Typing tool
|
Complete norovirus genomes
MK762629 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 4..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MK762629 7535 bp RNA linear VRL 13-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/Lee0113 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MK762629 VERSION MK762629.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7535) AUTHORS Barclay,L., Cannon,J.L., Wikswo,M.E., Phillips,A., Browne,H., Montmayeur,A.M., Tatusov,R.L., Burke,R.M., Hall,A.J. and Vinje,J. TITLE Emergence and characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7535) AUTHORS Barclay,L., Cannon,J.L., Chesnutt,C., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (05-APR-2019) Division of Viral Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. R10; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7535 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Lee0113" /isolate="Hu/US/2017/GII.P16-GII.4 Sydney/Lee0113" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="24-Oct-2017" /note="genotype: GII.P16-GII.4 Sydney" gene 4..5103 /gene="ORF1" CDS 4..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBX91114.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRNEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELIPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE TPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERVTLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPSGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGNIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 4..999 /gene="ORF1" /product="p48" mat_peptide 1000..2097 /gene="ORF1" /product="NTPase" mat_peptide 2098..2628 /gene="ORF1" /product="p22" mat_peptide 2629..3027 /gene="ORF1" /product="VPg" mat_peptide 3028..3570 /gene="ORF1" /product="Pro" mat_peptide 3571..5100 /gene="ORF1" /product="RdRp" gene 5084..6706 /gene="ORF2" CDS 5084..6706 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBX91115.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSIPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6706..7512 /gene="ORF3" CDS 6706..7512 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBX91116.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSASSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac 61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc 121 ctcggggcta ggcccaaaca gcctgccccg agaaacgaac cacaaaagcc cccaagacca 181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaagaa 241 gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga gctcacaaca 301 gtcccccaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa 361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga tggagagata 421 taccactacg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca 481 gccataagca tggcaagagt ggagctaata ccgctgtcat tgtactggcg tgtggtgtac 541 actccccaat acctcatctc ccctgaaact ctcaggaggc tcaacggaga ggcattccct 601 tacaccgcct tcgacaacaa ctgctatgcc ttttgctgct gggtgttgga cctcaatgac 661 tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag 721 tggaacagaa aacccctgcc taccatggat gactccaaaa ttaagaaggt agcaaatata 781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt 841 aaaccattaa acatattgaa catcctggca acgtgcgact ggacgtttgc cggaatagtg 901 gagtctctga tattacttgc tgaactcttc ggagttttct ggacaccccc agatgtgtct 961 gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga cctcgccgtt 1021 gaactcgtac ctgtggtaat gggagggatt ggtttggtgt tgggattcac caaagagaaa 1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc 1141 tatggcttag agatactcaa attggtcatg aaatggttct tcccaaagaa agaggaggcc 1201 aatgagctag ccatggtgag ggccatagag gacgccgtac tagatcttga ggcaatagaa 1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca 1321 ctggacatgg aggaggaaaa agccagaagg ttgtccacaa aatctgcatc ccctgacata 1381 gttgggacaa tcaacgctct gctggctcga atagcagcgg ccaggtcatt agtccacagg 1441 gccaaggaag agttatctag caggatgaga ccagtagttg ttatgatatc tggtaaacca 1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca 1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa 1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctt 1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat 1741 aagggaaaag tttttgatag tgaagtcata ataattacaa caaaccttgc caacccagcc 1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct 1861 gaggcaccag aagtggaaaa ggcgaaacga gacttccctg gtcagccaga tatgtggaag 1921 gacgccttca agccggactt ttcacacatc aagctacagc ttgcacctca gggcggcttt 1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct 2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt 2101 cccacaacca ccaccttcaa tttcgaccgg aatagaatca cagcatttag acaattggct 2161 gcagaaaaca agtatggatt ggtggatacc atgaaggttg gcaatcaact aaaaggagtg 2221 aaaaccatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag gtgccggatc 2281 atctacggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa 2341 aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct acaccatctc 2401 aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata 2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa 2521 ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga gacccccaag 2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaagggc 2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat 2701 