Typing tool
|
Complete norovirus genomes
MW305699 | GII.16 | ||
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GII.P16 |
ORF1: 1..5063 ORF2: 5044..6666 ORF3: 6666..7463LOCUS MW305699 7522 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate CMH-104-05 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305699 VERSION MW305699.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7522) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7522) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7522 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="CMH-104-05" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Thailand" /collection_date="12-Aug-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="QPJ59433.1" /translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDNSQK PPRPPTPELVKRIPPPPPNGEEEPAIRFEVKSGISGLPELTTVPQLDVTNTAFSVPPL SLRENKEAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKVEMTPLSL YWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTT GFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIKPLNILNILA TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPEDIVVELVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEASELAMV RAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARRLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAKKVASTLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIEN KGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEF ELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEELKQAIKNVS IKRCQIIYNGSTFDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLRSARIRYYVKCV QEAVYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPETKEEAPKLEDDEFIISS KDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDR YYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDF KPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAG ITEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGE LMPLAARMGTHATMRIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDY IVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKF WRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAA KQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHTRKNEFWNGETFIGKLADQA SKANLMYEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMVRCARAFGGL MDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALE 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="QPJ59434.1" /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPYLAHLARMYNGYAGG VEVQVLLAGNAFTAGKLVFAAIPPHFPVDNLSPGQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQQSDQRMRLIAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP TVESKTKPFSVPVLTLNELTNSRFPVPIDAMYTSPNDSIVVQPQNGRATIDGELLGTT QLIPSGICSFRGKITTHLSDDRHLWNIQVSNLNGTPFDPTDDVPAPLGMPDFSGQIFG VVSQRDTGTNPANRAHDAVLATYSAKYTPKLGSVQIGTWDTEDLLERQPVKFTPVGLN EIGQDKHFDQWVLPNYSGALGLNMHLAPAVSPLFPGERLLFFRSYIPLKGGHGDPFID CLVPQEWIQHFYQESAPAQSSVALLRYVNPDTGRTLFEAKLHKEGFITVSSTENRPVI VPPNGYFRFDSWVNQFYSLAPMGTGNGRRRMQ" gene 6666..7463 /gene="ORF3" CDS 6666..7463 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59435.1" /translation="MAGAFIAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA