Typing tool
|
Complete norovirus genomes
MK764016 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS MK764016 7555 bp RNA linear VRL 13-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2018/GII.P16-GII.4 Sydney/Bay0244, complete genome. ACCESSION MK764016 VERSION MK764016.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7555) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7555) AUTHORS Barclay,L., Cannon,J.L., Mosher,L., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission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..7555 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Bay0244" /isolate="Hu/US/2018/GII.P16-GII.4 Sydney/Bay0244" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="06-Feb-2018" /note="genotype: GII.P16-GII.4 Sydney" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBX92727.1" /translation="MKMASNDATVVVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDKSQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNKITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFW NGETFTSKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..1000 /gene="ORF1" /product="p48" mat_peptide 1001..2098 /gene="ORF1" /product="NTPase" mat_peptide 2099..2629 /gene="ORF1" /product="p22" mat_peptide 2630..3028 /gene="ORF1" /product="VPg" mat_peptide 3029..3571 /gene="ORF1" /product="Pro" mat_peptide 3572..5101 /gene="ORF1" /product="RdRp" gene 5085..6707 /gene="ORF2" CDS 5085..6707 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBX92728.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRSTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6707..7513 /gene="ORF3" CDS 6707..7513 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBX92729.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQSSGALPGRTNLRDAVPARGPPSKSS NSSTATSVYSNQTASTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFVRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgctac cgttgtcgtt gcttgcaaca acaacaacga 61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc 121 cctcggggct aggcccaaac agcctgcccc gagagacaaa tcacaaaagc ccccaagacc 181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga 241 agaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac 301 agtcccccaa ccggacgtgg ccaacacagc attcagcgtt ccaccactga gcttgagaga 361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat 421 ataccactac ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccataagc atggcaagag tagagctgac gccgctgtca ttgtactggc gtgtagtgta 541 cactccccaa tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcattccc 601 ttacaccgcc tttgacaaca actgctatgc cttttgctgc tgggtgttag acctcaatga 661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga 721 gtggaacaga aaacccctgc ccaccatgga tgactccaaa atcaagaagg tagcaaatat 781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat 841 caaaccatta aacatattga atatcctggc aacgtgtgac tggacgtttg ccggaatagt 901 ggagtctctg atattgcttg ctgaactctt cggagttttc tggacacccc cagatgtgtc 961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt 1021 tgaactcgtg cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa 1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc 1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccgaaga aagaggaggc 1201 caatgagcta gccatggtga gggccataga ggatgctgta ctagatcttg aggcaataga 1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac 1321 actggacatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgccc tgttggctcg aatagcagcg gccaggtcac tagtccacag 1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc 1501 aggaatagga aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac 1561 aggggatcaa agagtcggac tcataccaag aaacggtgtc gaccattggg atgcatacaa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct 1681 tcgcatacaa gagttggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa 1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaatccagc 1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc 1861 tgaggcacca gaagtagaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa 1921 ggacgccttc aagtcggact tttcacacat caagctacag cttgcaccac agggcggctt 1981 tgataagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ccaccggttc 2041 tctgattgcc cgcgcatcag gcctactgca cgagaggatg gatgaatttg agctccaagg 2101 tcccacaatc accaccttca acttcgaccg gaacaaaatc acagcattca gacaattggc 2161 tgcagaaaac aagtatggat tggtggatac catgaaagtt ggcaatcaac taaaaggagt 2221 gaaaaccatg gaagaactca aacaagcaat caggaatgtg accattaaga ggtgccggat 2281 catctacggt ggttccacgt atgaccttga atctgatggc aagggcaaag ttctggtgga 2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct 2401 caaacacgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat 2461 acagattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga 2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcccccaa 2581 gtcagaagat gacgagttca tcatatcttc taaggacatc aaggaagaag gaaagaaggg 2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga 2701 tgaggagtat gacgagtaca agagaataag agaagagaga aatgggaagt actctataga 2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aagccacgga 