Typing tool
|
Complete norovirus genomes
MW305566 | GII.16 | ||
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GII.P16 |
ORF1: 1..5063 ORF2: 5044..6666 ORF3: 6666..7460LOCUS MW305566 7519 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate 899SR nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305566 VERSION MW305566.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7519) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7519) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7519 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="899SR" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Paraguay" /collection_date="2005" /note="genotype: GII.16[GII.P16]" gene <1..5063 /gene="ORF1" CDS <1..5063 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59034.1" /translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDNSQK PPRPPTPELVKRIPPPPPNGEEEPVIRYEVKSGISGLPELTTVPQPNVTNTAFSVPPL SLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKVEMTPLSL YWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTT GFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIKPLNILNILA TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPEDIAVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEVNELAMV RAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARRLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIEN KGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEF ELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEELKQAIKNVS IKRCQIIYNGSTFDLESDGKGKVLVEKVKSTSVQTNNELAGALHHLKSARIRYYVKCV QEAVYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEAKEEAPKLEDDEFIISS KDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDR YYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDF KPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAG IAEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGE LMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDY IVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKF WRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGRPPRPSVLEAA KQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGETFIGKLADQA SKANLMYEEGKHMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDLSTMVRCARAFGGL MDEMKAHCISLPVRVGMNMNEDGPIVFEKHSRYKYHYDADYSRWDSTQQRAVLAAALE IMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNSITHWLLTL CALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGLKPTRPDKTE GPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHS QRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLST WEGDRNLAPSFVNEDGVE" mat_peptide <1..959 /gene="ORF1" /product="p48" mat_peptide 960..2057 /gene="ORF1" /product="NTPase" mat_peptide 2058..2588 /gene="ORF1" /product="p22" mat_peptide 2589..2987 /gene="ORF1" /product="VPg" mat_peptide 2988..3530 /gene="ORF1" /product="Pro" mat_peptide 3531..5060 /gene="ORF1" /product="RdRp" gene 5044..6666 /gene="ORF2" CDS 5044..6666 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59035.1" /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPYLAHLARMYNGYAGG VEVQVLLAGNAFTAGKLVFAAIPPHFPVDNLSPGQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQQSDQRMRLIAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP TVESKTKPFSVPVLTLNELTNSRFPVPIDAMYTSPNDSIVVQPQNGRATIDGELLGTT