Typing tool
|
Complete norovirus genomes
MK754446 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5083 ORF2: 5064..6686 ORF3: 6686..7488LOCUS MK754446 7488 bp RNA linear VRL 11-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2018/GII.P16-GII.4 Sydney/Washington0207 nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MK754446 VERSION MK754446.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7488) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7488) AUTHORS Barclay,L., Cannon,J.L., Johnston,J., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission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..7488 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Washington0207" /isolate="Hu/US/2018/GII.P16-GII.4 Sydney/Washington0207" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="10-Jan-2018" /note="genotype: GII.P16-GII.4 Sydney" gene <1..5083 /gene="ORF1" CDS <1..5083 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="QBW96039.1" /translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR GEPQKPPRPPTPELVKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQPDVANT AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEETPKSGD DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR PSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFWNGETFT GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDLSTMIRC ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI AHWLLTLCALSEVTRLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM RFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide <1..979 /gene="ORF1" /product="p48" mat_peptide 980..2077 /gene="ORF1" /product="NTPase" mat_peptide 2078..2608 /gene="ORF1" /product="p22" mat_peptide 2609..3007 /gene="ORF1" /product="VPg" mat_peptide 3008..3550 /gene="ORF1" /product="Pro" mat_peptide 3551..5080 /gene="ORF1" /product="RdRp" gene 5064..6686 /gene="ORF2" CDS 5064..6686 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBW96040.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6686..>7488 /gene="ORF3" CDS 6686..>7488 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBW96041.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 cgacgctacc gtcgccgttg cttgcaacaa caacaacgac aaggaaaaat cttcaggtga 61 aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta ggcccaaaca 121 gcctgccccg agaggcgaac cacaaaagcc cccaagacca ccaactcccg agttggtcaa 181 gaggataccc cctcctccac ctaatggcga agaagaagga gaaccagtca ttaggtatga 241 ggttaagagt gggatctctg gcctgcccga gctcacaaca gtccctcaac cggacgtggc 301 caacacagca ttcagtgttc caccactgag tttgagagaa aatagggagg ccaaggaacc 361 gctaacaggg gcaatattag agatgtggga tggagagata taccactacg gcctgtacgt 421 ggagaaaggc ttagtgttgg gtgtgcacaa accgcctgca gccataagca tggcaagagt 481 ggagctgacg ccgctgtcat tgtactggcg tgtggtgtac accccccaat acctcatctc 541 ccctgaaact cttaggaggc tcaacggaga ggcattccct tacaccgcct tcgacaacaa 601 ttgctatgcc ttttgctgct gggtgttaga cctcaatgac tcatggctta gtaggaggat 661 ggtgcaaaga acaacgggct tctttagacc ttaccaagag tggaacagaa aacccctgcc 721 taccatggat gactccaaaa ttaagaaggt agcaaatata ttcctatgtt cattgtccac 781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattaa acatattgaa 841 catcctggca acgtgtgact ggacgtttgc cggaatagtg gagtccctga tattacttgc 901 tgagctcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact 961 cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac ctgtggtaat 1021 gggaggggtt ggtttggtgt tgggattcac caaagagaaa attggcaaga tgttgtcctc 1081 agcagcatca acactcaggg cttgcaaaga tcttggtgcc tatggcttag agatactcaa 1141 attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagctag ccatggtgag 1201 ggccatagag gatgccgtac tagatcttga ggcaatagaa aataaccaca tgacaaccct 1261 gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa 1321 agccagaagg ttgtccacaa aatctgcatc ccctgacata gttgggacaa tcaacgctct 1381 gctggctcga atagcagcgg ccaggtcatt agtccacagg gccaaggaag agttatctag 1441 caggataaga ccagtagttg ttatgatatc tggcaaacca ggaataggca aaactcatct 1501 ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaaa gagtcggact 1561 cataccaaga aacggtgtgg accattggga tgcatacaaa ggtgagagag tcgtgctgtg 1621 ggacgactat ggcatgagta accccattca tgatgctctt cgcatacaag aactggctga 1681 tacgtgtccc cttaccttaa attgtgacag aattgagaat aagggaaaag tttttgacag 1741 tgaagtcata ataattacaa caaaccttgc caacccagcc ccacttgatt atgtcaactt 1801 tgaggcctgt tccaggagga ttgatttcct ggtgtacgct gaggcaccag aagtggaaaa 1861 ggcaaaacgg gactttcctg gtcagccaga tatgtggaag gacgccttca agtcggactt 1921 ttcacacatc aagctacagc ttgcacctca gggcggcttt gacaagaatg gcaacacccc 1981 acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc gcgcatcagg 2041 cctactgcat gagaggatgg atgaatttga actccaaggt cccacaacca ccaccttcaa 2101 tttcgaccgg aacagaatca cagcattcag acaattggct gcagaaaaca agtatggatt 2161 ggtggatacc atgaaagttg gcaatcaact aaaaggagta aaaaccatgg aagaactcaa 2221 acaagcaatc aggaatgtga ccatcaagag gtgccggatc atctacggtg gctccacgta 2281 tgaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga acacctctgt 2341 acagaccaac aacgagttgg ccggggccct gcaccatctc aaacacgccc gaatcaggta 2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgccg gcgctgcgtt 2461 tgtcaccacg cgcattgcac gccgcatgaa catacaagaa ctctggtcga agccacaatt 2521 agatcaaaat gaatcagaga ctaaggaaga gacccccaag tcaggagatg acgagttcat 2581 catatcttct aaggacatca aggaggaggg aaagaagggc aaaaacaaaa ctggccgtgg 2641 caagaaacac actgcattct ccagcaaggg cttgagcgat gaggagtatg acgagtacaa 2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacagaga 2761 caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct gtgaagagga 2821 ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagga aggaagagag 2881 ggccacatta gggctggtga caggttcaga aatcagaaaa agaaaccctg atgacttcaa 2941 acccaaaggg aagctgtggg ccgacgacaa cagaagtgtt gactacaatg agaaactgga 3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttctg gctggggctt 3061 ctgggtatca ccaagcctgt tcataacatc aactcatgta atccccgctg gcataacaga 3121 agcatttgga gtccccatca aacaaattca gatccacaaa tcaggtgaat tttgccgatt 3181 cagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc 3241 tgaaggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc 3301 agccagaatg ggaacacacg caaccatgaa aattcaaggc cgcatggttg gcggacagat 3361 gggtatgttg ctcactggat caaatgctaa aggaatggat ttgggaacaa ctcctggtga 3421 ctgtggctgc ccttacatct ataaaagggg caatgactat atagtcattg gggtgcacac 3481 agcagcagcc cgtggtggaa acaccgtcat ctgtgccaca cagggaagtg agggtgaggc 3541 gactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc taggccctgg 3601 gggtgcacca aaattgagca ctaaaaccaa attctggagg tcatcgaaca cgccccttcc 3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccgcgtgtta agggtgggcc 3721 ctccttgcag caggtaatga gagaccagtt gaagccattc actgaaccca ggggcaaacc 3781 tccaagacca agtgtattgg aagcagccaa acaaaccatt atcaatgtcc tcgaacaaac 3841 cctggaccct ccacaaaaat ggtcatacgc acaggcgtgt gcctcacttg acaaaaccac 3901 ctccagcgga catccccatc acgtccgaaa gaatgaattc tggaatggtg agaccttcac 3961 tggtaaattg gcagaccaag catcaaaagc aaacctaatg tttgaggaag ggaaacacat 4021 gacaccagtg tatacagcag cactcaagga cgagctagtc aagactgaga aaatctatgg 4081 aaaggtcaag aagagactgc tctggggttc tgacttgtcc accatgatcc ggtgcgctag 4141 gtcgtttggt gggctcatgg acgagatgaa ggcacactgc atatcactcc cagtacgagt 4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacattcca gatacaaata 4261 tcattatgat gcagactact ctcgttggga ttcaacacaa cagagggcag tactagcagc 4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga 4381 ggatctgctg gcccccagtg