Typing tool
|
Complete norovirus genomes
MW305642 | GII.2 | ||
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GII.P16 |
ORF1: 1..5069 ORF2: 5050..6678 ORF3: 6678..7457LOCUS MW305642 7498 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate Arg15441 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305642 VERSION MW305642.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7498) 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 Genome-wide analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7498) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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 (23-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..7498 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Arg15441" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Argentina" /collection_date="2017" /note="genotype: GII.2[GII.P16]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59262.1" /translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDKPQK PPRPPTPELVKRIPPPPPNDEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVP PLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAVSMARVELTPL SLYWRVVYTPQYLISPENLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQR TTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNI LATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVIKWFFPKKEEANELA MVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVG TINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLT GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRI ENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQP DMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMD EFELQGPTITTFNFDRNRIIAFRQLAAENKYGLVDTMRVGNQLKGVKTMEELKQAIRN VTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVK CVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNGSETKEEAPKSGDDEFII SSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPD DFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIP AGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPT GELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGN DYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKT KFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLE AAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEYWNGETFTGKLAD QASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFG GLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAA LEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDK TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIP HSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPNFVNEDGVE" mat_peptide <1..965 /gene="ORF1" /product="p48" mat_peptide 966..2063 /gene="ORF1" /product="NTPase" mat_peptide 2064..2594 /gene="ORF1" /product="p22" mat_peptide 2595..2993 /gene="ORF1" /product="VPg" mat_peptide 2994..3536 /gene="ORF1" /product="Pro" mat_peptide 3537..5066 /gene="ORF1" /product="RdRp" gene 5050..6678 /gene="ORF2" CDS 5050..6678 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59263.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTTQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6678..7457 /gene="ORF3" CDS 6678..7457 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59264.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGTVSSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 ccgttgcttg caacaacaac aacgacaaag aaaaatcttc aggtgaaggc ttattcacaa 61 atatgtcttc caccttaaag aaagccctcg gggctaggcc caaacagcct gccccgagag 121 acaaaccaca aaagccccca agaccaccaa ctcccgagtt ggtcaagagg atacctcctc 181 ctccacctaa tgacgaagaa gaagaagaac cagtcattag gtatgaggtt aagagtggga 241 tctctggcct gcccgagctc acaacagtcc cccaaccgga cgtggccaac acagcattca 301 gtgttccacc actgagcttg agagaaaaca gggaggccaa ggaaccgcta acaggggcaa 361 tattagagat gtgggatgga gagatatacc actatggcct gtacgtggag aaaggcttag 421 tgttgggtgt gcacaaacca cctgcagccg taagcatggc aagagtggag ctgacgccgc 481 tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct gaaaatctca 541 ggagactcaa cggagaggca ttcccttaca ccgcctttga caataactgc tatgcctttt 601 gctgctgggt gttagacctc aatgactcat ggcttagcag gaggatggtg caaagaacaa 661 cgggcttctt cagaccttat caagagtgga acagaaaacc cctgcccact atggatgact 721 ccaaaattaa gaaggtagca aatatattcc tatgttcatt gtccacatta ttcaccagac 781 ccataaaaga cctcatagga aaaattaaac cattaaacat attaaatatc ctggcaacgt 841 gtgactggac ttttgccgga atagtggagt ctctgatatt acttgctgaa ctcttcggag 901 ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg gactacgagt 961 tgcaggggcc agaagacctc gccgttgaac tcgtacctgt ggtaatgggt gggattggtt 1021 tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt gtcctcagca gcatcaacac 1081 tcagggcttg caaagatctt ggtgcctatg gcttagagat actcaaattg gtcataaagt 1141 ggttcttccc aaagaaagag gaggccaatg agttagccat ggtgagggcc atagaggatg 1201 ctgtactaga tcttgaggca atagaaaata accacatgac aaccctgttg aaagacaaag 1261 acagcttggc aacatacatg aaaacactgg acatggagga ggagaaagcc aggaggttgt 1321 ccacaaaatc tgcatcccct gacatagttg ggacaatcaa cgccctgctg gctcgaatag 1381 cagcggccag gtcattagtc cacagggcca aggaagagct atctagcagg ataagaccag 1441 tagttgtcat gatatctggc aaaccaggaa taggcaaaac tcatctggcc agggaggtgg 1501 caagaaaggt ggcgtccact ctcacagggg atcaaagagt cggactcata ccaagaaacg 1561 gtgtggacca ttgggatgca tacaaaggtg agagagtcgt gctgtgggac gactatggca 1621 tgagtaaccc cattcatgat gctcttcgca tacaagaatt ggctgatacg tgtcccctta 1681 ccttaaattg tgacagaatt gaaaacaagg gaaaagtttt tgacagtgag gtcataataa 1741 ttacaacaaa ccttgccaat ccagccccac ttgattatgt taattttgag gcctgttcca 1801 ggagaattga tttcctggtg tacgctgatg caccagaagt agaaaaggca aaacgggact 1861 ttcctggtca gccagatatg tggaaggacg ccttcaagcc ggacttttca cacatcaagc 1921 tacagcttgc accccagggc ggctttgaca agaatggcaa caccccacat gggaaaggag 1981 tgatgaagac cctcactacc ggttctctga ttgcccgtgc atcaggccta ctgcatgaga 2041 ggatggatga atttgaactc caaggtccca caatcaccac cttcaatttc gaccggaaca 2101 gaatcatagc attcagacaa ttggccgcag aaaacaagta tggattggtg gacaccatga 2161 gagttggcaa tcaactaaaa ggagtgaaaa ccatggagga acttaaacaa gcaatcagga 2221 atgtgaccat caagaggtgc cggatcatct acggtggctc cacgtatgac cttgaatctg 2281 atggcaaggg caaagttttg gtggaaaagg tcaagaacac ctctgtacag accaacaacg 2341 agttggctgg ggccctgcac catctcaaac acgcccgaat caggtactat gtcaaatgtg 2401 tgcaagaagc agtctattcc atcatacaaa ttgccggcgc tgcgtttgtc accacgcgca 2461 ttgcacgccg catgaacata caagaactct ggtcgaagcc acaattagat caaaatggat 2521 cagagactaa ggaagaggcc cccaagtcag gggatgacga gttcatcata tcttctaagg 2581 acatcaagga ggaaggaaag aagggcaaaa acaaaactgg ccgtggcaag aaacacactg 2641 cattctccag caagggcttg agcgatgagg agtatgacga gtacaagagg ataagagaag 2701 agagaaatgg gaagtactcc atagaggagt atcttcaaga cagagacagg tactatgagg 2761 agctcgccat tgccaaagcc acggaagaag acttctgtga agaggaggag atcaaaatcc 2821 gtcagagaat ttttcgtccc accaggaaac aaagaaagga agagagggcc acattagggc 2881 tagtaacagg ttcagaaatc agaaaaagaa accctgatga cttcaaaccc aaagggaagc 2941 tgtgggccga tgacaacagg agtgttgact acaatgagaa actggatttt gaggcccccc 3001 caagcatatg gtctaggatt gtgagctttg gttctggttg gggcttctgg gtgtcaccaa 3061 gccttttcat aacgtcaact catgtaatcc ccgcaggcat aacagaagca tttggagtct 3121 ccatcaaaca aattcagatc cacaaatcag gtgagttttg ccgattcaga ttcccaaaac 3181 caattagacc agatgtgaca gggatgatct tggaagaagg tgcgcctgag ggcaccgtgg 3241 caactgtgct catcaaacgc cccaccggag agctcatgcc tcttgcagcc agaatgggaa 3301 cacacgcaac catgaaaatt caaggccgca tggttggcgg acagatgggt atgttgctca 3361 ctggatcaaa tgctaaagga atggatttgg gaacaactcc tggtgactgt ggctgtcctt 3421 acatctataa aaggggcaat gactatatag ttattggggt gcacactgca gcagcccgtg 3481 gtggaaacac cgtcatctgt gctacgcagg gaagtgaggg tgaggcaact cttgagggtg 3541 gagatgacaa aggaacatac tgtggagcgc ccattctagg ccctgggggt gcaccaaaat 3601 tgagcaccaa aaccaaattt tggaggtcat cgaacacgcc ccttccacca gggacatatg 3661 aacctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccctcc ctgcagcagg 3721 taatgagaga ccagttgaag ccattcactg aacccagggg caaacctcca cgaccaagtg 3781 tattggaagc ggccaaacaa accatcatca atgtcctcga acaaaccctg gaccctccac 3841 aaaaatggac atacgcacag gcgtgtgcct cacttgacaa aaccacctca agcgggcatc 3901 cctatcacgt ccgaaagaat gaatactgga atggtgagac cttcactggt aaattggcag 3961 accaagcatc aaaagcaaac ctaatgttcg aggaagggaa acacatgaca ccagtgtaca 4021 cagcagcact caaggacgag ctagtcaaga ctgagaaaat ctatggaaag atcaagaaga 4081 