Typing tool
|
Complete norovirus genomes
MW305558 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5069 ORF2: 5050..6672 ORF3: 6672..7478LOCUS MW305558 7520 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate 249HBO nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305558 VERSION MW305558.1 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7520) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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="249HBO" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Paraguay" /collection_date="19-Aug-2016" /note="genotype: GII.4[GII.P16]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59010.1" /translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDEPRK PPRPPTPELVKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVP PLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPL SLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQR TTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNI LATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELA MVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVG TINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKVASTLT GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRI ENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQP DMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMD EFELQGPAITTFNFDRNRITSFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRN VTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVK CVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFII SSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPD DFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIP AGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPT GELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGN DYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKT KFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLE AAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLAD 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..6672 /gene="ORF2" CDS 5050..6672 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59011.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKPGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6672..7478 /gene="ORF3" CDS 6672..7478 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59012.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc aggtgaaggc ttattcacaa 61 atatgtcttc caccttaaag aaagccctcg gggctaggcc taaacagcct gccccgagag 121 acgaaccacg aaagccccca agaccaccaa ctcccgagtt ggtcaagagg ataccccctc 181 ctccacctaa tggcgaagaa gaaggagaac cagtcattag gtatgaggtt aagagtggga 241 tctctggcct gcccgagctc acaacagtcc cccaaccgga cgtggccaac acagcattca 301 gtgttccacc actgagcttg agagaaaaca gggaggctaa agaaccgcta acaggggcaa 361 tattagagat gtgggatgga gagatatacc actatggcct gtacgtggag aaaggcttag 421 tgttgggtgt gcacaaacca cctgcagcca taagcatggc aagagtggag ttgacgccgc 481 tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct gaaactctca 541 ggaggctcaa cggagaggcg ttcccttaca ccgcctttga caacaactgc tatgcctttt 601 gctgctgggt gttagacctc aatgactcat ggcttagcag gaggatggtg caaagaacaa 661 cgggcttctt cagaccttac caagagtgga acagaaaacc cctgcctacc atggatgact 721 ccaaaattaa gaaggtagca aatatattcc tatgttcatt gtccacatta ttcaccagac 781 ccataaaaga cctcatagga aagattaaac cattaaacat actgaacatc ctggcaacgt 841 gtgactggac gtttgccgga atagtggagt ctctgatatt atttgctgaa ctcttcggag 901 ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg gactacgaat 961 tgcaagggcc agaagacctc gccgttgaac tcgtacctgt ggttatggga gggattggtt 1021 tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt gtcctcagca gcatcaacac 1081 tcagggcttg caaagatctt ggtgcctatg gcttagagat actcaaattg gtcatgaagt 1141 ggttcttccc aaagaaagag gaggccaatg agctagccat ggtgagggcc atagaggatg 1201 ccgtactaga tcttgaggca atagaaaata accacatgac