QLIPSGICSFRGKITTHLSDDRHLWNIQVSNLNGTPFDPTDDVPAPLGMPDFSGQIFG VVSQRDTGTNPANRAHDAVLATYSAKYTPKLGSVQIGTWDTEDLLERQPVKFTPVGLN EIGQDKHFDQWVLPNYSGALGLNMHLAPAVSPLFPGERLLFFRSYIPLKGGHGDPFID CLVPQEWIQHFYQESAPAQSSVALLRYVNPDTGRTLFEAKLHKEGFITVSSTENRPVI VPPNGYFRFDSWVNQFYSLAPMGTGNGRRRMQ" gene 6666..7460 /gene="ORF3" CDS 6666..7460 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59036.1" /translation="MAGAFIAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA SFNHDREMLQAQIQATKQLQADMISIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG TRHWAPGASRTTSFSGGFTNSTRARTVEPPKSSPPVQNTLISDSRPSSTVSSSSTRST VVTSSSTAPSKSSATRNSPRSVTQSVSSVSSRTGDWVQNQNRMLEPYLRGSSQTAFVS PPSSKASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRRRGESQA" ORIGIN 1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc gggtgaaggc ttatttacaa 61 atatgtcttc caccctaaag aaagccctcg gggcccggcc taaacagcct gccccgaggg 121 acaactcaca aaagccccca agaccaccta cgcccgagtt ggttaagaga ataccccctc 181 ccccgcctaa tggcgaagaa gaaccagtca ttaggtatga ggttaagagt ggaatctctg 241 gcctgcctga gctcacgaca gttccccaac cgaatgtgac caacacggca ttcagtgtcc 301 caccgctgag cttgagagaa aacagggagg ccaaggaacc gttgactggg gcaatactag 361 agatgtggga tggagagata taccactatg gtttgtacgt ggagaaaggc ttagtgttgg 421 gtgtgcacaa accacctgca gctataagta tggcaaaggt ggaaatgacg ccgctgtcat 481 tgtactggcg tgtggtgtac acccctcaat atctcatctc ccctgacact ctcaagagac 541 tcaacgggga ggcattccct tacactgcct ttgacaacaa ctgttatgcc ttttgttgct 601 gggtgttaga tcttaatgac tcatggctca gcagaaggat ggtgcaaaga acaacgggct 661 tcttcagacc ctaccaagag tggaacagga aacccctacc caccatggat gactcaaaga 721 ttaagaaggt ggcaaacatt ttcttatgtt cactgtccac gctgttcacc agacctataa 781 aagacatcat agggaaaatc aaaccactaa atatcttgaa cattctggca acgtgtgact 841 ggacgttcgc cggaatcgta gagtctctaa tattgcttgc tgaactcttt ggagttttct 901 ggacaccccc agatgtgtct gctatgattg ctcccttact tggcgaatac gagctgcaag 961 ggccagaaga tatcgccgtt gagctcgtac ctgtagtgat gggagggatt ggtttggtgc 1021 taggattcac caaagagaaa attggcaaaa tgctgtcatc agcagcatca accctcaggg 1081 cttgcaaaga ccttggtgct tatggtttag agatactcaa actggtcatg aaatggttct 1141 tcccaaagaa agaagaggtc aatgaactag ccatggtgag agcaatagag gatgctgtac 1201 tagatcttga agcgatagaa aacaatcaca tgacagctct gctgaaagat aaggacagcc 1261 ttgcaaccta catgaaaaca ctggatctag aggaagagaa agccagaaga ttgtccacaa 1321 aatctgcatc ccctgacata gttggaacaa tcaatgccct gctggctcga atagcggcgg 1381 ctagatcact agtccatagg gccaaggagg agctatccag caggatcaga ccagttgttg 1441 ttatgatttc tggcaagcca gggataggca agacccacct agccagggag gtggcgagaa 1501 aggtggcatc cactctcacg ggagatcaaa gagtcggact cataccgaga aacggtgtgg 1561 accactggga tgcatacaaa ggtgagaggg tcgtgttgtg ggacgactac ggcatgagca 1621 accccatcca tgatgctctg cgcatacagg agttggccga cacgtgtccc ctcaccctaa 1681 attgtgacag aattgaaaat aagggaaaag tttttgatag tgaagtcata ataatcacaa 1741 caaaccttgc caatccagct cccctcgatt atgtcaactt tgaggcctgt tccaggagaa 1801 ttgacttcct ggtgtacgcc gaagcaccag aagtggaaaa agcaaaacga gacttccctg 1861 gtcaaccaga tatgtggaag gacgccttca aagcggactt ttcgcatatc aagctacaac 1921 ttgcgcctca gggcggtttt gacaagaacg gcaatacccc acatggtaaa ggagtgatga 1981 agaccctcac tactggttct ctgattgccc gcgcgtcagg tttactacat gagaggatgg 2041 atgaatttga actccagggc cccacaatca ccactttcaa tttcgaccga aacagaatca 2101 