Typing tool
|
Complete norovirus genomes
MK762569 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7497LOCUS MK762569 7497 bp RNA linear VRL 13-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/CS1009 nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MK762569 VERSION MK762569.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7497) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7497) AUTHORS Barclay,L., Cannon,J.L., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted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..7497 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CS1009" /isolate="Hu/US/2017/GII.P16-GII.4 Sydney/CS1009" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="16-Mar-2017" /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="QBX91034.1" /translation="MKMASNDATVAVARNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEVNELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETVIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE 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="QBX91035.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6703..>7497 /gene="ORF3" CDS 6703..>7497 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBX91036.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWNGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVLARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGE" ORIGIN 1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctc gcaacaacaa caacgacaag 61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggccagac ccaaacagcc tgccccgaga gacgaaccac aaaagccccc aagaccacca 181 actcccgagt tggtcaagag gataccccct cccccaccta atggcgaaga agaagaagaa 241 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc 301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac 361 agggaggcca aggaaccgct aacaggggca atattagaga tgtgggacgg agagatatac 421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc 481 ataagcatgg caagagtaga gctgacgccg ctgtcattgt actggcgtgt ggtgtacacc 541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc gttcccttac 601 accgccttcg acaacaactg ctatgccttt tgctgctggg tgttagacct caatgactca 661 tggcttagca gaaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg 721 aacagaaaac ccctgcccac catggatgac tccaaaataa agaaggtagc aaatatattc 781 ctatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa 841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag 901 tctctgatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa 1021 ctcgtgcctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt 1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat 1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggtcaat 1201 gagctagcca tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaagacaaa gacagcttgg caacatacat gaaaacactg 1321 gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt 1381 gggacaatca acgccctgct ggctcgaata gcagcagcca ggtcattagt ccacagggcc 1441 aaggaagagc tatctagcag gataagacca gtagttgtta tgatatctgg caaaccagga 1501 ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg 1561 gatcaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt 1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc 1681 atacaagaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag 1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgctaa cccagcccca 1801 cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag 1861 gcaccagaag tagaaaaggc aaaacgggat tttcctggtc agccagatat gtggaaggat 1921 gccttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgat 1981 aagaatggca acaccccaca tgggaaaggg gtgatgaaga ccctcactac cggttctctg 2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc 2101 acaatcacca cctttaattt cgaccggaac agaatcacag cattcagaca attggctgca 2161 gaaaacaagt atggattggt ggataccatg aaagttggca atcaactaaa aggagtgaaa 2221 accatggaag aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccggatcatc 2281 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gggccctgca ccatctcaaa 2401 cacgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa 2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaattaga tcaaaatgaa tcagaggcta aggaagaggc ccccaagtca 2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaag 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 caccagaaaa 2881 caaagaaagg aagaaagggc cacattaggg ctggtgacag gttcagaaat cagaaaaaga 2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac 3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt 3061 ggctctggct ggggcttctg ggtatcacca agcctattca taacatcaac tcatgtaatc 3121 cccgcaggca taacagaagc atttggagtc tccatcaaac aaattcagat ccacaaatca 3181 ggtgaatttt gccgattcag attcccaaaa ccaattagac cagatgtgac aggaatgatc 3241 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga 3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc 3361 atggttggcg gacagatggg tatgttgctc actggatcaa atgctaaagg aatggatttg 3421 ggaacaactc ctggtgactg tggttgtcct tacatctaca aaaggggcaa tgactatata 3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgctacacag 3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca 3601 cccattttag gccctggggg tgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgatccg 3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcact 3781 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagccaaaca aaccattatc 3841 aatgttctcg aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgcc 3901 tcacttgaca aaaccacctc cagcgggcat ccccaccacg tccgaaagaa 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 ctcatggacg agatgaaggc acactgcata 4201 tcactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa 4261 cattccagat acaaatatca ctatgatgca gactactctc gttgggattc aacacaacag 4321 agggcagtac tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg 4381 gcacaaatag tcgctgagga tctactggcc cctagtgtag tagatgtagg agactttaaa 4441 atcacaataa atgaagggct cccatctggt gtgccatgca cttctcaatg gaactccatc 4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata 4621 aaattggacc ctgaacagtt aaccgccaag ttgaaggagt acggcctgaa accaacccgc 4681 ccagacaaga ccgagggacc cctgatcatc agtgaagatt tgaacggact cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagttcaatt 4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacagtgata 4861 ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga 4921 ccctctttct atagtagaat cagtaaattg 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 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtgtc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc 5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aattctcgcg gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttaa gtcctagcca ggtcactatg ttcccccata taatagtaga 5521 tgttagacaa ttagaacctg tgctgattcc tttacccgat gttaggaata atttctatca 5581 ttataatcag tcaaatgact ccactattaa gttgatagca atgttgtata caccacttag 5641 ggctaataat gctggagatg atgttttcac agtttcgtgc cgagttctca cgagaccatc 5701 ccccgatttt gatttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt 5761 ctctgtccca gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga 5821 aaagttgttt acaggcccca gcagtgcctt tgttgttcaa ccacaaaacg gtaggtgcac 5881 aactgatggc gtgctcctag gcaccaccca actttctccc gtcaacatct gcaccttcag 5941 aggggatgtc acccacataa caggtagtcg caactacaca atgaacttgg cttctcaaaa 6001 ttggaacaac tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt 6061 ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca 6121 caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt 6181 tgaaactgat acagaccatg attttgaagc taatcaaaac acaaagttca ccccagtcgg 6241 tgtcatccaa gatggtagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag 6301 ttactcaggc agaaacactc acaatgtaca tttggccccc gctgtagccc ccacctttcc 6361 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat 6421 ggatttggac tgtctgctcc cccaagaatg ggtgcagtac ttctaccaag aggcagcccc 6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt 6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt 6601 ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgtagta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct 6781 ggggccatca accaaaaagt tgaatttgaa aataacagaa aattgcaaca agcatccttc 6841 caatttagca gcaatctgca acaggcttcc tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc 6961 ctagagggtg ggttctctga gacagatgca gcccgtgggg caattaacgc ccccatgaca 7021 aaagctttgg actggaacgg aacaaggtac tgggctccag atgctaggat tacaacatac 7081 aatgcaggcc acttttccac ccctcaacca tcgagggcac tgccaggaag agctaatctt 7141 agggatgctg tccttgctcg gggaccctcc aacaaatctt ctaactcttc tactgccacc 7201 tctgtgtact caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaact 7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc 7381 agatcctcta gtcaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggag //