Typing tool
|
Complete norovirus genomes
MK762568 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS MK762568 7542 bp RNA linear VRL 13-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/CS0651 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MK762568 VERSION MK762568.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7542) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7542) AUTHORS Barclay,L., Cannon,J.L., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted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..7542 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CS0651" /isolate="Hu/US/2016/GII.P16-GII.4 Sydney/CS0651" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="20-Oct-2016" /note="genotype: GII.P16-GII.4 Sydney" gene 1..5100 /gene="ORF1" CDS 1..5100 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBX91031.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRGEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVAKKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 1..996 /gene="ORF1" /product="p48" mat_peptide 997..2094 /gene="ORF1" /product="NTPase" mat_peptide 2095..2625 /gene="ORF1" /product="p22" mat_peptide 2626..3024 /gene="ORF1" /product="VPg" mat_peptide 3025..3567 /gene="ORF1" /product="Pro" mat_peptide 3568..5097 /gene="ORF1" /product="RdRp" gene 5081..6703 /gene="ORF2" CDS 5081..6703 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBX91032.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6703..7509 /gene="ORF3" CDS 6703..7509 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBX91033.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 atgaagatgg cgtctaatga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag 61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggctaggc ccaaacagcc tgccccgaga ggcgaaccac aaaagccccc aaggccacca 181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa 241 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc 301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac 361 agggaagcca aggaaccgtt aacaggggca atattagaga tgtgggatgg agagatatac 421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc 481 ataagcatgg caagagtgga gctgacgccg ctgtcattgt actggcgtgt ggtgtacact 541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc gttcccttac 601 accgcctttg acaacaactg ctatgccttt tgctgctggg tgttagacct caatgactca 661 tggcttagca ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg 721 aacagaaaac ccctgcctac catggatgac tccaaaatta agaaggtagc aaatatattc 781 ctatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa 841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag 901 tccctgatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa 1021 ctcgtacctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt 1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat 1141 ggcttagaga tactcaaact ggtcatgaag tggttcttcc caaagaaaga ggaggccaat 1201 gagctagcca tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg 1321 gacatggagg aggagaaagc caggaggttg tccacaaaat ctgcatcccc tgacatagtt 1381 gggacaatca acgccctgct ggctcgaata gcagcggcca ggtcactagt ccacagggcc 1441 aaggaagagc tgtctagcag gataagacca gtagttgtta tgatatctgg caaaccagga 1501 ataggcaaaa ctcatctggc cagggaggtg gcaaaaaagg tggcatccac tctcacaggg 1561 gatcaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt 1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc 1681 atacaggaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgagaataag 1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca 1801 cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag 1861 gcaccagaag tggaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac 1921 gccttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg cggttttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg 2041 attgcccgtg catcaggcct actacatgag aggatggatg aatttgaact ccaaggtccc 2101 acaatcacca ccttcaattt cgaccggaac agaatcacag cattcagaca actggctgca 2161 gaaaacaagt atggattggt ggataccatg aaagttggca atcaactaaa aggagtaaaa 2221 accatggaag aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccagatcatc 2281 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gggccctgca ccatcttaaa 2401 cacgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa 2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaattaga tcaaaatgaa tcagagacta aggaagaggc ccccaagtca 2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa 2641 aacaaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt gagcgatgag 2701 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag 2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa 2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa 2881 caaagaaagg aagagagggc cacattaggg ctagtaacag gttcagaaat cagaaaaaga 2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac 3001 tacaatgaga aactagactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt 3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc 3121 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcaggt ccacaaatca 3181 ggtgaatttt gccgattcag attcccaaaa ccaattagac cagatgtgac aggaatgatc 3241 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga 3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc 3361 atggttggcg gacaaatggg tatgttgctc actggatcaa atgctaaagg aatggatttg 3421 ggaacaactc ctggtgactg tggctgtcct tacatctata aaaggggcaa tgactatata 3481 gtcattgggg tgcacactgc agcagcccgt ggcggaaaca ccgtcatctg tgccacacag 3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca 3601 cccattctag gccctggggg tgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc ctcttccacc agggacatat gagcctgcct acctcggtgg ccgcgatccg 3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag atcagttgaa gccattcact 3781 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagccaaaca aaccattatc 3841 aatgtcctcg aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgcc 3901 tcacttgaca aaaccacctc cagcgggcat ccccatcacg cccgaaagaa tgaattctgg 3961 aatggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt 4021 gaggaaggga aacacatgac accagtgtat acagcagcac tcaaggacga gctagtcaag 4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc 4141 atgatccggt gcgctaggtc atttggtggg ctcatggatg agatgaaggc acactgcata 4201 tcactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa 4261 cattccagat acaaatacca ctatgacgca gactactctc gttgggattc aacacaacag 4321 agggcagtac tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg 4381 gcacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtagg agactttaaa 4441 atcacaataa atgaagggct cccatctggt gtgccatgca cttctcaatg gaactccatc 4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgttag caccgacata 4621 aaattggacc ctgaacagtt aaccgccaaa ttgaaggagt acggcctgaa accaacccgc 4681 ccagacaaga ccgagggacc cctgatcatc agtgaagatt tgaacgggct cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aaactcaata 4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata 4861 ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga 4921 ccctctttct acagtaaaat cagcaagttg gtcataactg aactcaaaga aggtgggatg 4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc 5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga 5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat 5161 ggctctggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc 5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aattctcgcg gggaacgcgt tcaccgccgg gaagatcata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttaa gtcctagcca ggtcactatg ttcccccata taatagtaga 5521 tgttagacaa ttagaacctg tgctgattcc tttacccgat gtcaggaata atttctatca 5581 ttacaatcag tcaaatgatt ccactattaa gttgatagca atgttgtata caccacttag 5641 ggctaataat gctggggatg atgttttcac agtttcgtgc cgagttctca cgagaccatc 5701 ccccgatttt gatttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt 5761 ttctgtccca gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga 5821 aaagttgttc acgggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac 5881 aactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacatca caggtagtcg caactacaca atgaatttgg cttctcaaaa 6001 ttggaacaac tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt 6061 ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca 6121 caaagctaca gtgtacactg ggagcgccga cttttctcca aaactaggta gagttcaatt 6181 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ccccggtcgg 6241 tgtcatccaa gatggtagca ccacccaccg aaacgaaccc caacaatggg tgctcccaag 6301 ttactcaggc agaaatactc acaatgtaca tctggccccc gctgtagccc ccacttttcc 6361 gggtgagcag ctcctcttct tcagatccac catgcccgga tgcagcgggt accccaacat 6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc 6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt 6541 tgagtgtaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt 6601 ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct 6661 agcccccatg ggaaatggaa cggggcgtag acgtgtagta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctcc ggacttggtt cccttatcaa tgctggggct 6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc 6841 caatttagca gcaatctgca acaggcttcc tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc 6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca 7021 aaagctttgg actggagcgg gacaaggtac tgggctcccg atgctaggac tacaacatat 7081 aatgcaggcc gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt 7141 agggatgctg tccctgctcg gggaccctcc aacaaatctt ctaactcttc tactgccacc 7201 tctgtgtact caaatcaaac tatttcaacg aggcttggtt ctacagctgg ttctggaacc 7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca 7501 cgggtgtaat gtgaaaagac aaaactgatt atctttcttt tt //