ccgcctttag acaattggct gcagaaaaca agtatgggtt ggtggacacc atgagggttg 2161 gcaatcaatt gaaaggggtg aaaaccatgg aagaactcaa gcaagcaatc aagaatgtgt 2221 ccatcaagag gtgccagatt atctataatg gctccacgtt cgaccttgag tctgatggta 2281 agggcaaagt tttagtggaa aaggtcaaaa gcacctctgt tcagaccaac aacgagctgg 2341 ccggagccct gcatcacctc aaaagtgctc gaattaggta ttatgtcaag tgtgtgcaag 2401 aagcagtcta ctccatcctg caaattgccg gcgctgcgtt cgttaccaca cgcattgcac 2461 gccgcatgaa catacaagaa ctttggtcaa agccaccatt agaccaaagt gaaccagagg 2521 ctaaagaaga ggctcccaag ttagaagatg atgagttcat catatcctcc aaagacatca 2581 aggaggaagg aaagaagggc aaaaacaaga ctggccgtgg caagaaacac acagcattct 2641 ctagcaaggg cttgagtgat gaggagtatg acgagtacaa gagaataaga gaagagagaa 2701 atgggaagta ctctatagag gaatatcttc aagacagaga caggtactat gaggagctcg 2761 ccatcgccaa ggccacggaa gaagactttt gcgaggaaga agaaatcaaa atccgccaga 2821 gaatctttcg ccccactaga aaacaaagga aggaagaaag ggccacgcta ggactagtga 2881 ctggttcaga aatcagaaaa agaaaccctg atgacttcaa acctaaaggg aaattgtggg 2941 ccgacgacaa cagaagtgtt gactacaatg aaaaattgga ctttgaggcc cccccaagca 3001 tatggtctag aattgtgagc tttggttccg gttggggctt ctgggtgtca ccaagtctgt 3061 tcataacatc aactcatgta atccctgcgg gcatagcaga ggcatttgga gtccccatca 3121 aacaagtcca agttcacaaa tcaggtgagt tttgccggtt caggttccca aaaccaatta 3181 gaccagatgt gacaggaatg attctggaag agggcgcgcc agagggcact gtggcaaccg 3241 tgctaatcaa acgccccacc ggggaactca tgccactcgc agccagaatg ggaacacacg 3301 cgaccatgaa aattcagggc cgcatggttg gcgggcagat gggtatgttg ctcactggtt 3361 caaatgctaa gggtatggat ttgggaacaa ctcctggtga ttgtggttgc ccgtacatct 3421 acaaaagggg caatgattat atagtcattg gagtgcacac agcagcagcc cgtggtggaa 3481 atactgtcat ttgcgccacg caggggagtg agggtgaggc gactctcgag ggtggagacg 3541 acaaaggaac atactgtggg gcacccattc tgggccctgg aggagcacca aaattgagta 3601 ccaaaaccaa attctggagg tcatcaaaca cgcccctccc accagggaca tatgagcccg 3661 cttaccttgg tggtcgtgac ccgcgtgtaa agggtgggcc ctctttgcag caagtcatga 3721 gagatcagtt gaagcccttc actgagccca ggggtagacc tccaagacct agtgtactgg 3781 aggcagctaa acaaaccatc atcaacgtcc tcgagcaaac cttggatccc ccacaaaagt 3841 ggacatacgc acaggcgtgt gcttcgcttg ataagaccac ctctagtggg cacccccatc 3901 acgcccgaaa gaatgaattc tggaatggtg agacctttat tggtaagttg gcagaccaag 3961 catcaaaagc aaatttgatg tatgaggaag ggaaacacat gacaccagtg tacacagcag 4021 ccctcaagga cgagttggtc aagactgaca aaatttatag taagatcaag aagagactgc 4081 tttggggctc tgacttgtcc accatggtcc gatgtgctag ggcctttggt ggactcatgg 4141 atgaaatgaa ggcacactgc atatcactcc cagttcgagt tggtatgaac atgaatgagg 4201 atggcccaat agtatttgag aagcattcca gatataagta ccattatgat gctgattact 4261 cccgctggga ctcaacacaa caaagggctg ttctagcagc ggccttggag ataatggtca 4321 gattctctgc agaaccacaa ctggcgcaaa cagtcgctga agatctgctg gcccctagtg 4381 tggtagatgt aggggacttc aaaatctcaa taaatgaggg gctcccttct ggtgtaccat 4441 gcacttccca gtggaactcc atcacacatt ggctgctgac tctctgtgct ttgtctgaag 4501 tcaccaacct gtcccctgac atcgtgcagg caaattccat gttctcgttt tacggtgatg 4561 acgagattgt cagcaccgat ataaaattag accctgaaaa gttaaccacc aaattgagag 4621 aatatggtct gaaaccaacc cgcccagata aaactgaggg acccctgatc atcagcgagg 4681 atctggacgg actcactttc ctccggagga cagtttctcg tgacccagct ggctggtttg 4741 gaaagctaga tcaaagttca atactaagac agatgtattg gaccagagga ccaaaccatg 4801 aagatcccaa