SFNHDKEMLQAQIQATKQLQADIISIRQGVLSAGGFSPTDAARGAVNAPMTQVLDWNG TRHWAPGASRTTSFSGGFTNSTRARTVEPPKSSPSVQNTLTSASRSSSTVSSSSTRST VVTSSSTAPSVRSSVTRNLPRSASQSVSSVSSRTGDWVQNQNRMLEPYLRGSLQTAFV SPPSSKASSNGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRRRGESQA" ORIGIN 1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc gggtgaaggc ttatttacaa 61 atatgtcttc caccctaaag aaagccctcg gggcccggcc taaacagcct gccccgaggg 121 acaactcaca aaagccccca agaccaccta cgcccgagtt ggttaagaga ataccccctc 181 ctccacctaa tggcgaagaa gaaccagcca ttaggtttga ggttaagagt ggaatctctg 241 gtctgcctga gctcacgaca gttccccaac tggatgtgac caatacggca ttcagtgtcc 301 caccgctgag cttgagagaa aacaaggagg ccaaggaacc gctgactggg gcaatattag 361 agatgtggga tggagagata taccactatg gtttgtatgt ggagaaaggc ttagtgttgg 421 gtgtgcacaa accacctgca gctataagta tggcaaaggt ggaaatgacg ccgctgtcat 481 tatactggcg tgtggtgtac accccccaat acctcatttc ccctgacact cttaagaggc 541 ttaacgggga agcattccct tacactgcct ttgacaacaa ctgttatgcc ttttgttgct 601 gggtgttaga ccttaatgac tcatggctca gcagaaggat ggtgcaaaga acaacaggct 661 tcttcagacc ctaccaagag tggaacagaa aacccctacc cactatggat gactcaaaga 721 ttaagaaggt ggcaaacatt ttcttatgtt cattgtccac actgttcacc agacctataa 781 aagacatcat agggaaaatc aaaccactaa acattttgaa cattctggca acgtgtgact 841 ggacgttcgc cggaatcgta gagtctctaa tactacttgc tgaactcttt ggagttttct 901 ggacaccccc agatgtgtct gctatgatcg cccccttact tggcgaatac gagctgcaag 961 ggcccgaaga catcgtcgtt gagctcgtac ctgtagtgat gggagggatt ggtttggtgc 1021 taggattcac caaagagaaa attggcaaaa tgctatcctc agcagcatca acgctcaggg 1081 cttgcaaaga ccttggtgct tatggtttag agatacttaa attggtcatg aaatggtttt 1141 tcccaaagaa agaagaggcc agtgaactag ccatggtgag ggcaatagag gatgctgtac 1201 tggatcttga agcgatagaa aacaaccaca tgacaactct gctgaaagat aaagacagcc 1261 ttgcaaccta catgaagaca ctggacctag aggaagaaaa agccaggaga ttgtccacaa 1321 agtctgcatc ccctgacata gttggaacaa tcaatgccct gctggctcga atagcagcgg 1381 ctagatcact agtccacagg gccaaagagg agctgtctag caggatcagg ccagttgttg 1441 ttatgatttc tggcaagcca gggataggca agactcacct agccagggag gtggcgaaaa 1501 aggtggcatc cactctcacg ggagatcaaa gagtcggact cataccgaga aacggtgtag 1561 accattggga tgcatacaaa ggtgagaggg tcgtgttgtg ggacgactac ggcatgagta 1621 accccatcca tgatgctctg cgcatacagg aattggccga cacatgtccc ctcaccttaa 1681 attgtgatag aattgaaaat aagggaaaag tttttgacag tgaagtcata ataatcacaa 1741 caaaccttgc caacccagct ccccttgatt atgtcaactt tgaggcctgt tccaggagaa 1801 ttgacttcct ggtatacgcc gaagcaccag aagtggaaaa ggcaaaacga gacttccctg 1861 gtcagccaga tatgtggaag gacgccttca aagcggactt ttcgcatatc aagttacaac 1921 ttgcgcctca gggcggtttt gacaagaacg gcaacacccc acatggtaaa ggagtgatga 1981 agaccctcac cactggttct ctgattgccc gtgcgtcagg tttactgcat gagaggatgg 2041 atgaatttga actccagggc cccacaatca ccacttttaa tttcgaccga aacagaatca 2101 ccgcctttag acagttggct gcagaaaata agtatgggtt ggtggacacc atgagagttg 2161 gcaaccaact gaaaggggtg aaaaccatgg aagaactcaa gcaagcaatc aagaatgtat 2221 ccatcaagag gtgccagatt atctataatg gctccacgtt cgaccttgag tctgacggca 2281 agggcaaggt tttagtggaa aaggtcaaaa acacctccgt tcagaccaac aacgagctgg 2341 ccggggccct gcatcacctc