Typing tool
|
Complete norovirus genomes
MW305545 | GII.4 Osaka | ||
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GII.P4 US95 |
ORF1: 1..5067 ORF2: 5048..6670 ORF3: 6670..7476LOCUS MW305545 7518 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate PNV007123 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305545 VERSION MW305545.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7518) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7518) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7518 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="PNV007123" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Peru" /collection_date="01-Jun-2008" /note="genotype: GII.4[GII.P4]" gene <1..5067 /gene="ORF1" CDS <1..5067 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QPJ58971.1" /translation="AVANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQPPPREVPQR PPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPEENNTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGLVLGVHKPPAAISLAKVELSPLSL FWRPVYTPQYLISPDTLRKLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANVFLCALSSLFTRPIKDIIGKLRPLNILNILA SCDWTFAGIVESLILLAELFGVYWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKQEENELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIASTLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRDFPGQPDM WKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEF ELQGPALTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGRQLKEVKTMPDLKQALRNIS IKKCQIVYSGCTYVLESDGKGNVKVDKVQSTSVQTNNELSGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTGEAINKDGCPKPKDDEEFVI SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT GELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKREN DYVVIGVHTAAARGGNTVICATQGSEGEATLEGSDSKGTYCGAPILGPGSAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPKPSVLE AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGRIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHARYKYHYDADYSRWDSTQQRAVLASA LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TKGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" mat_peptide <1..957 /gene="ORF1" /product="p48" mat_peptide 958..2055 /gene="ORF1" /product="NTPase" mat_peptide 2056..2592 /gene="ORF1" /product="p22" mat_peptide 2593..2991 /gene="ORF1" /product="VPg" mat_peptide 2992..3534 /gene="ORF1" /product="Pro" mat_peptide 3535..5064 /gene="ORF1" /product="RdRp" gene 5048..6670 /gene="ORF2" CDS 5048..6670 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ58972.1" /translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLERLYTGPSSAFVVQPQNGRCTTDGVLLGTT QLSAVNICTFRGDVTHIAGSRNYAMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRRDGSTRGHKATVLTGSADFAPKLGRVQFATDTDNDFESGENTKFTPVGVIQDG STTHRNEPQQWVLPNYSGRTGHNVHLAPAVAPTYPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVRHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6670..7476 /gene="ORF3" CDS 6670..7476 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ58973.1" /translation="MAGAFFAGLASDVLGSGLGSLIGAGAGAINQKIDFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINSRTPTPARGSSSTSS NASIATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 gctgttgcca acagcaacaa cgacatcgca aaatcttcaa gtgacggagt gctttctagc 61 atggctgtca cttttaaaag agccctcggg gcgcggccta aacagccccc cccgagggaa 121 gtaccacaaa gacccccacg accacccacc ccagaactgg tcaaaaagat cccccccccc 181 ccgcccaacg gggaggatga aatagtggtt tcctatagtg tcaaagatgg tgtttccggc 241 ttgcccgaac tttccaccgt cagacaaccg gaagaaaaca atacagcctt cagtgttccc 301 ccactcaacc agagggaaaa tagggatgct aaggagccac tgactgggac aattttggaa 361 atgtgggatg gagagatcta tcattacggt ctctatgtgg agcaaggtct tgtacttggt 421 gtgcacaaac caccagctgc cattagcctc gccaaggtcg agctatcacc actctccttg 481 ttctggagac ctgtgtatac cccacaatac ctcatttccc cagacactct caggaaatta 541 cacggggagt cgtttcccta cacagccttt gacaacaatt gctatgcctt ctgttgttgg 601 gtcttggacc taaacgactc gtggctgagt aggaggatga tccagagaac tactggcttt 661 ttcagaccct accaagattg gaataggaaa cccctcccca ctatggatga ttccaaatta 721 aagaaagtag ccaacgtatt cctgtgtgct ctatcttcac tattcaccag gcccataaaa 781 gatataatag ggaaactaag gccccttaac atcctcaaca tcttggcctc atgtgattgg 841 actttcgcag gtatagtgga atccctgata cttctggcgg agctctttgg agtttactgg 901 acacccccag atgtgtctgc aatgattgcc cccttactcg gcgattacga gttgcaaggg 961 cctgaggacc ttgcagtgga acttgttcct gtagtgatgg ggggaattgg tttggtgcta 1021 ggatttacca aagagaagat tggaaaaatg ctgtcatctg ctgcatccac cttaagggct 1081 tgtaaagatc ttggtgcata cgggctggaa atcctaaagt tagttatgaa gtggttcttc 1141 ccaaagaaac aggaagaaaa tgaactggct atggtgaggt ccatcgagga tgcagtgctg 1201 gacctcgagg caattgaaaa caaccacatg accacattgc tcaaggacaa agacagtctg 1261 gcaacctaca tgagaaccct tgaccttgag gaggagaaag ccaggaagct ctcaaccaag 1321 tccgcttcac ctgacatcgt gggcacaatc aacgcccttc tggcgaggat cgctgctgca 1381 cgttccctgg tgcatcgagc aaaggaggag ctttccagca gaccaagacc agttgtcctg 1441 atgatatcag gcagaccagg aatagggaag actcaccttg ctagagaagt ggccaagaga 1501 atcgcatcca ccctcacagg agaccagcgt gtgggcctca tcccacgcaa tggcgtcgac 1561 cactgggatg cgtacaaggg ggaaagggtc gtcctatggg acgactacgg gatgagtaat 1621 cccatccacg acgcactcag gctgcaagaa ctcgctgaca cctgccccct cactctgaac 1681 tgtgacagga ttgagaacaa aggaaaggtc tttgacagtg atgtcataat tattaccact 1741 aatctggcca acccagcacc actggactat gtcaactttg aggcgtgctc gaggcgcatc 1801 gatttcctcg tgtatgcgga agcccctgat gttgagaagg cgaaacgtga cttcccagga 1861 caaccagaca tgtggaagaa cgccttcagt tctgacttct cacacataaa actgacactg 1921 gccccacaag gtggcttcga caagaacgga aacaccccgc acggaaaggg cgtcatgaag 1981 acactcacca ctggctccct cattgcccgg gcatcagggc tacttcatga gaggatggat 2041 gagtttgaat tacagggccc ggctctcacc accttcaact ttgatcgcaa caaagtgctt 2101 gcctttaggc agcttgctgc tgaaaacaaa tacgggttgg tggacacaat gagagtcgga 2161 aggcagctca aggaggttaa aaccatgcca gatcttaaac aggcactcag gaacatctca 2221 attaagaagt gccagattgt gtacagtggt tgtacttatg tacttgagtc tgatggcaag 2281 ggcaacgtga aagttgacaa agttcagagc acctctgtgc agaccaacaa cgagctgtcc 2341 ggcgccctac accatctgag gtgcgccaga attaggtatt acgttaagtg tgttcaggag 2401 gccctgtatt ccatcatcca aattgctgga gctgcatttg