Typing tool
|
Complete norovirus genomes
MW305578 | GII.2 | ||
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GII.P30 |
ORF1: 1..5069 ORF2: 5050..6678 ORF3: 6678..7457LOCUS MW305578 7501 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate KL136 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305578 VERSION MW305578.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7501) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7501) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7501 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="KL136" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Malaysia" /collection_date="13-Jul-1978" /note="genotype: GII.2[GII.P30]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59070.1" /translation="AAVNSNNDNAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR PPRPPTPELVKKIPPPPPNGEDEPVVHYSTKDGITGLPELTTVRQPKEVATAFSVPPL DQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL YWRPVYTPQYLIAPDTLRKLHGELFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANILLCALSSLFTRPIKDIIGKLRPLNILNILA SCDWSFASIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RAIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRLRPVVVMISGKPGIGKTHLARELAKKIAITLSGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDVEKAKRDFPGQPDM WKSAYSPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF ELQGPNLTTFNFDRNKIQAFRQLAAENKYGLVDTMRVGGQLKSVRTIPELKQALKNIL IKRCQIVYGGSTYTLESDGKGSVKVEKVQNTNIQINNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIVKRMNIQNLWSRPPVGDAEEVTSQDGCPKPKDDEEFVI SSSDITPEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDERVVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGTQEFFGVPIKQIQIHKSGEFCRLRFPKSIRTDVTGMILEEGAPEGTVVSLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT KFWRSSTVPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPQKWSFSQACASLDKTTSSGHPHHIRKNDCWNGESFTGKLAD QASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGQIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRFSYHYDADYSRWDSTQQRAVLAAA LEIMVKFSPEPHLAQIVAEDLLAPSVMDVGDFKITINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTNLAPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQIYWTRGPNHEDPSETMIP HSQRPIQLMSLLGEAALHGPTFYTKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" mat_peptide <1..959 /gene="ORF1" /product="p48" mat_peptide 960..2057 /gene="ORF1" /product="NTPase" mat_peptide 2058..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="QPJ59071.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLQDNDHLYNITITNLNGSPFDPSEDIPAPLGVPDFQGRVFG VITQRDKQNATGQSQPANRGHDAVVPTYTAQYTPKLGQVQIGTWQTDDLKVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYLPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ" gene 6678..7457 /gene="ORF3" CDS 6678..7457 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59072.1" /translation="MAGAFVAGLAGDVLSSGLSSLINAGANAINQRAEFDFNQRLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPTDAARGAVNAPMTQALDWNG TRYWAPGSMRTTSYSGRFTSTAPARQADFQHTQNRPSSGSSVYSYATQSSRPTLTTTT GSSHGTTSSNSTRSTNLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 ccgctgctgt caacagcaac aacgacaacg caaaatcttc aagtgacgga gtactatcta 61 gtatggctgt cacttttaaa cgagcccttg gggcccggcc taaacagccg cccccgaggg 121 aaataccaca aaggccccca aggccaccca ctccagaact ggtgaaaaag atcccacctc 181 ccccgcccaa cggggaagat gaaccggtcg ttcattatag caccaaagat ggcataactg 241 ggctgcccga acttacaaca gtgaggcagc caaaagaggt tgctacagca ttcagcgtcc 301 cacccctcga ccagagagag aatagggacg ctaaggagcc attgaccggc accatcttgg 361 agatgtggga tggcgagatc taccattatg gcctatatgt ggagcgaggg ctggtgcttg 421 gcgtgcacaa accaccagcc gccatcagcc tcgctaaagt tgagttaaca cctctatctt 481 tgtattggag accagtgtac accccccagt acctcattgc tcctgacacc ctcaggaaac 541 tgcacgggga gttatttcca tacacggcct ttgataacaa ctgctatgcc ttctgctgct 601 gggtgttgga cttaaatgat tcttggttga gcagaaggat gatacagaga acaactggct 661 ttttcaggcc ttaccaagat tggaatagga agcccctccc caccatggat gactccaagt 721 tgaagaaggt ggccaacata cttttgtgtg ccttgtcatc actattcact agacccatca 781 aggacataat tgggaaactc aggcctctca acatccttaa catcctggct tcttgtgatt 841 ggtctttcgc aagtatagtg gaatctctaa ttctcctagc tgaactcttt ggagttttct 901 ggacaccccc agatgtgtct gcgatgatcg cccccttact gggtgactac gagctgcaag 961 gacctgaaga tcttgctgtg gaacttgtac cggtagtaat gggggggata ggattggtgt 1021 tggggttcac caaggaaaag attgggaaga tgttatcatc tgccgcctcc accctgaggg 1081 cctgcaaaga ccttggcgcc tatgggctgg aaattctgaa actggtcatg aaatggtttt 1141 tcccaaagaa agaggaggca aacgagcttg cgatggtgag ggctattgag gacgcagtcc 1201 tagacctcga ggctattgag aacaaccata tgacagctct actcaaagac aaagatagcc 1261 tcgcgacata catgaggact cttgatttgg aggaagaaaa ggccagaaag ctctccacta 1321 agtccgcttc acctgatata gtgggcacga tcaacgccct actggctaga attgccgctg 1381 ctcgttccct tgtacacagg gccaaggaag aactgtccag caggctaagg ccagttgttg 1441 tgatgatatc tggcaagcct ggcatcggga agacccatct ggctagagaa ttggcaaaga 1501 agatcgctat aaccctctca ggagaccaga gggtaggcct catcccccgc aacggagtcg 1561 accactggga tgcttacaag ggtgagagag tcgttctctg ggacgactat ggaatgagta 1621 accctgtcca tgatgcccta agactccaag aacttgccga cacctgcccc ctgaccctaa 1681 actgtgacag aattgagaac aagggcaagg tttttgacag tgatgccata atcatcacaa 1741 ccaacctggc taacccagct ccacttgatt atgtcaactt tgaagcttgc tccaggcgca 1801 ttgacttcct cgtgtatgcc gatgcacctg acgttgagaa ggcgaagcgc gacttcccgg 1861 gacaacctga catgtggaag agcgcttaca gtcccgactt ctcacacatc aagctaatgc 1921 tggctcccca gggtggtttt gacaaaaatg gcaacacccc acacgggaaa ggtgtcatga 1981 agaccctcac aacaggctcc ctcattgccc gtgcttcagg gctcctccat gaaagactgg 2041 atgaattcga actacaagga cccaacctca caactttcaa ctttgaccgt aataaaatac 2101 aggcttttag gcagcttgct gccgaaaaca aatatggcct ggtggacaca atgagagtgg 2161 gtggacaact caagagtgtc agaactatac cagaactcaa gcaggccctc aagaacatat 2221 taatcaaaag gtgccagata gtgtacggtg gtagcaccta cacacttgaa tctgatggca 2281 aagggagtgt gaaagtggaa aaagtgcaaa ataccaacat ccaaatcaac aacgagctag 2341 ctggtgctct acaccacctc cgatgcgcca ggatcaggta ttatgttaaa tgtgttcagg 2401 aggctcttta ctccatcatc caaattgctg gggccgcgtt tgtaaccacg