Typing tool
|
Complete norovirus genomes
MW261798 | GIX.1 | ||
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GII.P15 |
ORF1: 1..5065 ORF2: 5046..6713 ORF3: 6713..7435LOCUS MW261798 7504 bp RNA linear VRL 13-APR-2022 DEFINITION Norovirus GIX isolate DS359 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW261798 VERSION MW261798.1 KEYWORDS . SOURCE Norovirus GIX ORGANISM Norovirus GIX Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7504) 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 7504) 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..7504 /organism="Norovirus GIX" /mol_type="genomic RNA" /isolate="DS359" /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="QPC96807.1" /translation="FGSQKATNDSYSTPPPNKEETSVLTNVKVGFKKILGAVPKASRQ HGNIQKPPIVEIDGVAMRVPSPPPNGEDAVHFVKETETIKGLPDLSTVENESEHSPYT VPPLSEREHRPATEPLPGTILEMWDGEFYHYSIYVDNGKALGVHKPPAAISLATIDLT PISLYWRPVYTPPYLVHPETLKGLAGEKFPYTAFSNNCYNFCCWVLDLNDSWLNRRSI NRTTGFFKPYQTWNRKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLLGKLKPLNLL NLLASCDWTFAGVVETVILAAELFNVFWTPPDVSNFIASIIGDFEMQGPEDLAVELVP VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLSAYMKTLDMEEEKARKLSTKSSSPDI VGTINAILARIAAARSLLHRAKEEMFSRARPVVVMVSGRPGIGKTYLARQLAKSIANS MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNTIKDALTLQELADTCPVTLNCD RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACCRRIDFLVYAEAPDIEKVKKDFPG QPDMWRDHFKADSSHIKLSLAPQGGFDKNGNTPHGKGTMKTLTLHSLTARVMGLVCER KDEFQLQGDELQVYNFDTNKVSAFRKLAADNKYSFVETMKVGAVLKNVRTLEDLKSAL KGVKFKECEIVYKGAKYRVASDGCGSVSVSKIKDVASQTANEVHTALLRLRQARARYY ISCFQDLIYTLIQVAGASFVVHRISKRFSWDRWIKPSESPQEEEQPSSEVATGRWEIE PKDTDPEGKKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRIREEKNGKYSIEEYLQDRD RFYEEVAVARATEEDFCEEEVAKIRQRIFRPTKKQRKEERGVLGLVTGSEIRKRRPDD FQPKGNLWADDTRSVDYNEKLEFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPK GVRELFGVDIKQIQIHKSGEFCRFRFPRPIRPDVTGLILEEGAPEGTVCSILIKRPTG EMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTNPGDCGCPYIFKRGND IVVAGVHTAAARGGNTVICATQGADGEAVLEGGDDKGTYCGAPILGLGKAPKLSTKTK FWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMREQLKPFTEPRGKPPNPSVLDE AKKTVMNVLEQTINPAKPWSYSQACASLDKTTSSGSPHHLRKNDHWNGESFTGPLADQ ASKANLMYEQAKHVSPVYTAALKDELVKTDKIYNKIKKRLLWGSDLGTMVRCARAFGG 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="QPC96808.1" /translation="MRMASSDAPVSGTDGAAGLVPESQQEVLPLEPVAGVQLAAPVAG QSNIIDPWIRMNFVQAPAGEFTVSPRNAPGEVLIDLELGPELNPYLNHLARMYNGYVG GMEVEVVLAGNAFTAGKILFAAVPPSFPTHGISAAQATMLPHVIVDVRQLEPVRLPLP DVRNVMFHFCQENKEPRMRIVAILYTPLRANGAGDDVFTVSCRVLTRPSPDFDFIFLV PPSVESKLKQFTLPNLQPNEMTNSRFPTGITQLYTSPNTNLVVQFQNGRCLLDGTLLG TTPVRAADICSFRGVTSTEVDATDSPRVAGSHRIMVQLREPDGEEFSPTGPNPAPVGT PDFQAAIFGTLSQRNTGGAGQNSNRAHFAYFYTRNPTFAPGIGTVVFSFDTTDFQNRQ PTKFSPSGVFDDDSSEPFNQFSLPYYNGSLGAVDAGKLAPPVAPNYPGEQILYFRGNI PFKGGYGEGEIDSLLPQEWITHFYAEQAPTQGDAALLRYYNPDTGRVLFECKLHREGF ITINYTGSNALAVPVNGVFRFEGWVNKFYTLTPMGNGNGRRGRRREL" gene 6713..7435 /gene="ORF3" CDS 6713..7435 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPC96809.1" /translation="MAGAFFAGLASDVLGSGLSSLIGAGANAINQKVEYDYNRHLQSA