Typing tool
|
Complete norovirus genomes
MW305546 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5069 ORF2: 5050..6672 ORF3: 6672..7478LOCUS MW305546 7520 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate PNV007866 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305546 VERSION MW305546.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7520) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7520) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7520 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="PNV007866" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Peru" /collection_date="25-Jun-2008" /note="genotype: GII.4[GII.P4]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ58974.1" /translation="AVANSNNDTAKSSSDNMFSNMAVTFKRALGARPKQPPPRETPQR PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIINILA SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFRSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS IKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGCPKPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRST GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE AAKKTIINVLEQTIDPPEKWSFSQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASRANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL TLCALSEITNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL 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..6672 /gene="ORF2" CDS 5050..6672 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ58975.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTKGNGSTRGHKATVYTGSAPFTPKLGSVQFETDTDNDFETHQNTKFTPVGVVQDG STTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVLHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6672..7478 /gene="ORF3" CDS 6672..7478 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ58976.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLLAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRINPRTPTPARGSSSISS NASTATSIYSNQTASTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 ccgctgttgc taacagcaac aacgacaccg caaaatcttc aagtgacaac atgttttcta 61 acatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg 121 aaacaccaca aagaccccca cgaccaccta ctccagaact ggttaaaaag atcccccccc 181 ccccgcccaa cggagaggat gaagtagtgg tttcttatag cgccaaagat ggcgtttccg 241 gtttgcctga gctttccacc gtcaggcaac cggaagaaac caacacggcc ttcagtgtcc 301 ccccactcaa tcagagggag aatagagatg ctaaggaacc actgactgga acaattctgg 361 aaatgtggga tggagaaatc taccattatg gcctgtatgt tgatcgaggt cttgtgctgg 421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgaactaaca ccactctcct 481 tgttctggag acctgtgtac actcctcagt accttatctc tccagacact ctcaagaaat 541 tacacggaga aacatttccc tacacagcct ttgacaacaa ttgctatgcc ttttgttgct 601 gggtcctgga tctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggct 661 tcttcagacc ttaccaagac tggaatagga aacccctccc cactatggat gattccaaat 721 taaagaaggt agctaatata ttcctgtgca ccctgtcttc gctattcacc aggcccataa 781 aagacataat aggaaagtta aggcctctca acatcatcaa catcctggct tcatgtgatt 841 ggactttcgc aggcatagtg gagtccttga tactcttggc agagctcttt ggagtcttct 901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgatttc gagttacaag 961 gacctgagga ccttgtagtg gagctcgtcc ctgtagtaat ggggggaatt ggtttggtgc 1021 tagggttcac caaagagaag attggaaaga tgttgtcatc tgctgcatcc accttgagag 1081 cttgtaaaga tcttggtgca tatgggctag agatcctaaa gttagtcatg aagtggttct 1141 tcccgaagaa agaggaggca aacgaactgg ctatggtgag atccatcgag gatgcagtac 1201 tggaccttga ggcaattgaa aacaaccaca tgaccacctt gctcaaagac aaagacagcc 1261 tggcaactta catgagaacc cttgacctcg aggaagagaa ggccagaaaa ctctcaacca 1321 agtctgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgccgctg 1381 cacgctccct ggtgcaccgg gcaaaggagg aactttccag cagaccaaga cctgtagtct 1441 tgatgatatc aggcagacca gggataggga agacccacct tgctagggaa gtggctaaga 1501 gaattgcggc ctccctcaca ggagaccagc gtgtaggcct catcccacgc aatggcgtcg 1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagca 1621 atcccatcca cgacgccctc aggctgcaag aactcgctga cacttgcccc ctcactctaa 1681 attgtgacag gattgagaat aaaggaaagg tctttgacag cgatgttatc attatcacta 1741 ctaatttggc caacccagca ccactggact atgtcaactt tgaagcgtgc tcgaggcgca 1801 tcgattttct cgtgtatgca gaagcccccg aggtcgaaaa ggcgaagcgt gacttcccgg 1861 gccaacctga catgtggaaa aacgctttta ggtctgattt ctcacacata aaattggcac 1921 tggctccaca aggtggcttt gataagaacg ggaacacccc acacgggaag ggtgtcatga 1981 agactctcac cactggctcc ctcattgccc gggcatcagg gctgctccac gagagattgg 2041 atgagtttga gttacagggc ccggctctca ccaccttcaa ctttgaccgc aacaaagtgc 2101 ttgccttcag gcagcttgct gctgaaaaca aatatgggtt gatggacaca atgaaagttg 2161 ggaggcagct caaggatgtt aaaaccatgc cagaactcaa acaagcactc aagaatatct 2221 caatcaagaa gtgtcagatt gtgtatagtg gttgtaccta cacactagag tctgatggca 2281 agggcaatgt gaaagttgac agagttcaga gcacctccgt gcagaccaac aatgagctgg 2341 ctggcgccct gcatcatcta aggtgcgcca gaatcaggta ttatgttaag tgtgtccagg 2401 aggccctgta ttctatcatc cagattgctg gggctgcatt tgtcaccacg cgcatcatca 2461 agcgtgtgaa catccaagac ctatggtcta agccacaagt ggaaaacaca gaggaggcta 2521 ccaacaagga cgggtgccca aaacccaaag atgatgagga gttcgtcatt tcatctgacg 2581 acattaaaac tgagggtaag aaagggaaga acaagactgg ccgtggcaag aagcacacag 2641 ccttctcaag taaaggtctc agtgatgaag agtatgatga gtacaagaga attagagagg 2701 aaaggaatgg caagtactcc atagaggagt acctacagga cagggacaaa tactatgagg 2761 aggtggccat tgccagggcg accgaggaag acttctgtga agaggaggag gccaagatcc 2821 ggcaaaggat cttcagacca acaaggaaac aacgcaagga agaaagagct tctctcggtt 2881 tagtcacagg ttctgaaatc aggaaaagaa acccagaaga cttcaagccc aaggggaagc 2941 tatgggctga cgatgacagg agcgtggact acaatgagaa actcagtttt gaggccccac 3001 caagcatctg gtcaaggata gtcaactttg gctcaggttg gggcttctgg gtctccccta 3061 gcctgttcat aacatcaacc cacgtcatac cccagggcgc aaaggagttc tttggagtcc 3121 ccatcaaaca aattcagata cacaaatcag gcgaattctg tcgcttgagg ttcccaaaac 3181 caatcagaac tgatgtgact ggcatgatct tggaagaagg tgcgcccgaa ggcaccgtgg 3241 tcacactact catcaaaagg tctactggag aactcatgcc cctagcagct agaatgggga 3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcagatgggc atgcttctga 3361 cagggtccaa cgccaaaagc atggatctag gcaccacacc aggtgactgc ggctgtccct 3421 acatctacaa gagaggaaat gactatgtgg tcattggagt ccacacggct gccgctcgtg 3481 ggggaaacac tgtcatatgt gccacccagg ggggtgaggg ggaagctaca cttgaaggtg 3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccagggagt gccccaaaac 3601 ttagcacaaa aaccaaattc tggagatcat ccacagcacc actcccacct ggcacctacg 3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccctcg ttgcagcaag 3721 tcatgaggga ccagctgaaa ccatttacag agcccagggg taagccacca aagccaagtg 3781 tgttagaagc tgccaagaaa accatcatca atgtccttga acaaacaatt gacccacctg 3841 agaagtggtc gttctcacaa gcttgcgcgt cccttgacaa gaccacttct agcggccatc 3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc cttcacaggc aagctggcag 3961 accaggcttc cagggccaac ctgatgtttg aagaagggaa gaacatgacc ccagtttaca 4021 caggtgcact taaggatgaa ttagtcaaaa ctgacaaaat ttatggtaag atcaagaaga 4081 ggcttctctg gggctcggat ttagcaacca tgatccggtg tgcccgagca ttcggaggcc 4141 taatggatga actcaaagca cactgtgtca cacttcctat cagagttggt atgaatatga 4201 atgaggatgg ccccatcatc ttcgagaagc attccagata cagataccac tatgatgctg 4261 attactctcg gtgggattca acacaacaga gagccgtgct ggcagctgct ctagaaatca 4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtagt cgcagaagat cttctttctc 4381 ctagcgtggt ggatgtgggc