaggggac aatctcaagt 7441 ttaatctacc actcatggtt tgattgattt gttttgtaat tagtgaaatg ttgattcttt 7501 tctaattcgg cattt //