tgaaacaatg ataccccact ctcaaagacc catacagctc atggcactgc 4861 ttggcgaggc ttccctccat ggaccctctt tctatagtaa gattagtaaa ttggtcataa 4921 ctgaactcaa agaaggtggg atggactttt acgtgccaag gcaggaaccc atgttcaggt 4981 ggatgaggtt ttctgacttg agcacgtggg agggcgatcg caatctggct cccagttttg 5041 tgaatgaaga tggcgtcgaa tgacgccgct ccatctaatg atggtgcagc cggtctcgta 5101 ccagaggtca acaacgagac aatggcacta gaaccagttg caggagcttc aattgctgcc 5161 cctttaactg gtcaaaacaa tgtaatagac ccctggatta gattaaattt tgtacaagcc 5221 cccaatggtg agttcacggt ttccccccga aactcgcctg gtgaaatttt gctaaatttg 5281 gagttagggc ctgaattgaa tccatactta gcccatttag caaggatgta taatggttat 5341 gcaggtgggg tcgaggtgca ggtactgctg gctggaaatg cgtttacagc aggcaaactt 5401 gtatttgcag caatcccccc tcattttcca gtagataatt tgagccctgg ccagattact 5461 atgttccccc acgtgatcat tgatgttaga acacttgaac ctgtcttgtt accattacct 5521 gatgttagaa ataatttctt tcattataat caacagagtg atcagcgcat gagacttatt 5581 gctatgcttt atacccctct tagatctaat ggttcaggtg atgatgtctt tactgtgtca 5641 tgcagggtcc taaccaggcc atcccccgat tttgatttta attatttggt tcctccaaca 5701 gttgaatcca aaactaaacc cttctcagtc ccagtgctga cccttaatga gctgaccaac 5761 tctcgttttc ctgttccgat tgatgccatg tacaccagcc ctaatgattc aattgtggtc 5821 caaccccaaa atggaagggc aaccatagac ggtgagttgc ttggcaccac tcaactcata 5881 cccagtggta tctgttcatt taggggaaaa atcacaacac atttgtcaga tgataggcac 5941 ttgtggaaca tccaagtctc caatttgaat ggtactccgt ttgacccaac agacgacgtg 6001 cccgcaccat tgggtatgcc agacttttct gggcaaatat ttggggtggt tagtcaaagg 6061 gacacaggca ccaaccccgc aaacagagct catgatgctg ttcttgcaac ctacagcgcc 6121 aaatacacac ctaaactcgg ctcagtccaa attggaacat gggacaccga ggatttgctt 6181 gaaagacagc ctgtcaaatt cacgcccgtt ggtctcaatg aaattgggca agacaagcat 6241 ttcgaccaat gggtgttgcc aaattattct ggtgccctgg gactcaacat gcacctggct 6301 cctgctgtgt ccccactctt tcccggagag agattattgt tctttaggtc atatatacct 6361 ctaaaaggtg gccatgggga cccatttatt gattgtcttg tgccacaaga gtggattcaa 6421 cacttttacc aagaatcagc cccagcacaa tcctcggtgg ctctactgag gtatgtgaat 6481 ccagacacag gtcgcactct atttgaggcc aaattacaca aggaagggtt tatcaccgtc 6541 tctagcacgg aaaataggcc tgtgattgtc cccccaaatg gttactttag gtttgactct 6601 tgggttaacc aattctactc attagccccc atgggaactg gcaatgggcg cagaaggatg 6661 cagtaatggc tggagctttt atagcaggac ttgctggtga cattgtcact aacggcattg 6721 gttcgcttgt gaacgctgga gccaatgcta taaaccaaaa agttgatttt gaaaataaca 6781 aacagctaca acaggcctct tttaaccatg acagagagat gctgcaagcc caaattcaag 6841 ccaccaaaca gctacaggct gacatgattt caatcagaca aggggttttg accgcgggcg 6901 gcttctcccc tactgatgct gcaaggggtg cagtcaacgc accgatgacc caagtgctgg 6961 actggaatgg aactagacat tgggctcctg gagcctcaag gactaccagc ttctctggtg 7021 ggttcaccaa ttctacccgt gccagaacag ttgagccacc taagagttcc ccccccgttc 7081 aaaatacttt gatctctgat tccagaccta gctctactgt ctcatcttcc tctacccgat 7141 cgactgtggt cactagctct tctactgccc catctaagtc ttctgcaact agaaattcac 7201 cccgcagtgt tactcaatct gtttcttctg tttcttctcg cactggtgat tgggtgcaaa 7261 atcaaaatag aatgctggag ccatacctga gggggtcgtc gcaaacagcc ttcgtgtcgc 7321 cgccctccag taaggcctct agtagtggca ctgtctcaac tgtgccaaaa gaagttttgg 7381 actcctggac atctgcgttt aatacccgca gacagccgct cttcgctcac ctccgtcgga 7441 ggggggagtc acaagcttag tgaaaagaat tagattttct ttttctttct ttccttttgt 7501 tgaaaatctt atgtctttt //