2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag 2881 gaaacaacga aaggaagaga gggccacatt agggctagta acaggttcag aaatcagaaa 2941 aagaaaccct gatgacttca aacccaaagg aaagctgtgg gccgatgaca acagaagtgt 3001 tgactataat gagaaactgg actttgaggc ccctccaagc atatggtcta ggattgtgag 3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt 3121 aatccccgca ggcataacag aagcatttgg ggttcccatt aaacaaattc agatccacaa 3181 atcaggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat 3241 gatcttggaa gaaggtgcgc ctgagggcac cgtggcaact gtgctcatca aacgccccac 3301 cggagagctc atgcctcttg cagctagaat gggaactcac gcaaccatga aaattcaagg 3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga 3421 tttaggaaca actcctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta 3481 catagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgcgccac 3541 acagggaagt gagggtgagg caactcttga aggtggagat gacaaaggaa catactgtgg 3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag 3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga 3721 tccgcgtgtt aagggtgggc cctccttgca gcaggtgatg agagaccagt tgaagccatt 3781 cactgaaccc aggggcaaac ctccaagacc aagtgtatta gaagcagcca aacaaaccat 3841 catcaatgtc ctcgaacaaa ccctggaccc tccacaaaaa tggacatatg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg gcatccctat cacgtccgaa agaacgaatt 3961 ctggaatggt gagaccttca ctagtaaatt ggcagaccaa gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt 4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc 4141 caccatgatc cgatgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg 4201 catatcactc ccagtccgag tcggcatgaa tatgaatgaa gatggtccaa taatatttga 4261 gaaacattcc agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca 4321 acagagggca gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca 4381 attggcacaa atagtcgctg aggatctgct agcccccagt gtagtagatg tgggagactt 4441 taaaataaca ataaatgaag ggctcccctc tggtgtgcca tgtacttctc aatggaactc 4501 catcgcacat tggctgctaa ctctatgtgc cttgtctgaa gtcaccaaac tgtcccctga 4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga 4621 cataaaactg gaccctgaac agctaaccgc taaattaaag gagtacggcc tgaaaccaac 4681 ccgcccagac aaaaccgagg gacccctgat catcagtgaa gatttaaacg gactcacttt 4741 cctccggagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc 4801 aattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat 4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca 4921 cggaccctct ttttacagta aaattagcaa attggtcata gctgaactca aagaaggtgg 4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg 5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag 5281 tgtcccctag aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa 5341 atccctacct atcccatctg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaagat catatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttaagtccta gccaggtcac tatgttcccc catataatag 5521 tagatgttag acaattagaa cctgtgctga ttcccttacc cgatgtcagg aataatttct 5581 atcattataa tcaatcaaat gactccacta ttaagttgat agcaatgttg tatacaccac 5641 ttagggctaa caatgctggg gacgatgtct tcacagtttc gtgccgagtt ctcacgagac 5701 catcccccga ctttgatttc atattcttag tgccacccac agttgagtca agaactaaac 5761 cattctctgt cccagtcttg accgttgagg agatgaccaa ttcaagattt cccattcctt 5821 tggaaaagtt gttcacgggc cccagcagtg cctttgttgt tcaaccacaa aacggcaggt 5881 gcacaactga tggcgtgctc ctaggcacca cacaactgtc tcctgtcaac atctgcacct 5941 tcagagggga tgtcacccac atcacaggta gtcacaacta cacgatgaat ttggcttctc 6001 aaaattggaa caactatgac ccaacagaag aaatcccagc ccctctagga gctccagatt 6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacgcgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaattg ggtagagttc 6181 aatttgaaac tgacacaaac catgattttg aagccaacca aaacacaaag ttcaccccag 6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc 6301 caagttactc aggcagaagc actcacaatg tacatctggc ccccgctgta gctcccacct 6361 ttccgggtga acaacttctc ttctttagat ccaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag 6481 ccccagcaca atctgatgtg gctttgctaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgaatg caagcttcac aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca 6661 cacttgcccc catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt 6721 ctttgctgga ttggcgtctg atgtcctcgg ctctggactt ggttccctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgagtt cgaaaacaac agaaaattgc aacaagcatc 6841 cttccaattt agcagcaatc tgcaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaggtta agcaggcaat 6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat 7021 gacaaaagct ctagactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atacaacgca ggccgctttt ccacccctca atcatcgggg gcactgccag gaagaactaa 7141 tcttagggac gctgttcctg ctcggggacc ccccagtaaa tcttctaact cttctactgc 7201 cacctctgtg tactcaaatc aaactgcttc aacgagactt ggttctacag ctggttctgg 7261 aaccagtgtt tcgagcctcc cgtcgactgc aaggactagg agctgggttg aggaccaaag 7321 taggaatttg tcacctttcg tgaggggggc ccacaacata tcatttgtca ccccaccatc 7381 tagtaggtcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta ggcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt ctttttcttt tgtgt //