SFQHDKDMLSSQVEATKHLQREMMAIKEGMLLKGGFSPTDAARGAVNAPMTQILDWSG TRYWAPGAMKTTAYSGRFVSQSTHRPIPNVVHKSEGSTHQTGSSTGSISSLSTSSTRV PSSTSSSSRTRDWVSEQQRLSPFMRGSLQTAYVTPPSSSASSVSSVSTVPHYVLDSWT PSFNTKHLPLFAHVKKRGQSQV" ORIGIN 1 ctttggcagc cagaaagcta ccaatgacag ctatagcaca ccccctccca acaaggagga 61 gactagtgtg ctcaccaacg ttaaagttgg ttttaaaaag attctcgggg ccgttcccaa 121 ggcttcgaga cagcatggca acatacaaaa accgccgatc gttgagatcg atggtgtggc 181 catgcgtgta ccctctcccc ccccaaacgg cgaagacgcg gttcactttg tgaaggaaac 241 ggagaccatc aagggattgc cagatttgtc caccgtggaa aacgaatctg aacactcccc 301 atacacagtc ccaccgctga gtgagaggga acacaggcca gcaacagaac ccctgcctgg 361 cactatactt gagatgtggg atggtgagtt ctatcactac tccatatatg tggacaatgg 421 taaggctctt ggtgtgcaca aaccaccagc agcaatcagc ctagcaacga tagatttaac 481 acctatatcg ttgtattgga gaccggtgta cacaccgccg taccttgttc acccagagac 541 actcaaaggg ctggctggtg aaaagtttcc ctacacagct ttcagcaaca actgctacaa 601 cttctgttgc tgggttctgg acctcaatga ctcatggttg aaccggagat ccataaatag 661 gacaactgga ttcttcaaac cctaccaaac ctggaacagg aaacccctcc caactgtgga 721 tgatggtaag atcaagaagg tcgcaaatgc agttctgtgc gccctaggat cacttttctc 781 aaaacccatt aaggacctcc ttgggaagct aaagcccctt aatctcctaa atctgctcgc 841 atcatgtgac tggacctttg ctggtgtagt agaaacagtc attcttgcag cagagctctt 901 caatgtcttt tggactccac ctgatgtctc taacttcatt gcctccataa ttggtgactt 961 tgagatgcaa ggaccagaag accttgctgt ggagcttgtc cccgttgtca tgggaggcat 1021 tggtatggtg ttaggattca cagctgagaa gatagggcgc atgttatcat ctgcagcatc 1081 cactcttaga gcttgtaagg accttggcaa ttacgccctg gacattctaa aactggtcat 1141 gaaatggttc ttccctaaga aggaggagaa ggccgagatg gaaactctaa gagccattga 1201 ggacgctgtt cttgacatgg aggcaattgg caacaaccac ctcacaacat tgctcaaaga 1261 caaggacagc ctaagcgcct acatgaagac cttagacatg gaggaggaaa aggccaggaa 1321 actctcaacc aaatcatcat cacccgacat tgttggcacc atcaatgcga ttcttgcccg 1381 tattgccgct gcaagatcac tcctgcacag agccaaagag gagatgttca gtcgggcgag 1441 gcctgttgtc gtgatggtct ccgggaggcc cgggatcggg aagacttacc tggctagaca 1501 acttgctaag tcaattgcaa acagcatgag tggtgaccag agggtgggac ttgtcccccg 1561 caatggggtt gaccactggg atgcctatag gggtgagaga gtcgtcctat gggatgacta 1621 tggtatggga aacacaatta aagatgccct gactctacag gagttggcag acacctgccc 1681 agtcaccctt aattgtgaca gaatcgagaa caaagggaag atgtttgaca gtgatgtcat 1741 cataattaca accaatcttg tcaaccccgc ccccctcgat tacgtcaact ttgaggcttg 1801 ctgtaggcga attgacttcc ttgtctatgc cgaggcacca gacattgaga aagtcaaaaa 1861 ggatttccct ggacaaccag acatgtggcg tgaccatttc aaagctgatt catcacatat 1921 aaagttgtca ctagccccac agggtggttt cgacaaaaat ggaaacaccc ctcatgggaa 1981 gggcaccatg aaaaccctca cgctgcactc gctcactgca cgtgtgatgg gcttagtgtg 2041 tgagagaaag gatgagttcc aattacaggg ggacgaactg caggtttaca actttgacac 2101 aaacaaagtc tctgcattta gaaagctggc agctgacaac aagtacagtt ttgtggagac 2161 aatgaaagtt ggtgcggtcc tcaagaatgt gcgaactctg gaagacctaa aatctgccct 2221 caaaggagtc aagttcaagg agtgtgaaat agtctacaaa ggggctaagt acagggtcgc 2281 ctcggatggc tgtggcagtg tctcggtctc taagatcaag gatgttgcat cacagacagc 2341 caatgaagtg cacacagcgc tcctgagact gaggcaggcc cgggccagat