tcaccacgcg catcgtcaag 2461 cgcatgaaca tacaagacct ctggtccaag ccacaagtgg aagacacagg ggaggctatc 2521 aataaggacg ggtgcccaaa acccaaagat gatgaggagt tcgtcatttc atctgacgat 2581 atcaaaactg agggcaagaa agggaagaac aagactggcc gcggcaagaa gcacacagcc 2641 ttctcaagca aaggtcttag tgatgaagag tacgatgagt acaagaggat tagagaagaa 2701 agaaatggca agtactctat agaagagtac ctccaggaca gggacaaata ctatgaggag 2761 gtggccattg ctagggcaac tgaggaagac ttctgtgaag aagaggaggc caagattcgg 2821 caaaggattt tcaggccaac aaggaaacaa cgcaaggagg aaagggcctc tctcggtttg 2881 gtcacaggct ctgaaatcag gaaaagaaac ccagatgatt tcaagcccaa ggggaagctg 2941 tgggccgacg atgacagaag tgtggactac aatgaaaaac tcagttttga ggccccaccg 3001 agcatctggt cgaggatagt caactttggc tcgggttggg gcttttgggt ctctcccagt 3061 ctgttcataa catcaaccca cgtcataccc cagggtgcta aagagttctt tggagtccct 3121 atcaagcaga tccagataca taagtcaggc gagttttgtc gcttgagatt cccaaaacca 3181 atcagaactg atgtgacggg catgatctta gaagaaggtg cgcccgaagg caccgtggtc 3241 acactgctca tcaagaggcc tactggagaa cttatgccct tagcagctag aatggggacc 3301 catgcaacca tgagaattca agggcgcact gttgggggtc agatgggcat gcttctgaca 3361 ggatccaacg ccaaaagtat ggatctaggc accacaccag gtgactgcgg ctgcccttac 3421 atctataaga gggaaaatga ctatgtggtc attggagtcc acacggctgc cgctcgtggg 3481 ggaaataccg tcatatgtgc cacccaggga agtgaggggg aggccacact tgaaggtagt 3541 gacagtaagg gaacatactg tggagcacca atcctaggcc cagggagcgc cccaaaactc 3601 agcaccaaga ccaaattctg gagatcgtcc acaacaccac tcccacctgg cacttatgaa 3661 ccagcctacc ttggtggtaa ggaccccaga gtcaagggtg gcccttcatt gcagcaggtt 3721 atgagggatc agttgaaacc atttacagaa cccagaggca gaccaccaaa gccaagtgtg 3781 ttggaagccg ccaagaaaac tattatcaat gtccttgaac aaacaattga cccacctgag 3841 aaatggtcat tcgcgcaagc ttgtgcgtcc ctcgataaga ccacttccag tggccacccg 3901 caccacatgc ggaaaaatga ctgctggaac ggggaatcct tcacaggtaa gctggcagat 3961 caggcttcca aggccaacct gatgtttgaa gaggggaaga acatgacccc agtctacaca 4021 ggtgcgctca aggacgaact agttaaaact gacaaaattt atggcagaat caagaagagg 4081 ctgctctggg gctcggactt agcgaccatg atccggtgcg cccgagcgtt tgggggctta 4141 atggatgaac tcaaagcaca ctgtgtcaca cttcctatca gagttggtat gaacatgaat 4201 gaggatggcc ctatcatctt tgagaagcat gccagataca agtaccatta tgatgctgac 4261 tactctcggt gggattcaac acaacagaga gccgtgttag catcagcttt agaaatcatg 4321 gttaaattct cctcagaacc acatttggcc caggtagtcg cagaagacct tctctctcct 4381 agcgtggttg atgtgggcga cttcaaaata tcaatcaatg agggtctccc ctctggggtg 4441 ccctgcacct ctcaatggaa ctccatcgcc cactggcttc tcactctctg tgcgctctct 4501 gaagtcacaa acttgtcccc tgacatcata caggctaatt ccctcttctc cttctatggc 4561 gatgatgaaa ttgttagtac agatataaaa ctagatccag agaaattgac agcgaagctc 4621 aaagaatatg ggttgaaacc aacccgccct gacaagacta aaggacccct tgtcatttct 4681 gaagacctga atggtctgac cttcctgcgg agaactgtga cccgcgatcc agctggttgg 4741 tttggaaaat tggagcagag ttcaatactc agacaaatgt actggactag gggccccaac 4801 catgaagacc catctgaaac aatgattcca cattcccaaa gacccataca attgatgtcc 4861 ctgctgggag aggccgcact ccacggccca gcattctaca gcaagattag caagttggtt 4921 attgcagagc taaaagaagg tggcatggat ttttacgtgc ccaggcaaga gccaatgttc 4981 