gacttcacaa tatcaatcaa cgagggtctt ccctctgggg 4441 tgccctgcac ctctcaatgg aactccatcg cccactggct tctcactctc tgtgcactct 4501 ccgagatcac aaatttatcc ccagacatca tacaggctaa ttctctcttc tccttctatg 4561 gtgatgatga aattgttagt acagacataa aattagaccc agagaagttg acagcaaagc 4621 ttaaggagta tgggttgaaa ccgacccgcc ctgataaaac tgaaggacct cttgttattt 4681 ctgaagattt agatggtttg actttcctgc ggagaactgt gacccgcgac ccagctggtt 4741 ggtttggaaa actggagcag agttcgatac tcaggcaaat gtactggact aggggcccca 4801 accatgaaga tccatctgaa tcaatgattc cacactctca aagacccata caattgatgt 4861 ccttactggg agaggccgca cttcacggcc caacattcta cagcaaaatc agcaaattag 4921 tcattgcaga gcttaaagaa ggtggtatgg atttttacgt gcccaggcaa gagccaatgt 4981 tcagatggat gagattttcg gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgtcgg tgccgctatt 5161 gcggcgcctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgtg 5221 caagcccctg gtggagagtt cacagtgtcc cctagaaacg ctccaggtga aatactatgg 5281 agcgcgccct taggccctga tttgaatccc tacctatccc atttggctag aatgtataat 5341 ggttatgcag gtggttttga agtgcaggtg atccttgcgg ggaatgcgtt caccgccgga 5401 aaaattatat ttgcagcagt cccaccaaat ttcccaactg aaggcttgag tcccagccaa 5461 gtcaccatgt tcccccacat aatagtggat gttaggcaat tggaacctgt gttgatcccc 5521 ttacctgatg ttaggaataa cttctatcat tataatcagt caaatgattc taccattaaa 5581 ttgatagcaa tgctgtatac accacttagg gctaacaatg ctggggaaga tgtcttcaca 5641 gtctcttgcc gagtcctcac aaggccatcc cctgattttg attttatatt tttggtgcca 5701 cctacagttg agtcaagaac taaaccattt actgtcccaa tcctaactgt tgaagaaatg 5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggtcccag cggtgccttt 5821 gttgttcaac cacaaaatgg caggtgcacg actgatggcg tgctcttagg caccacccaa 5881 ctgtctcctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggttctcgt 5941 aattacacaa tgaatttggc ttctctaaat tggaacaatt atgacccaac agaagaaatt 6001 ccagcccctc taggaactcc agattttgtg ggaaagatcc aaggtgtgct cactcaaacc 6061 acaaagggaa atggctcgac ccgtggccat aaagctacag tttacaccgg gagtgccccc 6121 tttactccaa agctgggcag tgttcaattc gaaactgaca cagacaatga ttttgaaact 6181 caccaaaaca caaaattcac cccagtcggt gtcgtccagg atggtagcac cacccaccga 6241 aatgaacccc aacaatgggt gctcccaagt tattcaggta gagatgttca taatgtacac 6301 ctagcccctg ctgtagctcc cacttttccg ggtgaacaac ttcttttctt caggtccact 6361 atgcccggat gcagcgggta tcccaacatg gatttggatt gcctactccc ccaggagtgg 6421 gtgctgcact tctaccaaga ggcagcccca gcacaatctg atgtggctct attgagattt 6481 gtgaatccag acacgggtag ggtcctgttt gagtgcaaac ttcataaatc aggttatgtc 6541 acagtggctc acaccggcca gcatgatttg gtcatccccc ccaatggcta ctttaggttt 6601 gattcctggg ttaaccaatt ctacactctt gcccccatgg gaaatggaac ggggcgtaga 6661 cgtgctttat aatggctgga gctttctttg ctggattggc atctgatgtt cttggctctg 6721 gacttggttc cctaatcaat gccggggctg gggctatcaa ccaaaagatt gattttgaaa 6781 acaacagaaa attgcaacaa gcttcctttc agtttagcag caatctacaa caggcttcct 6841 ttcaacatga taaagagatg ctcctagcac aaattgaggc cactaaaaag ttgcaacagg 6901 aaatgatgaa agtcaaacag gcaatgctct tagaaggtgg gttctctgaa acagatgcag 6961 cccgtggggc aatcaacgcc cccatgacaa aggctttaga ttggagcgga acaaggtact 7021 gggcccctga tgctaggact acgacataca atgcaggccg cttttccacc cctcaacctt 7081 cggggacact gccaggaagg atcaatccca ggactcccac ccccgctcgg ggctcctcca 7141 gtatatcttc taatgcttct actgctactt ctatatattc aaatcaaact gcttcaacga 7201 gacttggttc tacagctggt tctggcacca atgtctcgag cctcccgtca actgcaagaa 7261 ctaggagttg ggttgaggat caaaacagga atttgtcacc tttcatgagg ggggctcaca 7321 acatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg 7381 tgcctaaaga agttttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct 7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtagtg tgaaaagaca aaattgatta 7501 tctttctttt ctttttcttt //