Typing tool
|
Complete norovirus genomes
MK762637 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 3..5102 ORF2: 5083..6705 ORF3: 6705..7511LOCUS MK762637 7557 bp RNA linear VRL 13-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2015/GII.P16-GII.4 Sydney/LaPorte0381 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MK762637 VERSION MK762637.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7557) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7557) AUTHORS Barclay,L., Cannon,J.L., Hindenlang,M., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission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..7557 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="LaPorte0381" /isolate="Hu/US/2015/GII.P16-GII.4 Sydney/LaPorte0381" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="05-Dec-2015" /note="genotype: GII.P16-GII.4 Sydney" gene 3..5102 /gene="ORF1" CDS 3..5102 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBX91138.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNVLATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCAQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLTQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 3..998 /gene="ORF1" /product="p48" mat_peptide 999..2096 /gene="ORF1" /product="NTPase" mat_peptide 2097..2627 /gene="ORF1" /product="p22" mat_peptide 2628..3026 /gene="ORF1" /product="VPg" mat_peptide 3027..3569 /gene="ORF1" /product="Pro" mat_peptide 3570..5099 /gene="ORF1" /product="RdRp" gene 5083..6705 /gene="ORF2" CDS 5083..6705 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBX91139.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6705..7511 /gene="ORF3" CDS 6705..7511 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBX91140.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 gaatgaagat ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca 61 aggaaaaatc ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc 121 tcggggctag gcccaaacag cctgccccga gagacgaacc acaaaagccc ccaagaccac 181 caactcccga gttggtcaag aggatacccc ctcctccacc taatggcgaa gaagaagaag 241 aaccagtcat taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag 301 tcccccaacc ggacgtggcc aacacagcat tcagtgttcc accattgagc ctgagagaaa 361 acagggaggc caaggaaccg ctaacagggg caatattaga gatgtgggat ggagagatat 421 accactatgg cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag 481 ccataagcat ggcaagagtg gaactgacgc cgctgtcatt gtactggcgt gtggtgtaca 541 ctccccaata cctcatctcc cctgaaactc tcaggaggct caacggagag gcgttccctt 601 acactgcctt tgacaacaat tgctatgctt tttgctgctg ggtgttggac ctcaatgact 661 catggcttag caggaggatg gtgcaaagaa caacgggctt cttcagacct taccaagagt 721 ggaacagaaa acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat 781 tcctatgttc attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatta 841 aaccattaaa catattgaat gtcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg 901 agtctctgat attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg 961 ctatgatcgc tcccttactc ggggactacg agttgcaagg gccagaagac ctcgccgttg 1021 aactcgtacc tgtggtaatg ggagggattg gtttggtgtt gggattcacc aaagagaaaa 1081 ttggaaaaat gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct 1141 atggcttaga gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggcca 1201 atgagctagc catggtgagg gccatagagg atgccgtact agatcttgag gcaatagaaa 1261 ataatcacat gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac 1321 tggacatgga ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc cctgacatag 1381 ttgggacaat caacgccctg ctggctcgaa tagcagcggc caggtcatta gtccataggg 1441 ccaaggaaga gctatctagc aggataagac cagtagtcgt tatgatatct ggcaaaccag 1501 gaataggcaa aacccatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag 1561 gggatcaaag agtcggactc ataccaagaa acggtgtgga ccattgggat gcatacaaag 1621 gtgagagagt cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc 1681 gcatacaaga attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata 1741 agggaaaagt ctttgacagt gaagtcataa taattacaac aaaccttgcc aacccagccc 1801 cacttgatta tgtcaacttt gaggcctgtt ccaggagaat tgacttcctg gtgtacgctg 1861 aggcaccaga agtagaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg 1921 acgccttcaa accggacttt tcacacatca agctacagct tgcacctcag ggcggctttg 1981 acaagaatgg caacacccca catgggaaag gagtgatgaa gaccctcact accggctctc 2041 tgattgcccg tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggtc 2101 ccacaatcac caccttcaat ttcgaccgga acagaatcac agcattcaga caattggctg 2161 cagaaaacaa gtatggattg gtggatacca tgaaagttgg caatcaacta aaaggagtga 2221 aaaccatgga agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccggatca 2281 tctacggtgg ctccacgtat gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa 2341 aggtcaagaa cacctctgta cagaccaaca acgagttggc cggggccctg caccatctca 2401 aacacgcccg aatcaggtac tatgtcaaat gtgcgcaaga agcagtctat tccattatac 2461 aaattgccgg cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac 2521 tctggtcgaa gccacaatta gatcaaaatg agtcagagac taaggaagag gcccccaagt 2581 cagaagatga cgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca 2641 aaaacaagac tggccgtggc aagaaacaca ctgcattctc cagcaagggc ttgagcgatg 2701 aggagtatga cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg 2761 agtatcttca agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag 2821 aagacttctg tgaagaggag gagatcaaaa tccgtcagag aatttttcgt cccaccagga 2881 aacaaagaaa ggaagagagg gccacattag ggctagtaac aggttcagaa atcagaaaaa 2941 gaaaccctga tgacttcaaa cccaaaggga agctgtgggc cgatgacaac agaagtgttg 3001 actacaatga gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct 3061 ttggttctgg ctggggcttc tgggtatcac caagcctgtt cattacatca actcatgtaa 3121 tccccgcagg cataacagaa gcatttgggg tccccatcaa acaaattcag atccacaaat 3181 caggtgaatt ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga 3241 tcttggaaga aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa cgccccaccg 3301 gagagctcat gcctcttgca gccagaatgg gaacacatgc aaccatgaaa attcaaggcc 3361 gcatggttgg cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggatt 3421 tgggaacaac tcctggtgac tgtggctgtc cttacatcta taaaaggggc aatgactata 3481 tagtcattgg ggtgcacact gcagcagccc gtggtgggaa caccgtcatc tgtgccacac 3541 agggaagtga gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg 3601 cacccattct aggccctggg ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt 3661 catcgaacac gccccttcca ccagggacat atgagcctgc ctacctcggt ggccgcgatc 3721 cgcgtgttaa gggtgggccc tccttgcagc aggtaatgag agaccagttg aagccattca 3781 ctgaacccag gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatta 3841 tcaatgtcct cgaacaaacc ctggaccctc cacaaaaatg gacatacgca caggcgtgtg 3901 cctcacttga caaaaccacc tccagcgggc atccccatca cgtccgaaag aatgaattct 3961 ggaatggtga gaccttcact ggtaaattgg cagaccaagc atcaaaagca aacctaatgt 4021 ttgaggaagg gaaacacatg acaccagtgt atacagcagc actcaaggac gagctagtca 4081 agactgagaa aatctatgga aagatcaaga agagactgct ctggggctct gacttgtcca 4141 ccatgatccg gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgca 4201 tatcactccc agtacgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaaa 4261 aacattccag atacaaatac cactatgatg cagactactc tcgttgggat tcaacacaac 4321 agagggcagt actagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat 4381 tgacacaaat agtcgctgag gatctgctgg cccctagtgt agtagatgta ggagacttta 4441 aaatcacaat aaatgaaggg ctcccatctg gtgtgccatg cacttctcaa tggaactcca 4501 tcgcacactg gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca 4561 ttatacaagc aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca 4621 taaaattgga ccctgaacag ttaaccgcca aattgaagga gtacggcctg aaaccaaccc 4681 gcccagacaa gaccgaggga cccctgatca tcagtgaaga tttgaacgga ctcactttcc 4741 tccgaaggac ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagctcaa 4801 ttttgaggca gatgtactgg actagaggac caaatcatga agaccccaat gagacaatga 4861 taccccattc tcaaagacct atacagctca tggcactgct tggtgaagcc tctcttcacg 4921 gaccctcttt ctatagtaaa atcagtaaat tggtcataac tgaactcaaa gaaggtggga 4981 tggactttta cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga 5041 gcacgtggga gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgagt 5101 gacgccaacc catctgatgg gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt 5161 atggctttgg agcccgttgt tggtgccgct attgcggcac ctgtagcggg ccaacaaaat 5221 gtaattgacc cctggattag aaataatttt gtacaagccc ctggtgggga gtttacagta 5281 tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccctaggccc tgacctaaat 5341 ccctacctat cccatttggc cagaatgtac aatggttatg caggtggttt tgaagtgcag 5401 gtaattctcg cggggaacgc gttcaccgcc gggaagatca tatttgcagc agtcccacca 5461 aattttccaa ctgaaggctt aagtcctagc caggtcacta tgttccccca tataatagta 5521 gatgttagac aattagaacc tgtgctgatt cccttacccg atgtcaggaa taatttctat 5581 cattataatc agtcaaatga ttccactatt aagttgatag caatgttgta tacaccactt 5641 agggctaata atgctgggga tgatgttttc acagtttcgt gccgagttct cacgaggcca 5701 tcccccgatt ttgatttcat atttttagtg ccacccacag ttgagtcaag aactaaacca 5761 ttctctgtcc cagttttaac tgttgaggag atgaccaatt caagattccc cattcctttg 5821 gaaaagttgt tcacgggccc cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc 5881 acaactgatg gcgtgctcct aggcaccacc caactgtctc ctgtcaacat ctgcaccttc 5941 agaggggatg tcacccacat cacaggtagt cgcaactaca caatgaattt ggcttctcaa 6001 aattggaaca actatgaccc aacagaagaa atcccagccc ctctaggaac tccagatttt 6061 gtggggaaga ttcaaggcat gctcacccaa accacaagga cagatggttc aacacgcggc 6121 cacaaagcta cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa 6181 tttgaaactg acacagacca tgattttgaa gctaatcaaa acacaaagtt caccccagtc 6241 ggtgtcatcc aagatggtag caccacccac cgaaacgaac cccaacagtg ggtgctccca 6301 agttactcag gcagaaatac tcacaatgta catctggccc ccgctgtagc ccccaccttc 6361 ccgggtgagc aacttctctt cttcagatcc accatgcccg gatgcagcgg gtaccccaac 6421 atggatttgg actgtctgct cccccaggaa tgggtacagt acttctacca agaggcagcc 6481 ccagcacaat ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg 6541 tttgagtgca agcttcacaa atcaggctat gttacagtgg ctcacactgg ccaacatgat 6601 ttggttatcc cccccaatgg ttactttagg tttgactcct gggtcaacca gttctacacg 6661 cttgccccta tgggaaatgg aacggggcgt agacgtgtag tataatggct ggagctttct 6721 ttgctggatt ggcatctgat gtccttggct ctggacttgg ttcccttatc aatgctgggg 6781 ctggggccat caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct 6841 tccaatttag cagcaatctg caacaggctt cctttcaaca tgataaagag atgctccaag 6901 cacaaattga ggccaccaaa aagctacaac aggaaatgat gaaagttaag caggcaatgc 6961 tcctagaggg tgggttctct gagacagatg cagcccgcgg ggcaattaac gcccccatga 7021 caaaagcttt ggactggagc gggacaaggt actgggctcc cgatgctagg actacaacat 7081 acaatgcagg ccgcttttcc acccctcaac catcgggggc actgccagga agagctaatc 7141 ttagggatgc tgtccctgct cggggaccct ccaacaaatc ttctaactct tctactgcca 7201 cctctgtgta ttcaaatcaa actgtttcaa cgagacttgg ttctacagct ggttctggaa 7261 ccagtgtctc gagcctcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta 7321 ggaatttgtc acctttcatg aggggggccc acaacatatc atttgtcacc ccaccatcta 7381 gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agagattttg gactcctgga 7441 ctggcgcttt taacacgcgc aggcagcctc tcttcgctca cattcgtaag cgaggggagt 7501 cacgggtgta atgtgaaaag acaaaactga ttatctttct ttttttttct gtagtgt //