agatggatga gattctcaga tctgagcacg tgggagggcg atcgcaatct ggctcccagc 5041 tttgtgaatg aagatggcgt cgaatgacgc caacccatct gatgggtcca cagccaacct 5101 cgtcccagag gtcaacaatg aggttatggc tttggagccc gttgtaggtg ccgctattgc 5161 ggcgcctgta gcgggccaac aaaatgtaat tgacccctgg attagaaata attttgtaca 5221 agcccctggt ggagagttta cagtgtcccc tagaaacgct ccaggtgaga tactatggag 5281 tgcgcccttg ggccctgatt tgaaccctta cctttctcat ttggccagaa tgtacaatgg 5341 ttatgcaggt ggttttgaag tgcaggtaat ccttgcgggg aacgcgttca ccgccggaaa 5401 aatcatattt gcagcagtcc caccaaattt tccaactgaa ggcttgagcc ccagccaggt 5461 taccatgttc ccccacataa tagtggatgt taggcaattg gaacctgtgt taatccccct 5521 acctgatgtt aggaacaatt tctatcacta caaccaatca aatgacccca ccattaaatt 5581 gatagcaatg ctgtatacac cacttagggc caataatgct ggagatgatg tcttcacggt 5641 ctcttgtcga gtgctcacga ggccatcccc tgattttgat ttcatatttc tggtaccgcc 5701 aacagttgaa tcaagaacca aaccattcac tgtcccaatc ttaactgttg aggaaatgac 5761 caattcaaga ttccccattc ctttggagag gttgtacacg ggtcccagca gtgcttttgt 5821 tgttcaacca caaaacggca ggtgcacgac tgatggcgtg ctcttaggca ctacccagct 5881 gtctgctgtc aacatctgca cctttagagg agatgtcacc cacattgcag gctctcgcaa 5941 ttatgcaatg aatttggcct ctcaaaattg gagcaactat gacccaacag aagaaatccc 6001 agcccccctg ggaaccccag attttgtggg aaagatccaa ggcatgctca cccaaaccac 6061 aagaagagat ggctcgaccc gcggccacaa agccacagtg ctcactggga gtgccgactt 6121 tgccccaaaa ttgggcagag tccaattcgc cactgacaca gacaacgatt tcgagtctgg 6181 cgaaaacacg aaattcaccc cagtcggcgt catccaggat ggttccacca cccaccggaa 6241 tgaaccccaa caatgggtgc tcccaaatta ctcaggtaga actggtcata atgtgcacct 6301 agcccctgcc gttgccccca cttacccggg agagcaactc cttttcttca ggtccactat 6361 gcccggatgc agcgggtatc ccaacatgga tttggattgc ctactccccc aggagtgggt 6421 gcggcacttc taccaagagg cagccccggc acaatctgat gtggctctat tgagatttgt 6481 gaatccagac acgggtaggg tcctgtttga gtgcaaactt cataaatcag gctatgtcac 6541 agtggctcac accggccagc atgatttggt catccccccc aatggctatt tcaggtttga 6601 ttcctgggtt aatcaattct acacacttgc ccccatggga aatggaacgg ggcgtagacg 6661 tgctttataa tggctggagc tttctttgct ggattggcat ctgatgtcct tggctctgga 6721 cttggttccc taatcggtgc tggggctggg gctatcaacc aaaagattga ttttgaaaat 6781 aacagaaaat tgcagcaagc ttccttccag tttagcagta atctgcaaca ggcttccttt 6841 caacatgata aagagatgct ccaagcacaa attgaggcca ctaaaaagct gcaacaggaa 6901 atgatgaaag tcaaacaggc aatgctctta gagggtggat tctctgaaac agatgcagcc 6961 cgtggggcaa ttaacgcccc catgacaaag gctttggact ggagcggaac aaggtactgg 7021 gcccctgatg ctaggactac aacatacaat gcaggccgct tttccacccc tcaaccttcg 7081 ggggcactgc caggaagaat taactctagg actcctaccc ccgctcgggg ctcctccagc 7141 acatcttcta atgcttctat tgctacttct atatattcaa atcaaactgt ttcaacgaga 7201 cttggttcta cagctggttc tggcaccaat gtctcgagtc tcccgtctac tgcaaggact 7261 aggagttggg ttgaggatca aaacagaaac ttgtcacctt tcatgagggg ggctcacaac 7321 atatcgtttg tcaccccacc atctagcaga tcctctagcc aaggcacagt ctcaaccgtg 7381 cctaaagaaa ttttggactc ctggactggc gctttcaaca cgcgcaggca gcctctcttc 7441 gctcacattc gtaggcgagg ggagtcacgg gtgtaatgtg aaaagacaaa attgattatc 7501 tttcttttct ttttcttt //