cgcattgtga 2461 agcgcatgaa catacagaac ttgtggtcaa ggcctccagt aggagatgcg gaggaggtca 2521 ctagccagga tggttgccca aagcccaaag atgatgagga gttcgtcatc tcgtctagtg 2581 acatcacgcc tgaaggcaag aaaggaaaga acaagactgg ccgcggtaag aaacacacag 2641 ccttctcgag caagggtctt agtgatgagg agtacgatga gtacaaaaga attagggaag 2701 aaaggaatgg caagtactcc atagaagaat accttcagga cagagacaag tattatgagg 2761 aagtggccat agccagggca actgaggaag acttctgtga ggaagaagaa gccaagatcc 2821 gacagaggat atttaggcca acgaggaagc aacgcaagga ggagagggct tcccttggcc 2881 ttgtcaccgg ctcagagatc agaaagagaa acccagacga cttcaaacct aaaggaaagc 2941 tgtgggctga tgatgaaagg gttgttgact ataatgagaa actcagtttt gaggcccccc 3001 cgagcatctg gtcaaggata gtcaactttg ggtcaggatg ggggttttgg gtgtccccta 3061 gcctgttcat tacatcaacc catgttatac cccaaggcac tcaggaattc tttggtgtac 3121 ccatcaagca gattcaaatt cacaaatcag gggagttttg ccgcctgaga ttccctaaat 3181 caatcagaac tgatgtaaca ggcatgatcc tagaagaggg agccccagaa ggaaccgtgg 3241 tctcactact catcaagaga ccaaccggtg agctcatgcc cctggcagcc agaatgggca 3301 cccatgcgac tatgaagatc caaggtcgca cggttggggg tcagatgggc atgttgctaa 3361 cagggtccaa tgctaaaagc atggatttgg gcacgacgcc tggtgactgt ggctgcccct 3421 acatttacaa gagaggcaat gactacgtgg tcatcggcgt gcacacagcc gcggctcgcg 3481 gaggtaacac cgtcatctgt gcaacccagg gtagtgaagg tgaggccacg ctcgaaggcg 3541 gtgataacaa aggtacctac tgtggagctc caatactagg tcctggtagc gcacccaaac 3601 tcagtaccaa gactaagttc tggaggtcct ccacagtgcc actcccaccc gggacctatg 3661 aaccagccta cttaggtggc aaggatccca gggtgaaggg tggaccttca ctacaacaag 3721 tcatgagaga ccagctaaaa ccattcactg agcctagggg caaaccaccc aagccaagtg 3781 tgctggaagc cgccaagaag accattatca atgtgttgga gcaaacaata gatccccccc 3841 aaaaatggtc attttcacaa gcatgtgcgt cgcttgataa aaccacctcc agcggccacc 3901 cccaccacat acggaagaac gattgctgga atggagagtc ttttacagga aaattggcag 3961 atcaagcatc aaaagctaac ctaatgtatg aggaaggaaa gaacatgacc ccagtctata 4021 caggggccct caaggatgag ctggtcaaga ctgacaagat ttatgggcag atcaagaaaa 4081 ggcttctttg gggctcggac ttggcaacaa tgatccgttg tgcgcgggcg tttggagggt 4141 tgatggatga gcttaaggcc cattgtgtaa cacttcctgt cagggttgga atgaacatga 4201 atgaggatgg acccataatc ttcgaaaagc actccaggtt ctcatatcac tatgatgcag 4261 actactcgcg ctgggactca acccaacaga gggcagtgct agctgcagcc ttggaaatca 4321 tggtaaaatt ctcaccagaa ccacatttgg cccaaattgt tgcagaggat ctcctagccc 4381 ccagtgtgat ggatgtaggt gatttcaaaa taacaattaa cgagggtctg ccctcgggag 4441 taccctgcac atcacagtgg aattccatcg cccactggct cctcacactc tgtgcactat 4501 ctgaagtcac aaacctggct cctgacatca tacaagctaa ctccttgttc tctttctatg 4561 gtgatgatga aattgtgagt actgacataa aattagaccc agagaaactc acagcaaaac 4621 tcaaagaata cggactcaaa ccaacccgcc cggacaaaac tgaaggaccc ctgatcatat 4681 ccgaggactt gaatggtttg acctttctgc ggcggaccgt gacccgtgat ccagctgggt 4741 ggtttggcaa gttggaccag agttcaattc tcaggcagat atactggact aggggcccca 4801 accatgagga cccgtccgaa acaatgatac cacactccca gaggcctata cagctgatgt 4861 ctcttttggg tgaagcagcc ttgcatggtc caacatttta caccaaaatc agtaaattgg 4921 tcatcacaga gctgaaggaa ggtggcatgg atttttacgt