Typing tool
|
Complete norovirus genomes
MK762570 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5094 ORF2: 5075..6697 ORF3: 6697..7503LOCUS MK762570 7552 bp RNA linear VRL 13-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/CS1010 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MK762570 VERSION MK762570.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7552) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7552) AUTHORS Barclay,L., Cannon,J.L., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted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..7552 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CS1010" /isolate="Hu/US/2017/GII.P16-GII.4 Sydney/CS1010" /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..5094 /gene="ORF1" CDS <1..5094 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBX91037.1" /translation="MASNDATVAVARNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQ PAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPD VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS MARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGK IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEVNELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTM EELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLK HARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEEAP KSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL FITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNG ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLST MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQ WNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEY GLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH EDPNETVIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide <1..990 /gene="ORF1" /product="p48" mat_peptide 991..2088 /gene="ORF1" /product="NTPase" mat_peptide 2089..2619 /gene="ORF1" /product="p22" mat_peptide 2620..3018 /gene="ORF1" /product="VPg" mat_peptide 3019..3561 /gene="ORF1" /product="Pro" mat_peptide 3562..5091 /gene="ORF1" /product="RdRp" gene 5075..6697 /gene="ORF2" CDS 5075..6697 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBX91038.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6697..7503 /gene="ORF3" CDS 6697..7503 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBX91039.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWNGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVLARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 atggcgtcta acgacgctac cgttgccgtt gctcgcaaca acaacaacga caaggaaaaa 61 tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc cctcggggcc 121 agacccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc accaactccc 181 gagttggtca agaggatacc ccctccccca cctaatggcg aagaagaaga agaaccagtc 241 attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac agtcccccaa 301 ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga aaacagggag 361 gccaaggaac cgctaacagg ggcaatatta gagatgtggg acggagagat ataccactat 421 ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc agccataagc 481 atggcaagag tagagctgac gccgctgtca ttgtactggc gtgtggtgta caccccccaa 541 tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcgttccc ttacaccgcc 601 ttcgacaaca actgctatgc cttttgctgc tgggtgttag acctcaatga ctcatggctt 661 agcagaagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga gtggaacaga 721 aaacccctgc ccaccatgga tgactccaaa ataaagaagg tagcaaatat attcctatgt 781 tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat taaaccatta 841 aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt ggagtctctg 901 atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc tgctatgatc 961 gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt tgaactcgtg 1021 cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa aattggcaaa 1081 atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc ctatggctta 1141 gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggt caatgagcta 1201 gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga aaataaccac 1261 atgacaaccc tgttgaaaga caaagacagc ttggcaacat acatgaaaac actggacatg 1321 gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat agttgggaca 1381 atcaacgccc tgctggctcg aatagcagca gccaggtcat tagtccacag ggccaaggaa 1441 gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc aggaataggc 1501 aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac aggggatcaa 1561 agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa aggtgagaga 1621 gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct tcgcatacaa 1681 gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa taagggaaaa 1741 gtttttgaca gtgaagtcat aataattaca acaaaccttg ctaacccagc cccacttgat 1801 tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc tgaggcacca 1861 gaagtagaaa aggcaaaacg ggattttcct ggtcagccag atatgtggaa ggatgccttc 1921 aagccggact tttcacacat caagctacag cttgcacctc agggcggctt tgataagaat 1981 ggcaacaccc cacatgggaa aggggtgatg aagaccctca ctaccggttc tctgattgcc 2041 cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg tcccacaatc 2101 accaccttta atttcgaccg gaacagaatc acagcattca gacaattggc tgcagaaaac 2161 aagtatggat tggtggatac catgaaagtt ggcaatcaac taaaaggagt gaaaaccatg 2221 gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgccggat catctacggt 2281 ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga aaaggtcaag 2341 aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct caaacacgcc 2401 cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat acaaattgcc 2461 ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga actctggtcg 2521 aagccacaat tagatcaaaa tgaatcagag gctaaggaag aggcccccaa gtcagaagat 2581 gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg caagaacaaa 2641 actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga tgaggagtat 2701 gacgagtaca