agaagtgctc gaatcaggta ttatgtcaaa tgtgtgcaag 2401 aagcagtcta ctccatccta caaattgccg gcgctgcgtt tgtcaccaca cgtattgcgc 2461 gccgtatgaa catacaagaa ctttggtcaa agccaccatt agaccaaagt gagccagaga 2521 ctaaagaaga ggcccccaag ttagaagatg atgagttcat tatatcctcc aaagacatca 2581 aggaggaagg aaagaagggc aaaaataaga ctggccgtgg caagaaacac actgcattct 2641 cgagcaaggg cttgagcgat gaggagtatg acgagtacaa gagaataaga gaagagagaa 2701 atggaaagta ctctatagag gagtatcttc aagacagaga caggtactat gaggagctcg 2761 ccatcgccaa ggccacggaa gaagacttct gcgaggaaga agaaattaaa atccgccaga 2821 ggatcttccg ccctaccaga aaacaaagga aggaagaaag ggccacgcta ggactagtga 2881 ctggttcaga aatcagaaag agaaaccctg atgacttcaa acccaaaggg aagttgtggg 2941 ccgacgacaa cagaagtgtt gactacaatg aaaagttgga ctttgaggcc cccccaagca 3001 tatggtccag gattgtgagc tttggttccg gttggggctt ctgggtgtca ccaagcctgt 3061 tcataacatc aactcatgta atccctgcgg gcataacaga ggcatttgga gtccccatca 3121 aacaagtcca agtccacaaa tcaggtgagt tttgccggtt cagattccca aaaccaatta 3181 gaccagatgt gacaggaatg atcctggaag agggtgcgcc agagggcact gtggcaaccg 3241 tactaatcaa acgccccacc ggagaactca tgcccctcgc agccagaatg ggaacacacg 3301 cgaccatgag aattcagggt cgcatggttg gcgggcagat gggcatgttg ctcactggtt 3361 caaatgctaa gggtatggat ttgggaacaa ctcccggtga ctgtggctgc ccgtacatct 3421 acaaaagggg taatgactat atagtcattg gagtgcacac agcagcagcc cgtggtggaa 3481 atactgtcat ctgcgccaca cagggaagtg agggtgaagc gaccctcgag ggtggagacg 3541 acaaaggaac atactgcggg gcacccattc tgggccctgg aggagcacca aaattgagca 3601 ccaaaaccaa attttggagg tcatcgaaca cgcccctccc accagggacg tatgagcctg 3661 cctatcttgg tggtcgtgac ccgcgtgtga agggcggacc ctctttgcag caagtcatga 3721 gagatcagtt gaagcccttc actgagccca ggggtaaacc tccaagacct agtgtgctgg 3781 aggcagctaa acaaaccatc atcaacgtcc ttgagcaaac tctggatccc ccacaaaagt 3841 ggacatacgc acaggcgtgt gcttcgcttg ataagaccac ctctagtggg cacccccatc 3901 acacccgaaa gaatgaattc tggaatggtg agacctttat tggcaagttg gcagaccaag 3961 catcaaaggc aaacctgatg tatgaggaag ggaaacacat gacaccagtg tacacagcag 4021 ccctcaagga cgagttggtg aaaactgaca aaatctatgg gaagatcaag aagagactgc 4081 tttggggctc tgacttgtcc accatggtcc gatgtgctag ggcctttggt gggctcatgg 4141 atgagatgaa ggcacactgc atatcactcc cagtccgagt tggtatgaac atgaatgaag 4201 atggtccaat aatatttgag aagcattcca gatataagta ccattatgat gcagactact 4261 cccgctggga ttcaacacaa caaagggctg ttctagcagc ggctttggaa ataatggtca 4321 gattctctgc agaaccacaa ctggcacaaa cagtcgctga agacctgctg gcccctagtg 4381 tggtagatgt aggagacttc aaaatttcaa taaatgaggg gcttccttct ggtgtaccat 4441 gcacttccca gtggaactcc atcacacatt ggctgttaac tctctgtgct ttgtctgaag 4501 tcaccaacct gtcccctgac atcgtgcagg caaattccat gttctcgttt tacggtgatg 4561 acgagattgt cagcaccgat ataaaattag accctgaaaa gttaaccacc aaattgaggg 4621 aatatggtct gaaaccaacc cgcccagata aaactgaggg accactaatt atcagcgagg 4681 atttggacgg actcaccttc ctccggagaa cagtttcccg tgacccagct ggctggtttg 4741 gaaagttaga tcaaagctca atactaaggc agatgtactg gaccagagga ccaaaccatg 4801 aagaccccaa tgaaacaatg ataccccact ctcaaagacc catacagctt atggcactgc 4861 ttggtgaggc ttccctccat ggaccctctt tctacagcaa aattagtaaa ttggtcataa 4921 ctgaactcaa agaaggtggg atggattttt acgtgccgag gcaggaacct atgttcaggt 4981 ggatgaggtt ttctgacttg agcacgtggg agggcgatcg caatctggct cccagttttg 5041 tgaatgaaga tggcgtcgaa tgacgccgct ccatctaatg atggtgcagc cggtctcgta 5101 ccagaggtca acaacgagac aatggcactt gaaccagttg cgggagcttc aattgctgcc 5161 cctttaactg gtcaaaataa tgtaatagac ccctggatta gattaaattt tgtacaagcc 5221 cccaatggtg agtttacggt ttccccccga aactcgcctg gtgaaatttt gctaaatttg 5281 gagttagggc ctgaattgaa tccatactta gcccatttag caagaatgta taatggttat 5341 gcaggtgggg ttgaggtgca ggtactgctg gctggaaatg cgtttacagc aggcaaactg 5401 gtatttgcag caatcccccc tcattttcca gtagataatt tgagccctgg tcagatcact 5461 atgttccccc atgtgattat tgatgttaga acacttgagc cagtcttatt accattacct 5521 gatgttagga ataatttctt tcattataat cagcagagtg atcagcgcat gaggcttatt 5581 gctatgcttt atacccccct tagatctaat ggttcaggtg atgatgtctt cactgtttca 5641 tgtagggtcc taaccaggcc atcccctgac tttgatttta attatttggt tcctccaaca 5701 gttgaatcta aaactaaacc cttctcagtc ccagtgctga cccttaatga actgaccaac 5761 tctcgatttc ctgtcccgat tgatgccatg tacaccagcc ctaatgattc aattgtggtc 5821 caaccccaaa atggaagggc aaccatagac ggtgagttgc ttggcaccac tcagctcatc 5881 cccagtggta tctgctcatt tagagggaaa atcacaacac acttgtcaga tgacaggcac 5941 ttgtggaaca tccaagtctc caatttgaat ggcactccgt ttgacccaac agacgacgtg 6001 cccgcaccac tgggtatgcc agacttctct ggacaaatat ttggggtagt tagccaaagg 6061 gatacaggca ccaaccccgc aaacagagct catgacgctg ttcttgcaac ctacagcgcc 6121 aaatatactc ccaagctcgg ttcagtccaa attggaacat gggacaccga ggatttactt 6181 gaaagacagc ctgtaaaatt cacgcccgtt ggtctcaatg aaattgggca ggacaagcat 6241 tttgaccaat gggtgttgcc aaattattct ggtgccttag gactcaacat gcacctggct 6301 cctgctgtgt ccccactctt tcctggagag agattattgt tctttagatc atatatacct 6361 ctaaagggtg gccatgggga tccgttcatt gattgtctag tgccacaaga atggatacaa 6421 cacttttatc aagaatcagc cccagcgcaa tcctcggtgg ctctactgag gtatgtgaat 6481 ccagacacag gtcgcaccct atttgaggcc aaattacaca aggaagggtt tatcaccgtc 6541 tctagtacgg aaaataggcc tgtgattgtc cccccaaatg gttactttag gtttgactct 6601 tgggttaacc aattctattc actagccccc atgggaactg gcaatgggcg cagaaggatg 6661 cagtaatggc tggagctttc atagcaggac ttgctggtga cattgtcact aatggcattg 6721 gttcgcttgt gaacgctgga gccaatgcta taaaccaaaa agttgatttt gaaaataaca 6781 aacaactaca acaggcttct tttaatcatg acaaagagat gctgcaagcc caaatccaag 6841 ccaccaaaca gctacaggct gacataattt caatcagaca aggggttttg tccgcgggcg 6901 gcttttcccc tactgatgct gcaaggggtg cagtcaacgc accaatgacc caagtgttgg 6961 actggaatgg gactagacat tgggcccctg gagcctcaag aactaccagt ttctctggtg 7021 ggttcaccaa ctccacccgt gccagaacag ttgagccacc taaaagttcc ccctctgttc 7081 aaaatacctt gacttctgct tctagatcta gctctactgt ctcatcttct tccacccgtt 7141 cgactgtggt tactagttcc tctactgccc catctgttag atcttctgta actagaaatt 7201 taccacgcag tgcttctcaa tctgtttctt ctgtttcttc tcgcactggt gattgggtgc 7261 aaaatcaaaa tagaatgctg gagccatacc tgagggggtc gttgcaaaca gccttcgtgt 7321 cgccgccctc cagtaaggcc tctagtaatg gcactgtctc aactgtgcca aaagaagttt 7381 tggactcctg gacatctgcg ttcaacaccc gcagacagcc gctcttcgct cacctccgtc 7441 ggagggggga gtcacaagct tagtgaaaag aattagattt tctttttctt tcttttcttt 7501 tgttgaaaat cttatgtctt tt //