gaggagtacg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag 2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggag 2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg tcccaccagg 2881 aagcaaagga aggaagagag ggtcacatta gggctagtga caggttcaga aatcagaaaa 2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt 3001 gattacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc 3061 tttggttctg gctggggctt ctgggtgtca ccaagcctgt tcataacatc aactcatgta 3121 atccccgctg gcataacaga agcatttgga gtccccatca aacaaattca gatccacaaa 3181 tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt gacaggaatg 3241 atcttggaag aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa acgcccctcc 3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc 3361 cgcatggttg gcggacagat gggtatgttg ctcactggat caaatgctaa aggaatggat 3421 ttgggaacaa ctcctggtga ctgtggctgt ccttacatct ataaaagggg caatgactat 3481 atagtcattg gggtgcacac tgcagcagcc cgtggtggaa acaccgttat ctgtgccaca 3541 cagggaagtg agggtgaggc aacccttgag ggtggggatg acaaaggaac atactgtggg 3601 gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg 3661 tcgtcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgat 3721 ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagaccagtt gaagccattc 3781 actgaaccca ggggcaaacc tccaagacca agtgtattgg aagcagccaa acaaaccatt 3841 atcaatgtcc tcgaacaaac cctggaccct ccacaaaaat ggtcatacgc gcaggcgtgt 3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgtccgaaa gaatgaattc 3961 tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc aaacctgatg 4021 tttgaggaag ggaaacatat gacaccagtg tatacagcag cactcaagga cgagctagtc 4081 aagactgaga aaatctatgg aaatatcaag aagagactgc tctggggctc tgacttgtcc 4141 accatgatcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa ggcacactgc 4201 ataacactcc cagtacgagt tggcatgaat atgaatgaag atggcccaat aatatttgag 4261 aaacattcca gatacaaata tcactatgat gcagactact ctcgttggga ttcaacacaa 4321 cagagggcag tactagcagc agccttggaa atcatggtca gattctctgc agaaccacaa 4381 ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt 4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttccca atggaactcc 4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac 4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac 4621 ataaaattgg accctgaaca gttaaccgcc aaattgaagg agtacggcct gaaaccaacc 4681 cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg actcactttc 4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagctca 4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg 4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctctccac 4921 ggaccctctt tctacagtaa aatcagtaaa ttggtcataa ctgaactcaa agaaggtggg 4981 atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg 5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag 5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt 5161 tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg agtttacagt 5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccctaggcc ctgacctaaa 5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatc atatttgcag cagtcccacc 5461 aaatttccca actgaaggct taagtcctag ccaggtcact atgttccccc atataatagt 5521 agatgttaga caattagaac ctgtgctgat tcccttaccc gatgtcagga ataatttcta 5581 tcattacaac cagtcaaatg attccactat taagttgata gcaatgttgt atacaccact 5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc 5701 atcccccgat tttgatttca tatttttagt gccacccaca gttgaatcaa gaactaaacc 5761 attctctatc ccagttttga ctgttgagga gatgaccaat tcaagattcc ccattccttt 5821 ggaaaagttg ttcacgggcc ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg 5881 cacaactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca tctgcacctt 5941 cagaggggat gtcacccaca tcacaggtag tcgcaactac acaatgaact tggcttctca 6001 aaattggaat aactatgatc caacagaaga aatcccagcc cctctaggaa ctccagattt 6061 cgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt caacacgcgg 6121 ccacaaagct acagtgtaca ctgggagcgc tgattttgct ccaaaactgg gtagagttca 6181 atttgaaact gatacagacc atgattttga agctaatcaa aacacaaagt tcaccccagt 6241 cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaata ctcacaatgt acatctggcc cccgctgtag cccccacctt 6361 tccaggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctatc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgc aagcttcaca aatcaggcta cgttacagtg gctcacactg gccaacatga 6601 tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaatc agttctacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgta gtataatggc tggagctttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccaattta gcagcaatct gcaacaggct tcctttcaac atgataaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaagttacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcctagagg gtggattctc tgagacggat gcagcccgcg gggcaattaa cgctcccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca 7081 tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg aagagctaac 7141 cttagggatg ctgtccctgc tcggggaccc tccaacaaat cttctaactc ttctactgcc 7201 acctctgtgt actcaaatca aaccatttca acgaggcttg gttctacagc tggttctgga 7261 accagtgcct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaagt 7321 aggaatttgt cacctttcat gaggggggcc cacaatatat catttgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg 7441 actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag 7501 tcacgggtgt aatgtgaaaa gacaaaactg attat //