agaggataag agaagagaga aatgggaagt actctataga ggagtatctt 2761 caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga agaagacttc 2821 tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag aaaacaaaga 2881 aaggaagaaa gggccacatt agggctggtg acaggttcag aaatcagaaa aagaaaccct 2941 gatgacttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt tgactacaat 3001 gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag ctttggctct 3061 ggctggggct tctgggtatc accaagccta ttcataacat caactcatgt aatccccgca 3121 ggcataacag aagcatttgg agtctccatc aaacaaattc agatccacaa atcaggtgaa 3181 ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat gatcttggaa 3241 gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac cggagagctc 3301 atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg ccgcatggtt 3361 ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga tttgggaaca 3421 actcctggtg actgtggttg tccttacatc tacaaaaggg gcaatgacta tatagtcatt 3481 ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgctac acagggaagt 3541 gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg ggcacccatt 3601 ttaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag gtcatcgaac 3661 acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga tccgcgtgtt 3721 aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt cactgaaccc 3781 aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat tatcaatgtt 3841 ctcgaacaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg tgcctcactt 3901 gacaaaacca cctccagcgg gcatccccac cacgtccgaa agaatgaatt ctggaatggt 3961 gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat gtttgaggaa 4021 gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt caagactgag 4081 aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc caccatgatc 4141 cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg catatcactc 4201 ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga gaaacattcc 4261 agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca acagagggca 4321 gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca attggcacaa 4381 atagtcgctg aggatctact ggcccctagt gtagtagatg taggagactt taaaatcaca 4441 ataaatgaag ggctcccatc tggtgtgcca tgcacttctc aatggaactc catcgcacac 4501 tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga cattatacaa 4561 gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga cataaaattg 4621 gaccctgaac agttaaccgc caagttgaag gagtacggcc tgaaaccaac ccgcccagac 4681 aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt cctccgaagg 4741 acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagttc aattttgagg 4801 cagatgtact ggactagagg accaaatcat gaagacccca atgagacagt gataccccat 4861 tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca cggaccctct 4921 ttctacagta gaatcagtaa attggtcata actgaactca aagaaggtgg gatggacttt 4981 tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt gagcacgtgg 5041 gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga gtgacgccaa 5101 cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg ttatggcttt 5161 ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa atgtaattga 5221 cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag tgtcccctag 5281 aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa atccctacct 5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct 5401 cgcggggaac gcgttcaccg ccgggaagat tatatttgca gcagtcccac caaattttcc 5461 aactgaaggc ttaagtccta gccaggtcac tatgttcccc catataatag tagatgttag 5521 acaattagaa cctgtgctga ttcctttacc cgatgttagg aataatttct atcattataa 5581 tcagtcaaat gactccacta ttaagttgat agcaatgttg tatacaccac ttagggctaa 5641 taatgctgga gatgatgttt tcacagtttc gtgccgagtt ctcacgagac catcccccga 5701 ttttgatttc atatttttag tgccacccac agttgagtca agaactaaac cattctctgt 5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt tggaaaagtt 5821 gtttacaggc cccagcagtg cctttgttgt tcaaccacaa aacggtaggt gcacaactga 5881 tggcgtgctc ctaggcacca cccaactttc tcccgtcaac atctgcacct tcagagggga 5941 tgtcacccac ataacaggta gtcgcaacta cacaatgaac ttggcttctc aaaattggaa 6001 caactatgac ccaacagaag aaatcccagc ccctctagga actccagatt ttgtggggaa 6061 gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg gccacaaagc 6121 tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac 6181 tgatacagac catgattttg aagctaatca aaacacaaag ttcaccccag tcggtgtcat 6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc 6301 aggcagaaac actcacaatg tacatttggc ccccgctgta gcccccacct ttccgggtga 6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt 6421 ggactgtctg ctcccccaag aatgggtgca gtacttctac caagaggcag ccccagcaca 6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg 6541 caagcttcac aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat 6601 cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca cgcttgcccc 6661 catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt ctttgctgga 6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc 6781 atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcatc cttccaattt 6841 agcagcaatc tgcaacaggc ttcctttcaa catgataaag agatgctcca agcacaaatt 6901 gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag 6961 ggtgggttct ctgagacaga tgcagcccgt ggggcaatta acgcccccat gacaaaagct 7021 ttggactgga acggaacaag gtactgggct ccagatgcta ggattacaac atacaatgca 7081 ggccactttt ccacccctca accatcgagg gcactgccag gaagagctaa tcttagggat 7141 gctgtccttg ctcggggacc ctccaacaaa tcttctaact cttctactgc cacctctgtg 7201 tactcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg aactagtgtc 7261 tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa taggaatttg 7321 tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc tagcagatcc 7381 tctagtcaag gcacagtctc aaccgtgcct aaagagattt tggactcctg gactggcgct 7441 ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga gtcacgggtg 7501 taatgtgaaa agacaaaact gattattttt ctttttcttt tctttagtgt ct //