Typing tool
|
Complete norovirus genomes
MK752937 | GII.4 Sydney | ||
---|---|---|---|
GII.P16 |
ORF1: 4..5103 ORF2: 5084..6706 ORF3: 6706..7512LOCUS MK752937 7525 bp RNA linear VRL 11-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/CerroGordo0434 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MK752937 VERSION MK752937.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7525) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7525) AUTHORS Barclay,L., Cannon,J.L., Davis,T., Montmayeur,A.M., Tatusov,R.L. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (04-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..7525 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CerroGordo0434" /isolate="Hu/US/2017/GII.P16-GII.4 Sydney/CerroGordo0434" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="30-Jan-2017" /note="genotype: GII.P16-GII.4 Sydney" gene 4..5103 /gene="ORF1" CDS 4..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBS47642.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PGVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRLIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMYEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRLSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 4..999 /gene="ORF1" /product="p48" mat_peptide 1000..2097 /gene="ORF1" /product="NTPase" mat_peptide 2098..2628 /gene="ORF1" /product="p22" mat_peptide 2629..3027 /gene="ORF1" /product="VPg" mat_peptide 3028..3570 /gene="ORF1" /product="Pro" mat_peptide 3571..5100 /gene="ORF1" /product="RdRp" gene 5084..6706 /gene="ORF2" CDS 5084..6706 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBS47643.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6706..7512 /gene="ORF3" CDS 6706..7512 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBS47644.1" /translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac 61 aaggaaaaat cttcaggtga aggattattc acaaatatgt cttccacctt aaagaaagcc 121 ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc cccaagacca 181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaagaa 241 gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga actcacaaca 301 gtcccccaac cgggcgtggc caacacagca ttcagtgttc caccactgag cttgagagaa 361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga cggagagata 421 taccactatg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca 481 gccataagca tggcaagagt ggagctggcg ccgctgtcat tgtactggcg tgtggtgtac 541 actccccaat acctcatctc ccctgaaact ctcaggaggc tcaacggaga ggcgttccct 601 tataccgcct tcgacaacaa ctgctatgcc ttttgctgct gggtgttaga cctcaatgac 661 tcgtggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag 721 tggaacagaa aacccctgcc taccatggat gactccaaaa taaagaaggt agcaaatata 781 ttcctatgtt cattgtccac attgtttacc agacccataa aagacctcat aggaaaaatt 841 aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg 901 gagtctctga tattacttgc tgaactcttc ggagttttct ggacaccccc agatgtgtct 961 gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga cctcgccgtt 1021 gaactcgtac ctgtggtaat gggagggatt ggtttggtgt tgggattcac caaagagaaa 1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc 1141 tatggcttag agatactcaa attggtcatg aagtggttct tcccaaagaa agaggaggcc 1201 aatgaactag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa 1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata tatgaaaaca 1321 ctggacatgg aggaggagaa agccagaagg ttgtccacaa aatctgcatc ccctgacata 1381 gttggaacaa tcaacgcctt gctggctcga atagcagcgg ccaggtcatt agtccacagg 1441 gccaaggaag agctatctag caggataaga ccagtagttg ttatgatatc tggcaaacca 1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca 1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa 1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctt 1681 cgcatacagg aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat 1741 aagggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc 1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct 1861 gaggcaccag aagtagaaaa ggcaaaacgg gactttcctg gtcagccaga tatgtggaag 1921 gacgccttca agtcggactt ttcacacatc aagctacagc ttgcacctca gggcggcttt 1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct 2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgagtttga actccaaggt 2101 cccacaatca ccaccttcaa tttcgatcgg aacagaatca cagcattcag acaattggct 2161 gcagaaaaca agtatggatt ggtggacacc atgaaagttg gcaatcaact aaaaggagtg 2221 aaaaccatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag gtgccggctc 2281 atctatggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa 2341 aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct gcaccacctc 2401 aaacacgccc gaattaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata 2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa 2521 ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga ggcccccaag 2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaagggc 2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat 2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag 2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa 2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg tcccaccagg 2881 aaacaaagaa aggaagagag ggccacatta gggctggtaa caggttcaga aatcagaaaa 