gcccagacag gaacccatgt 4981 tcaggtggat gaggttctcg gatttgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg tgcagccggc 5101 ctcgtgccag aaagtaataa tgaggtcatg gctcttgagc ctgtggctgg tgctgccttg 5161 gcagccccgg ttaccggtca aacaaatatt atagaccctt ggattagagc aaattttgtc 5221 caggccccta atggtgaatt cacagtttct ccccgcaatg cccctggtga agtgctattg 5281 aatctagaat tgggtccaga attaaatcct tatctggcac atttggcaag aatgtacaac 5341 gggtatgccg gtgggatgga ggtgcaggtc atgctagctg ggaacgcgtt cacagctggc 5401 aaattggtct tcgctgctgt accacctcat tttccggttg aaaaccttag cccacagcaa 5461 attaccatgt tccctcatgt gattatagat gttaggactt tggaacctgt tttgttgcca 5521 ctccccgatg ttagaaataa tttcttccat tataatcaaa aagatgatcc taagatgaga 5581 attgtggcta tgctttatac tcccctcagg tccaatggtt ctggtgatga tgtgttcaca 5641 gtctcttgca gggtgttgac tagaccctcc cctgattttg attttacata cctggtgcca 5701 ccaacagtgg aatccaaaac aaaaccattc actcttccaa tccttacact tggggagctt 5761 tccaattcta gatttccagt gtccatagac cagatgtaca ctagccccaa tgaagtcata 5821 tctgtgcagt gccagaatgg aaggtgcaca ctggatgggg agctccaagg aacaacacag 5881 ctccaagtta gtggcatttg tgcattcaaa ggagaagtga ccgcccactt gcaggacaat 5941 gatcacctat ataacatcac catcacaaac ttgaatgggt cccctttcga tccctctgag 6001 gacatccccg cccccctggg tgtgcccgac tttcagggaa gagtctttgg tgtcatcact 6061 caaagagaca aacagaatgc cactgggcaa agccagccgg caaacagggg acacgatgct 6121 gtagttccca cttacacagc ccagtacacc ccaaaattgg gtcaggttca aattggcaca 6181 tggcagaccg acgatcttaa agtcaaccaa ccagtcaaat tcaccccagt cggtctcaat 6241 gacacagaac atttcaatca gtgggtggtt cctaggtacg ctggtgcttt aaatctaaat 6301 acaaatcttg ccccctctgt tgctccagtg tttccagggg agcgtttgct cttctttagg 6361 tcatacctcc cccttaaggg tggttatgga aacccagcta ttgattgcct gctaccacaa 6421 gagtgggtgc agcattttta tcaggaagca gccccctcaa tgagtgaggt agcccttgtc 6481 agatacatca atccggacac tggccgggcg ctgtttgagg ccaaactcca cagagctggt 6541 ttcatgacag tctcgagtaa caccagtgct ccggtggttg tgcctgccaa cggatacttc 6601 agatttgact cttgggtgaa ccaattttat tctcttgccc ccatgggaac tggaaatggg 6661 cgtagaagga ttcagtaatg gctggagctt tcgtagctgg tctcgcgggg gatgtgctca 6721 gcagtgggct cagttcacta attaatgcag gtgctaatgc aataaatcag agagcagaat 6781 ttgattttaa tcagagatta cagcaaaatt cttttaatca tgataaggag atgttgcagg 6841 ctcagattca ggcaactaag cagctgcagg cagacatgat ggctataaag cagggggttc 6901 tgaccgctgg cggcttttcc cctactgatg cagccagagg cgctgtgaac gcgcccatga 6961 cacaggcgct ggattggaat ggcacaaggt attgggcacc aggctccatg aggactacat 7021 cctactctgg caggtttaca tcgaccgccc cggcaaggca ggccgacttt caacacactc 7081 aaaatcggcc ttcgagtggc tcttctgtgt actcttatgc cactcaatct tcaagaccaa 7141 ctctaaccac aaccacaggg tcctcacacg gtacaacctc atccaattcg acccgtagca 7201 caaacctttc ccagtcgacg gtctctaggg ctacctctag gactagtgag tgggttagag 7261 atcaaaatag gaatttggaa ccctacatgc atggtgcctt acagacagcc tttgtcaccc 7321 caccttccag cagggcatct gacgggacag tctcaaccgt ccccaaaggt gttttggact 7381 cctggacacc tgcgttcaac acccgcaggc agccgctttt tgcacacctc cgtaagaggg 7441 gggagtcaca agcttagtga aaaggtgaaa atttatctta agttaattga ttctaccttt 7501 t //