tagtagatgt aggagacttt aaaatcacaa taaatgaagg 4441 gctcccatct ggtgtgccat gcacctccca atggaactcc atcgcacact ggctgctaac 4501 tctctgtgcc ttgtctgaag tcaccagact gtcccctgac attatacaag caaattccat 4561 gttctcgttt tacggtgatg acgagattgt cagcaccgac ataaaattgg accctgaaca 4621 gttaaccgcc aaattgaagg agtacggcct gaaaccaacc cgcccagaca agaccgaggg 4681 acccctgatc atcagtgaag atttgaacgg actcactttc ctccgaagga cggtgactcg 4741 tgacccagct ggctggtttg gaaaactgga ccaaagctca attttaaggc agatgtactg 4801 gactagagga ccaaatcatg aagaccccaa tgagacaatg ataccccatt ctcaaagacc 4861 catacagctc atggcactgc ttggtgaagc ctctctccac ggaccctctt tctacagtaa 4921 aatcagtaaa ttggtcataa ctgaactcaa agaaggtggg atggactttt acgtgccaag 4981 gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg agggcgatcg 5041 caatctggct cccaattttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg 5101 ggtccgcagc caacctcgta ccagaggtca ataatgaggt tatggctttg gagcccgttg 5161 ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta 5221 gaaataattt tgtacaagcc cctggtggag agtttacagt atcccctaga aacgctccag 5281 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa cccctatcta tcccatttgg 5341 ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg 5401 cgttcaccgc cgggaagatc atatttgcag cagtcccacc aaattttcca actgaaggct 5461 taagccctag ccaggtcact atgttccccc atataatagt agatgttaga caattagaac 5521 ctgtgctgat tcccttaccc gatgtcagga ataatttcta tcattataat caatcaaatg 5581 attccactat taagttgata gcaatgttgt atacaccact tagggctaat aatgctgggg 5641 atgatgtttt cacagtttcg tgccgagttc tcacgagacc atcccccgat tttgatttta 5701 tatttttagt gccacccaca gttgaatcaa gaactaaacc attctctgtc ccagttttaa 5761 ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg ttcacgggcc 5821 ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg cacaactgat ggcgtgctcc 5881 taggcaccac ccaactgtct cctgtcaaca tctgcacctt cagaggggat gtcacccaca 5941 tcacaggtag tcgcaactac acaatgaatt tggcttccca aaattggaat aactatgacc 6001 caacagaaga aatcccagcc cctctgggaa ctccagattt tgtggggaag attcaaggca 6061 tgctcactca aaccacaagg acagatggtt caacacgcgg ccacaaagct acagtgtaca 6121 ctgggagcgc cgactttgct ccaaaactgg gtagagttca atttgaaact gacacagacc 6181 atgattttga agctaaccaa aacacaaagt tcaccccagt cggtgtcatc caagatggta 6241 gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc aagttactca ggcagaaata 6301 ctcacaatgt acatctggcc cccgctgtag cccccacctt tccaggtgag caacttctct 6361 tcttcagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg gactgtctgc 6421 tcccccagga atgggtgcag tacttctatc aagaggcagc cccagcacaa tctgatgtgg 6481 ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgc aagcttcata 6541 aatcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg 6601 gttactttag gtttgattcc tgggtcaacc aattctacac gcttgccccc atgggaaatg 6661 gaacggggcg tagacgtgta gtataatggc tggagctttc tttgctggat tggcatctga 6721 tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca tcaaccaaaa 6781 agttgagttt gaaaataaca gaaaattgca acaagcatcc ttccaattta gcagcaatct 6841 gcaacaggct tcctttcaac atgataaaga gatgctccaa gcacaaattg aggccaccaa 6901 aaagctacaa caggaaatga tgaaagttaa gcaggcaatg ctcctagagg gtgggttctc 6961 tgagacagat gcagcccgcg gggcaatcaa cgctcccatg acaaaagctt tggactggag 7021 cgggacaagg tactgggctc ccgatgctag gactacaaca tacaatgcag gccgcttctc 7081 cacccctcaa ccatcgggga cactgccagg aagagctaac cttagggatg ctgtccctgc 7141 tcggggaccc tccaacaaat cttctaactc ttctactgcc acctctgtgt actcaaatca 7201 aactatttca acgagacttg gttctacagc tggttctgga accagtgtct cgagcctccc 7261 gtcaactgca aggactagga gctgggttga ggatcaaagt aggaatttgt cacctttcat 7321 gaggggggcc cacaacatat catttgtcac cccaccatct agcagatcct ctagccaagg 7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg 7441 caggcagcct ctcttcgctc acattcgtaa gcgaggggag tcacgggt //