Typing tool
|
Complete norovirus genomes
MK762639 | GII.4 Sydney | ||
---|---|---|---|
GII.P16 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7505LOCUS MK762639 7505 bp RNA linear VRL 13-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/Porter0184 nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MK762639 VERSION MK762639.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7505) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7505) AUTHORS Barclay,L., Cannon,J.L., Hindenlang,M., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission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..7505 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Porter0184" /isolate="Hu/US/2017/GII.P16-GII.4 Sydney/Porter0184" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="28-Feb-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="QBX91144.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRVPPPPPNGEEGEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAREPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDQNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE 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="QBX91145.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMSLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQITRADGSTRGHKATVYTGSANFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6703..>7505 /gene="ORF3" CDS 6703..>7505 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBX91146.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARITTYNAGRFSTPQSSGALPGRANLRDAVPARGPSNKSS NSSTVTSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKQGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag 61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggctaggc ccaaacagcc cgccccgaga gacgaaccac aaaagccccc aagaccacca 181 actcccgagt tggtcaagag ggtaccccct cctccaccta atggcgaaga aggagaagaa 241 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc 301 ccccaaccgg acgtggccaa cacagcattc agtgtgccac cactgagctt gagagaaaat 361 agggaggcca gggaaccgct aacaggggca atattagaga tgtgggatgg agagatatac 421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc 481 ataagcatgg caagagtgga gctgacgccg ctgtcattgt actggcgtgt ggtgtacact 541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc gttcccttac 601 accgccttcg acaacaactg ctatgccttt tgctgctggg tgttagacct caatgactca 661 tggcttagca ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg 721 aacagaaaac ccctgcctac catggatgac tccaaaatta agaaggtagc aaatatattc 781 ctatgttcat tgtccacgtt attcaccaga cccataaaag acctcatagg aaaaattaaa 841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggaa 901 tctctgatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ccttactcgg ggaatacgag ttgcaagggc cagaagacct cgccgttgaa 1021 ctcgtacctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt 1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat 1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaac 1201 gagctagcca tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaggacaaa gacagcttag caacatacat gaaaacactg 1321 gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt 1381 gggacaatca acgccctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc 1441 aaggaagagc tatctagcag gataagacca gtagttgtta tgatatctgg taaaccagga 1501 ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg 1561 gaccaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt 1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc 1681 atacaagaat tggctgatac gtgccccctt accttaaatt gtgacagaat tgaaaataag 1741 ggaaaagttt ttgacagtga agtcataata attacaacta accttgccaa tccagcccca 1801 cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag 1861 gcaccagaag tagaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac 1921 gccttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg 2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc 2101 acaatcacca ccttcaattt cgaccagaac agaatcacag cattcagaca attggctgca 2161 gaaaacaagt atggattggt ggataccatg aaagttggca atcaactaaa aggagtgaaa 2221 accatggaag aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccggatcatc 2281 tacggtggct ccacgtacga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gggccctgca ccatctcaaa 2401 cacgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag caatctactc catcatacaa 2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaattaga tcaaaatgaa tcagagacta aggaagaggc ccccaagtca 2581 gaagacgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa 2641 aacaaaactg gccgtggcaa gaaacacact gcattctcca gcaagggttt gagcgatgag 2701 gagtatgacg agtacaagag gataagagaa gagaggaatg ggaagtactc tatagaggag 2761 tatcttcaag atagagacag gtactatgag gagctcgcca ttgccaaggc cacagaagaa 2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa 2881 caaagaaagg aagagagggc cacattaggg ctagtaacag gttcagaaat cagaaaaaga 2941 aaccctgatg actttaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac 3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt 3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc 3121 cccgcaggca taacagaagc gtttggagtc cctatcaaac 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 tggctgtcct tacatctata aaaggggcaa tgactacata 3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgctacacag 3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca 3601 cccattctag gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgatccg 3721 cgtgttaagg gtgggccctc cctgcagcag gtaatgagag accagttgaa gccattcact 3781 gaacccaggg gcaaacctcc aaggccaagt gtattggaag cagccaaaca aaccattatc 3841 aatgtcctcg aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgcc 3901 tcacttgaca aaaccacctc cagcgggcat ccccatcacg tccgaaagaa tgaattctgg 3961 aatggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt 4021 gaggaaggga aacacatgac accagtgtat acagcagcac tcaaggatga gctagtcaag 4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc 4141 atgattcggt gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata 4201 tcactcccag tacgagttgg catgaatatg aatgaggatg gcccaataat atttgagaaa 4261 cattccagat ataaatatca ctatgatgca gactactctc gttgggattc aacacaacag 4321 agggcagtac tagcagcagc tttggaaatc atggtcagat tctctgcaga accacaattg 4381 gcacaaatag tcgctgagga tctgctggcc cccagtgtag tagatgtagg agactttaaa 4441 atcacgataa atgaagggct cccatctggt gtgccgtgca cttctcaatg gaactccatc 4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 atacaagcaa attccatgtt ctcgttttac ggtgatgacg agattgtcag caccgacata 4621 aaattggacc ctgaacagtt aaccgccaag ttgaaggagt acggcctgaa accaacccgc 4681 ccagataaga ccgagggacc cctgatcatc agtgaagatt tgaacggact cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagctcaatt 4801 ttaaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata 4861 ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga 4921 ccctctttct acagtaaaat 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 tcacagtatc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc 5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aattctcgcg gggaacgcgt tcaccgccgg gaagatcata tttgcagcag tcccaccaaa 5461 ctttccaact gaaggcttaa gtcctagcca agtcactatg ttcccccata taatagtaga 5521 tgttagacaa ttagaacctg tgctgattcc cttacccgat gttaggaata atttctatca 5581 ttataatcag tcaaatgact ccactattaa gttgatagca atgttgtata caccacttag 5641 ggctaataat gctggggatg atgttttcac agtttcgtgc cgagttctca cgagaccatc 5701 ccccgatttt gatttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt 5761 ctctgtccca gtcttaactg ttgaggagat gaccaattca agattcccca ttcctttgga 5821 aaagttgttc acgggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac 5881 aactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacatca caggtagtcg caactacaca atgagtttgg cttctcaaaa 6001 ttggaacaat tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt 6061 ggggaagatt caaggcatgc tcacccaaat cacaagggca gatggttcaa cacgcggcca 6121 caaagctaca gtgtacactg ggagcgccaa ctttgctcca aaactgggta gagttcaatt 6181 tgaaactgac acagaccatg actttgaagc taatcaaaac acaaagttca ccccagtcgg 6241 tgttatccaa gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag 6301 ttactcaggc agaaatactc acaatgtaca tctggccccc gctgtagccc ccacttttcc 6361 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat 6421 ggatttggac tgtctgctcc cccaggaatg ggtacagtac ttctaccaag aggcagcccc 6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt 6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt 6601 ggttatccct cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgtagta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt ccctcatcaa tgctggggct 6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc 6841 caatttagca gcaatctgca acaggcttcc tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcagtgctc 6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca 7021 aaagctttgg attggagcgg gacaaggtac tgggctcccg atgctaggat tacaacatac 7081 aatgcaggcc gcttttccac ccctcaatca tcgggggcac tgccaggaag agctaatctt 7141 agggatgctg tccctgctcg gggaccctcc aataaatctt ctaactcttc tactgtcacc 7201 tctgtgtact caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc 7261 agtgtctcga gcctcccgtc gactgcaagg actaggagct gggttgagga tcaaagtagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagca aggggagtca 7501 cgggt //