actacatcag 2401 ctgcttccaa gaccttatct acaccctgat tcaggttgct ggagcctcat ttgtggtgca 2461 taggatctca aagagattct cctgggaccg ttggattaaa cccagtgaga gccctcaaga 2521 ggaagaacaa cccagcagtg aggtggctac agggagatgg gaaattgagc caaaggacac 2581 agaccctgaa ggtaaaaagg gtaaaaacaa gaagggaagg ggaaggaaac acacagcctt 2641 ctctagcaag ggtcttagtg atgaagagta cgatgagttc aagagaatca gagaggagaa 2701 gaacggcaag tactctatag aagaatacct ccaggaccgt gacagatttt atgaggaagt 2761 agcagttgca agggccacgg aagaagactt ctgtgaagaa gaggtggcga agatcaggca 2821 gaggattttc agacccacaa agaagcagag gaaggaggaa cggggcgtcc ttgggctagt 2881 caccggttca gaaatcagga agagaagacc agatgacttc cagcctaaag gtaatttgtg 2941 ggctgatgac accaggagcg tggactacaa cgagaagctg gaatttgaag cccctccaag 3001 tgtgtggtca cgcatcgtgc cccttggcac tggttggggt ttttgggtct cttccaacct 3061 cctcataaca acaacgcacg tcctgccaaa aggagtgaga gagctgttcg gagttgacat 3121 caaacaaatc cagatacaca aatcaggtga gttttgcagg ttcaggtttc caagaccgat 3181 cagaccagat gtcacaggcc tcatccttga agaaggagcc cctgaaggca cggtgtgttc 3241 tatcctcatc aaaagaccga ctggagagat gataccgctc gcagtgagga tgggcaccca 3301 cgcttccatg aaaattcagg gcagaacagt tggtggtcaa atgggcatgt tgctcacagg 3361 ggcaaatgcc aaaaacatgg atttgggcac gaaccctggt gactgtggct gcccgtacat 3421 ttttaaaagg ggcaatgaca ttgtagtagc tggggttcac accgcagctg caaggggtgg 3481 caataccgtg atctgtgcca cgcagggagc tgacggagag gccgtccttg aaggaggaga 3541 tgacaaagga acatactgtg gtgccccaat acttggactt gggaaggccc ccaaactcag 3601 cactaagaca aagttttggc gttcctcacc cgatgcacta cccccgggaa cgtatgaacc 3661 ggcctatcta ggtggaaaag acccaagagt tgagaagggc ccatcactcc agcaggttat 3721 gagagaacaa cttaaaccat tcaccgaacc cagaggaaaa ccgccaaatc ccagcgttct 3781 tgatgaggca aagaaaactg tgatgaatgt gttggagcaa accataaacc ctgccaaacc 3841 ctggtcatat tcccaagcat gcgcttcact tgacaaaacg acttcaagtg gtagcccaca 3901 ccacctgagg aagaatgatc actggaatgg tgagtctttc accggccctt tagccgacca 3961 agcttcaaag gcaaacctaa tgtatgaaca ggcaaaacac gtgagccccg tttacactgc 4021 agccctcaaa gatgaactag tcaagactga caagatttac aataagataa agaagaggtt 4081 gctgtggggt tctgacctgg gcaccatggt caggtgtgcc agagcctttg gtgggttaat 4141 ggacagcatg aaagagagtt gtgtgatgtt gccctgcaga gttggaatga acatgaatga 4201 ggatgggcca atcatttttg acaaacatgc aaaatataaa taccactatg atgcagatta 4261 ctccagatgg gattccacac agcaaagatg catcttgtct gctgccatgg aagtcatggt 4321 aaagttctca gctgaaccgg aattggcaca agtggttgct gaagacttac tcgccccgag 4381 ccaactcgac gtgggcgatt ttgtggtgtc agttcaagaa ggccttcctt caggtgtccc 4441 atgcacctcc cagtggaact ctatagcaca ctggatcatt acccttagtg caatggcaga 4501 agtctctggt ctctccccag atgtgatcca agcccactca tgcttctctt tttacggtga 4561 tgatgagata gttagcacag acattaatct ggacccagca aaattaacct tgaaacttag 4621 ggaatatgga ttggtcccca ccagaccaga caaaactgag ggcccactag tcatcacaga 4681 gaacctccac gggttgacct tcctacgcag gcacatcaca cgagaccctg ctggatggtt 4741 tggtaaatta gatcaggact caatcttaag gcagctctat tggaccagag gacccaacca 4801 tgagaatccc tatgagagca tggttccaca ctcacagcgc gcaacccagc taatggcgct 4861 gttgggtgag gcatcgctac acggtcccca gttttacaag aaagttagca agatggttat 4921 caatgagatc aagagtggtg gtctggaatt