aaccctgttg aaagacaaag 1261 acagcttagc aacatacatg aaaacactgg acatggagga ggagaaagcc agaaggttgt 1321 ccacaaaatc tgcatcccct gacatagttg ggacaatcaa cgccctgctg gctcgaatag 1381 cagcggccag gtcattagtc cacagggcca aggaagaact gtctagcagg atgagaccag 1441 tagttgttat gatatcaggc aaaccaggaa taggcaaaac tcatctggcc agggaggtgg 1501 caagaaaggt ggcatccact ctcacagggg atcaaagagt cggactcata ccaagaaacg 1561 gtgtggacca ttgggatgca tacaaaggtg agagagtcgt gctgtgggac gactatggca 1621 tgagtaaccc catacatgat gctcttcgca tacaagaatt ggctgacacg tgtcccctta 1681 ccttaaattg tgacagaatt gaaaataagg gaaaagtttt tgacagtgag gtcataataa 1741 tcacaacaaa ccttgccaat ccagccccac ttgattatgt caacttcgag gcctgttcca 1801 ggagaattga ttttctggtg tacgctgagg caccagaagt agaaaaggca aaacgggact 1861 ttcctggtca gccagatatg tggaaggacg ccttcaagtc ggacttctca cacatcaagc 1921 tacagcttgc acctcagggc ggctttgaca agaatggtaa caccccacat gggaagggag 1981 tgatgaagac cctcactacc ggttctctga ttgcccgcgc atcaggccta ctgcatgaga 2041 ggatggatga atttgaactc caaggtcccg caatcaccac cttcaatttc gaccggaaca 2101 gaatcacatc attcagacaa ttggctgcgg aaaacaagta tggattggtg gataccatga 2161 aagttggcaa tcaactaaaa ggagtgaaaa ccatggaaga actcaaacaa gcaatcagga 2221 atgtgaccat caagaggtgc cggatcatct acggtggctc cacgtatgac cttgaatctg 2281 atggcaaggg caaagttttg gtggaaaagg tcaagaacac ctctgtacag accaacaacg 2341 agctggctgg ggccctgcac catctcaaac acgcccgaat caggtactat gtcaaatgtg 2401 tgcaagaagc agtctattcc atcatacaaa ttgccggcgc tgcgtttgtc accacgcgca 2461 ttgcacgccg catgaacata caagaactct ggtcgaagcc acaattagat caaaatgaat 2521 cagagactaa ggaagaggcc cccaagtcag aagatgacga gttcatcata tcttctaagg 2581 acatcaagga ggaaggaaag aagggcaaaa acaagactgg ccgtggcaag aaacacactg 2641 cattctccag caagggcttg agcgatgagg agtatgacga gtacaagagg ataagagaag 2701 agagaaatgg gaagtactct atagaggagt atcttcaaga cagagacagg tactatgagg 2761 agctcgccat tgccaaggcc acggaagaag acttctgtga agaggaggag atcaaaatcc 2821 gtcagagaat tttccgtccc accaggaaac aaagaaagga agagagggcc acactagggc 2881 tagtaacagg ttcagaaatc agaaaaagaa accctgatga cttcaaaccc aaagggaagc 2941 tgtgggccga tgacaacaga agtgtcgact acaatgagaa actggacttt gaggcccccc 3001 caagcatatg gtctaggatt gtgagttttg gttctggctg gggcttctgg gtatcaccaa 3061 gcctgttcat aacatcaacc catgtaatcc ccgcaggcat aacagaagca tttggagtcc 3121 ccatcaaaca aattcagatt cacaaatcag gtgaattttg ccgattcaga ttcccaaaac 3181 caattagacc agatgtgaca ggaatgatct tagaagaagg tgcgcctgaa ggcaccgtag 3241 caactgtgct tatcaaacgc cccaccggag agctcatgcc tcttgcagcc agaatgggaa 3301 cacatgcaac catgaaaatt caaggccgca tggttggcgg acagatgggc atgttgctca 3361 ctggatcaaa tgctaaagga atggatttgg gaacaactcc tggtgactgt ggctgtcctt 3421 acatctataa aaggggcaat gactatatag ccatcggggt gcacactgca gcagcccgtg 3481 gtggaaacac cgtcatctgt gccacacagg gaagtgaggg tgaggcaact cttgagggtg 3541 gagatgacaa aggaacatac tgtggggcac ctattctagg ccctgggggt gcaccaaaat 3601 tgagcaccaa aaccaaattt tggaggtcat cgaacacgcc ccttccacca gggacatatg 3661 agcctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccctcc ttgcagcagg 3721 taatgagaga ccagttgaag ccattcactg aacccagggg aaaacctcca agaccaagtg 3781 tattggaagc agccaaacaa accattatta acgtcctcga acaaaccctg gaccctccac 3841 aaaaatggac atacgcacag gcgtgtgcat cacttgacaa aaccacctcc agcgggcatc 3901 cccatcacgt ccgaaagaat gaattctgga atggtgagac cttcactggc aaattggcag 3961 accaagcatc aaaggcaaac ctaatgtttg aggaagggaa acacatgaca ccagtgtata 4021 cagcagcact caaggacgag ctagtcaaga ctgagaaaat ctatggaaag atcaagaaga 4081 gactgctctg gggctctgac ttgtccacca tgatccggtg cgctaggtca tttggtgggc 4141 tcatggacga gatgaaggca cactgcatat cactcccagt acgagttggc atgaatatga 4201 atgaagatgg cccaataata tttgagaaac attccagata caaataccac tatgatgcag 4261 actactctcg ttgggattca acacaacaga gggcagtgct agcagcagcc ttggaaatca 4321 tggtcagatt ctctgcagaa ccacaattgg cacaaatagt cgctgaggat ctgctggccc 4381 ctagtgtagt agatgtagga