2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt 3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc 3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aactcatgta 3121 atccccgcag gcataacaga agcgtttgga gtccccatca aacaaattca gatccacaaa 3181 tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt gacaggaatg 3241 atcttggaag aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa acgccccacc 3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc 3361 cgcatggttg gcggacagat gggtatgttg ctcactggat caaatgctaa aggaatggat 3421 ttgggaacaa ctcctggtga ctgtggctgc ccttacatct ataaaagggg caatgactat 3481 atagtcattg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca 3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg 3601 gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg 3661 tcatcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgat 3721 ccgcgtgtta agggtgggcc ctccttgcag caggtgatga gagaccagtt gaagccattc 3781 actgaaccca ggggcaaacc tcctagacca agtgtattgg aagcagccaa acaaaccatt 3841 atcaatgttc tcgaacaaac cctggaccct ccacaaaaat ggacatacgc acaggcgtgt 3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgtccgaaa gaatgaattc 3961 tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc aaacctaatg 4021 tatgaggaag ggaaacacat gacaccagtg tatacagcag cactcaagga cgagctagtc 4081 aagactgaga aaatctatgg aaagatcaag aagagactgc tctggggctc tgacttgtcc 4141 actatgatcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa ggcacactgc 4201 atatcactcc cggtacgagt tggcatgaat atgaatgaag atggcccaat aatatttgag 4261 aaacactcca gatacaaata ccactatgat gcagactact ctcgttggga ttcaacacaa 4321 cagagggcag tactagcagc agccttggaa atcatggtca gactctctgc agaaccacaa 4381 ttggcacaaa tagtcgctga ggatctactg gcccctagtg tagtagatgt aggagacttt 4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttctca atggaactcc 4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac 4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac 4621 ataaaattgg accctgaaca gttaaccgcc aagttgaagg agtacggcct gaaaccaacc 4681 cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg actcaccttc 4741 ctccgaagga cggtgactcg tgacccggct ggctggtttg gaaaactgga ccaaagttca 4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg 4861 ataccccact ctcaaagacc catacagctt atggcactgc ttggtgaagc ctctcttcac 4921 ggaccctctt tctacagtag aatcagtaaa ttggtcataa ctgaactcaa agaaggtggg 4981 atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg 5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag 5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt 5161 tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa 5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg agtttacagt 5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccctaggcc ctgacctaaa 5341 tccctacctg tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca 5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatt atatttgcag cagtcccacc 5461 aaattttcca actgaaggct taagtcctag ccaggtcact atgttccccc atataatagt 5521 agatgttaga caattagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta 5581 tcattacaat cagtcaaatg attccactat taagttgata gcaatgttgt atacaccact 5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc 5701 atcccccgat tttgatttca tatttttagt gccacccacg gttgagtcaa gaactaaacc 5761 attctctgtc ccagttttaa ctgttgagga gatgaccaac tcaagattcc ccatcccttt 5821 ggaaaagttg ttcacaggcc ccagcagtgc ttttgttgtc caaccacaaa acggcaggtg 5881 cacaactgat ggcgtgctcc taggcaccac ccaactttct cctgtcaaca tctgcacctt 5941 cagaggggat gtcacccaca tcacaggtag tcgcaactac acaatgaatt tggcttctca 6001 aaattggaac aactatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt 6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt caacacgcgg 6121 ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca 6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccagt 6241 cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc 6301 aagttactca ggcagaaaca ctcacaatgt acatttggcc cccgctgtag cccccacttt 6361 tccaggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa 6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc 6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt 6541 gtttgagtgc aagcttcaca aatcaggcta tgttacagtg gctcacactg gccaacatga 6601 tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac 6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc tggaactttc 6721 tttgctggat tggcatctga tgtccttggc tctggacttg gctcccttat caatgctggg 6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc 6841 ttccaattta gcagcaatct acaacaggct tcctttcaac atgataaaga gatgctccaa 6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg 6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg 7021 acaaaagctt tggactggag cgggacaagg tactgggctc cagatgctag gattacaaca 7081 tacaatgcag gccatttttc cacccctcaa ccatcgaggg cactgccagg aagagctaat 7141 cttagggatg ctgtccctgc tcggggaccc tccaacaaat cttctaactc ttctactgcc 7201 acctctgtgt actcaaatca aaccatttca acgagacttg gttctacagc tggttctgga 7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaaat 7321 aggaatttgt cacctttcat gaggggggcc cacaacatat catttgtcac cccaccatct 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg 7441 actggcgctt ttaacacgcg caggcagcct ctcttcgctc acatccgtaa gcgaggggag 7501 tcacgggtgt aatgtgaaaa gacaa //