ttacgtgccc agacaggagg ccatgttcag 4981 gtggatgaga ttctctgacc tcagcacgtg ggagggcgat cgcaatctgg ctcccgacgg 5041 tgtgaatgag gatggcgtcg agtgacgcgc ccgtttctgg caccgatggt gcggcaggac 5101 tcgtcccaga gagtcaacaa gaagtcttgc ctttagagcc cgtcgcggga gttcagctgg 5161 ctgctcccgt tgcagggcaa agtaatataa ttgacccctg gattagaatg aattttgtgc 5221 aagccccggc cggtgagttc actgtgtccc ctcggaacgc accgggtgag gtacttattg 5281 atttagaatt aggaccagaa ttaaatccct atctcaatca ccttgcaaga atgtataatg 5341 ggtatgtggg aggaatggag gtggaagttg tccttgccgg gaatgcgttc acggcgggta 5401 agatcttgtt tgcagctgtg ccccccagct tcccaaccca tggtatctct gcagcacagg 5461 caactatgct accacatgtg attgtggatg tcaggcagct ggagcctgtc cggctccccc 5521 tccctgacgt caggaatgtg atgttccatt tctgtcaaga gaacaaggag ccgcgtatga 5581 gaattgtggc aatattgtac acccccctcc gtgccaacgg tgcgggtgat gatgttttca 5641 ctgtctcatg tcgtgtgcta acaagaccct caccagattt tgattttatt ttcttggtcc 5701 ccccctctgt agagagtaag ttgaaacagt ttaccctccc aaacctgcag ccaaatgaga 5761 tgaccaattc aagatttcct acaggtatca cacagcttta caccagtcca aacaccaatt 5821 tggttgtcca gttccaaaat ggcaggtgtc tgcttgatgg tacacttctt ggcaccaccc 5881 ctgttagagc tgctgacatc tgcagtttta gaggggttac atcaactgaa gttgatgcaa 5941 ctgacagccc cagggtagca gggtcacata gaattatggt gcagcttagg gagccagatg 6001 gagaggagtt ttcacccaca ggtcccaacc ctgcccctgt tggcacccca gactttcaag 6061 cagccatatt tggcactctc agtcaaagaa acactggcgg agctgggcag aattccaaca 6121 gagcccactt cgcatacttc tacacaagaa accccacatt tgcaccaggc atagggactg 6181 ttgtattttc ttttgacact actgatttcc aaaatcgtca acctaccaaa ttttctcctt 6241 ctggtgtgtt tgatgatgat tcttctgaac cttttaatca gttctccctg ccatattata 6301 atggatcact cggtgcagtg gacgctggaa aactggctcc gcctgtggca cccaattatc 6361 caggtgagca gattctttat tttagaggga atataccttt caaaggtggg tatggagaag 6421 gtgaaattga cagtttactt ccccaggaat ggatcaccca cttctatgca gagcaggccc 6481 ccacacaagg tgacgcagcc ctgctgcgct actacaaccc tgacactggt agagtcctct 6541 ttgagtgcaa actccatcgc gaaggattca ttacaatcaa ttacacggga tccaatgctc 6601 ttgctgtacc agtcaatgga gtcttcaggt ttgagggctg ggttaacaaa ttctacacac 6661 tgacccccat gggaaatggc aatggtcgta ggggtagaag aagggagtta taatggctgg 6721 agctttcttt gcaggtcttg cttctgatgt tcttggcagc ggtttgtctt ctcttattgg 6781 tgccggtgcc aatgctataa accaaaaagt tgaatatgat tacaataggc atttgcaatc 6841 agcttctttc caacatgaca aggacatgct tagctcacag gtggaagcca caaagcacct 6901 gcagagggaa atgatggcca tcaaggaagg catgctgctt aagggcgggt tctcccccac 6961 tgatgcagca aggggggctg tcaacgcccc tatgacacaa atcttggatt ggagtggcac 7021 cagatattgg gccccaggtg caatgaaaac tacggcctat tcaggccgtt ttgtcagcca 7081 atccacccac aggcccattc ccaatgttgt gcacaagagt gagggatcca cacaccaaac 7141 tgggtcatcc accggatcta tctcttctct ttccacatca tccacccgtg ttccatcatc 7201 tacatcctca tctagtagaa caagagactg ggtgtctgaa caacaaagac tcagcccttt 7261 catgagaggc tctcttcaaa ctgcatatgt gactcctccc tcaagctctg cctcttcagt 7321 aagctctgtt tctacagtcc cacactatgt tttagattca tggactcctt cttttaacac 7381 taagcattta cccctatttg cccatgttaa gaaaagggga caatctcaag tttaatctac 7441 cactcatggt ttgattgatt tgttttgtaa ttagtgaaat gttgattctt ttctaattcg 7501 gcat //