gactttaaaa tcacaataaa tgaagggctc ccatctggtg 4441 tgccatgcac ttctcaatgg aactccatcg cacactggct gctaactctc tgtgccttgt 4501 ctgaagtcac caaactgtcc cctgacatta tacaagcaaa ttccatgttc tcattttacg 4561 gtgatgacga gattgtcagc accgacataa aattggaccc tgaacagtta accgccaaat 4621 tgaaggagta cggcctgaaa ccaacccgcc cagacaagac cgagggaccc ctgattatca 4681 gtgaagattt gaacggactc actttccttc gaaggacggt gactcgtgac ccagctggct 4741 ggtttggaaa actggaccaa agctcaattt tgaggcagat gtactggact agaggaccaa 4801 atcatgaaga ccccaatgag acaatgatac cccattctca aagacccata cagctcatgg 4861 cactgcttgg tgaagcctct cttcacggac cctctttcta cagtaaaatc agtaaattgg 4921 tcataactga actcaaagaa ggtgggatgg acttttacgt gccaaggcag gaacccatgt 4981 tcagatggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat ctggctccca 5041 attttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac 5101 ctcgtaccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgctatt 5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta 5221 caagcccctg gtggggagtt tacagtatcc cctagaaacg ctccaggtga aatactatgg 5281 agcgcgcccc taggccctga cctgaatccc tacctatccc atttggccag aatgtacaat 5341 ggttatgcag gtggttttga agtgcaggta attctcgcag ggaacgcgtt caccgccggg 5401 aagatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttaag tcctagccag 5461 gtcactatgt tcccccatat aatagtggat gttagacaat tagaacctgt gctgattccc 5521 ttacccgatg tcaggaataa tttctatcat tacaaccagt caaatgattc cactattaag 5581 ttgatagcaa tgttgtacac accactcagg gctaataatg ctggggatga tgttttcaca 5641 gtttcgtgcc gagttctcac gagaccatcc cccgattttg atttcatatt tttagtgcca 5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttttaactgt tgaggagatg 5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggccccag cagtgccttt 5821 gttgttcaac cacaaaacgg caggtgcaca actgatggcg tgctcctagg taccacccaa 5881 ttgtctcctg tcaacatctg caccttcaga ggggatgtca cccacatcac aggtagtcgc 5941 aactacacaa tgaatttggc ttctcaaaat tggaacaact atgatccaac agaagaaatc 6001 ccagcccctc taggaactcc agattttgtg gggaagattc aaggcatgct cacccaaacc 6061 acaaggacag atggttcgac acgcggccac aaagctacag tgtacactgg gagcgccgac 6121 tttgctccaa aactgggtag agttcaattt gaaactgaca cagaccatga ttttgaagct 6181 aatcaaaaca caaagttcac cccagtcggt gtcatccaag atggcagcac cacccaccga 6241 aacgaacccc aacagtgggt gctcccaagt tactcaggca gaaatactca caatgtacat 6301 ctggcccccg ctgtagcccc caccttcccg ggtgagcaac ttctcttctt cagatccacc 6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctgctccc ccaggaatgg 6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg atgtggctct gctaagattt 6481 gtgaatccag acacaggtag ggttttgttt gagtgcaagc ttcacaaacc aggctatgtt 6541 acagtggctc acactggcca acatgatttg gttatccccc ctaatggtta ttttaggttt 6601 gattcctggg tcaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga 6661 cgtgcagtat aatggctggt gctttctttg ctggattggc atccgatgtc cttggctctg 6721 gacttggttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa 6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatctgcaa caggcttcct 6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc caccaaaaag ctacaacagg 6901 aaatgatgaa agttaagcag gcaatgctcc tagagggtgg gttctctgag acagatgcag 6961 cccgcggggc aatcaacgcc cccatgacaa aagctttgga ttggagcggg acaaggtact 7021 gggctcccga tgctaggact acaacataca atgcaggccg cttttccacc cctcaaccat 7081 cggggacact gccaggaaga gctaatctta gggatgctgt ccctgctcgg ggaccctcca 7141 acaaatcttc taactcttct actgccacct ctgtgtactc aaatcaaact atctcaacga 7201 gacttggttc tacagctggt tctggaacca gtgtctcgag cctcccgtca actgcaagga 7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc tttcatgagg ggggcccaca 7321 acatatcatt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg 7381 tgcctaaaga gattttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct 7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtaatg tgaaaagaca aaactgatta 7501 cctttctttt tctttagtgt //