gactgctctg gggctctgat ttgtccacca tgatccggtg cgctaggtca tttggtgggc 4141 tcatggacga gatgaaggca cactgcatat cactcccagt ccgagttggc atgaatatga 4201 atgaagatgg cccaataata tttgagaaac attccagata taaatatcac tatgatgcag 4261 actactcgcg ttgggattca acacaacaga gggcagtact agcagcagcc ttggaaatta 4321 tggtcagatt ctctgcagaa ccacaattgg cacaaatagt cgctgaggat ctgctggccc 4381 ctagtgtagt agatgtagga gactttaaaa ttacaataaa tgaagggctc ccctctggtg 4441 tgccatgcac ttctcaatgg aactccatcg cacactggct gctaactctt tgtgccttgt 4501 ctgaagtcac caaactgtcc cctgacatta tacaggcaaa ttccatgttc tcattttacg 4561 gtgatgacga gattgtcagc accgacataa aattggaccc tgaacagtta accgccaaat 4621 tgaaggagta cggcctgaaa ccaacccgcc cagacaaaac cgagggaccc ctgattatca 4681 gtgaagattt gaacggactc actttcctcc gaaggacagt gactcgtgac ccagctggct 4741 ggtttggaaa actggaccaa agctcaattt tgaggcagat gtactggact agaggaccaa 4801 atcatgaaga ccccaatgag acaatgatac cccattctca aagacccata cagctcatgg 4861 cactacttgg tgaagcctct cttcacggac cctctttcta cagtaaaatc agtaaattgg 4921 tcataactga actcaaagaa ggtgggatgg acttttacgt gccaaggcag gaacccatgt 4981 tcaggtggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat ctggctccca 5041 attttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg tgcagccggc 5101 ctcgtgccag aaagtaacaa tgaggtcatg gctcttgaac ccgtggctgg tgccgccttg 5161 gcagccccgg tcactggtca aacaaatatt atagaccctt ggattagagc aaattttgtc 5221 caggccccca atggtgaatt tacagtctct ccccgtaatg cccctggtga agtgctactg 5281 aatctagagt tgggtccaga attaaatcct tatctggcac atttagcaag aatgtacaat 5341 gggtatgccg gtgggatgga ggtgcaggtc atgttggctg ggaacgcgtt cacagccggc 5401 aagttggtct tcgccgccgt gccacctcac ttcccagttg aaaaccttag cccacagcaa 5461 atcaccatgt tccctcacgt gatcatagat gtgagaacct tggaacctgt tctgttacca 5521 ctccctgatg ttaggaataa tttcttccat tataatcaga aagatgatcc caagatgaga 5581 attgtggcta tgctttatac ccccctcagg tctaatggtt caggtgatga tgtgtttaca 5641 gtctcctgca gagtgttgac tagaccttcc cctgactttg acttcacata cctggtgcca 5701 ccaacagtgg agtctaaaac aaaaccattc accctcccaa tcctcacact tggggaactt 5761 tccaattcca gattcccagt gtccatagac cagatgtata ccagccctaa tgaagttata 5821 tcagtgcagt gtcaaaatgg taggtgcaca ctggacgggg agctccaggg gacaacacaa 5881 ctccaagtca gtggcatttg tgctttcaaa ggtgaagtga ccgcccactt gcatgacaat 5941 gatcacctat ataatgttac catcacaaac ttgaatgggt ccccttttga tccctccgag 6001 gatatccctg cccctctggg tgtgcctgac ttccagggaa gggtttttgg tatcatctcc 6061 cagagggaca aacacaatag tcctgggcat aatgaaccag caaacagggg gcacgacgct 6121 gtggtcccca cttacacaac acagtacact ccaaaactgg gacaaattca aattggcaca 6181 tggcagactg acgaccttac agtcaaccaa ccagtcaaat tcaccccagt tggactcaat 6241 gacactgaac attttaacca atgggtggtc cccaggtatg ctggtgccct aaacctcaat 6301 acaaaccttg ccccttctgt tgctccagta tttccaggag agcgcctgct cttcttcaga 6361 tcatacattc ccctcaaggg cggttatgga aacccagcca ttgattgcct actaccacaa 6421 gagtgggtgc aacacttcta tcaggaagca gccccttcaa tgagtgaggt ggccctcgtc 6481 agatacatca acccggacac tggtcgggca ctgtttgagg ccaagctcca cagagctggt 6541 ttcatgacag tctcgagcaa caccagtgcc ccggtggttg tgcctgccaa cggatacttc 6601 agatttgatt cttgggtgaa ccaattctat tctctcgccc ccatgggaac tgggaatggg 6661 cgtagaaggg ttcaataatg gctggagctt ttgtagctgg tcttgcaggg gacgtgctca 6721 gcaatgggct tagttcatta attaatgcag gtgctaatgc aataaatcag agggcagaat 6781 ttgattttaa tcagaaattg cagcaaaatt cttttaatca tgataaggag atgttgcagg 6841 ctcagattca ggcaactaag cagctgcagg cagacatgat ggctataaaa caaggggtct 6901 tgaccgctgg cggcttttcc cctgctgatg cagccagagg tgctgtgaac gcgcccatga 6961 cacaagcgct ggattggaat ggtacaaggt attgggcacc aaactccatg aggaccacat 7021 cttattctgg aaaattcaca tcaaccgccc cagtgaggca ggccgacttc cagcacaccc 7081 aaagccggcc ttcgagtggc tcctctgtgt cttcctttgc cactcagtct tcaaggccaa 7141 ctctgaccac aaccactggt tcctcacatg gcacagtctc atcaaattca actcgcagca 7201 caagcctctc ccaatcaacg gtctccagag ctacatctag gactggtgag tgggttagag 7261 atcaaaatag aaatttggaa ccctacatgc atggtgcctt acagacagcc tttgtcaccc 7321 caccttccag cagggcatct gacgggacag tctcaaccgt cccgaaaggt gttttggact 7381 cctggacacc tgcgtttaac acccgcaggc agccgctttt tgcacacctc cgtaagaggg 7441 gggagtcaca agcttagtga aaaggtgaaa atttatttag gatgaattga ttttacct //