Typing tool
|
Complete norovirus genomes
MK773583 | GII.2 | ||
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GII.P16 |
ORF1: 3..5102 ORF2: 5083..6711 ORF3: 6711..7480LOCUS MK773583 7480 bp RNA linear VRL 14-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.2/Mecklenburg0363 nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MK773583 VERSION MK773583.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7480) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7480) AUTHORS Barclay,L., Cannon,J.L., Rath,S., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (09-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..7480 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Mecklenburg0363" /isolate="Hu/US/2016/GII.P16-GII.2/Mecklenburg0363" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="01-Dec-2016" /note="genotype: GII.P16-GII.2" gene 3..5102 /gene="ORF1" CDS 3..5102 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBY34786.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRNKPQEPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPDTLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKTHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTVKLK 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..6711 /gene="ORF2" CDS 5083..6711 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBY34787.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6711..>7480 /gene="ORF3" CDS 6711..>7480 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBY34788.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGES" ORIGIN 1 gaatgaagat ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca 61 aagaaaaatc ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc 121 tcggggctag gcccaaacag cctgccccga gaaacaaacc acaagagccc ccaagaccac 181 caactcccga gttggtcaag aggatacccc ctcctccacc taatggcgaa gaagaagaag 241 aaccagtcat taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag 301 tcccccaacc ggacgtggcc aacacagcat ttagtgttcc accactgagc ttgagagaaa 361 acagggaggc caaggaaccg ctaacggggg caatattaga gatgtgggat ggagagatat 421 accactatgg cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag 481 ccataagcat ggcaagagtg gagctgacgc cgctgtcatt gtactggcgt gtggtgtaca 541 ctccccaata cctcatctcc cctgatactc tcaggaggct caacggagag gcattccctt 601 acaccgcctt tgacaacaac tgctacgcct tttgctgctg ggtgttagac cttaatgact 661 catggcttag caggaggatg gtacaaagaa caacgggctt cttcagacct taccaagagt 721 ggaacagaaa acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat 781 tcctatgttc attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatta 841 aaccactaaa catattgaat atcctggcaa cgtgtgactg gacttttgcc ggaatagtgg 901 agtctctgat attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg 961 ctatgatcgc tcccttactc ggggactacg agttgcaagg gccagaagac ctcgccgttg 1021 aactcgtacc tgtggtgatg ggggggattg gtttggtgtt gggattcacc aaagagaaaa 1081 ttggcaaaat gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct 1141 atggcttaga gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggcca 1201 atgagctagc catggtgagg gccatagagg atgctgtact agatcttgag gcaatagaaa 1261 ataaccacat gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacat 1321 tggacatgga ggaggagaag gccaggaggt tgtccacaaa atctgcatcc cctgacatag 1381 ttgggacaat caacgccctg ctggctcgaa tagcagcggc caggtcgtta gtccacaggg 1441 ccaaggaaga gctatctagc aggataagac cagtagttgt tatgatatct ggcaaaccag 1501 gaataggtaa aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag 1561 gggatcaaag agtcggactc ataccacgaa acggtgtgga ccattgggat gcatacaaag 1621 gtgagagagt cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc 1681 gcatacaaga attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata 1741 agggaaaagt ttttgacagt gaagtcataa taattacaac aaaccttgcc aatccagccc 1801 cacttgatta tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtatacgctg 1861 aggcaccaga tgtagaaaag gcaaaacggg actttcctgg tcagccagac atgtggaagg 1921 acgccttcaa gccggacttt tcacacatca agctacagct tgcaccccag ggcggctttg 1981 acaagaatgg caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc 2041 tgattgcccg tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggtc 2101 ccacaaccac caccttcaat ttcgaccgga acagaatcac agcattcaga caattggctg 2161 cagaaaacaa gtatggattg gtggatacca tgaaagttgg caatcaatta aaaggagtga 2221 aaaccatgga agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccagatca 2281 tctacggtgg ttccacgtat gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa 2341 aggtcaagaa cacctctgta cagaccaaca acgagttggc tggggccctg caccatctca 2401 aacatgcccg aatcagatac tatgtcaaat gtgtgcaaga agcagtctat tccatcatac 2461 aaattgccgg cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac 2521 tctggtcgaa gccacaatta gatcaaaatg aatcagagac taaggaagag gcccccaagt 2581 cagaagatga cgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca 2641 aaaacaaaac tggccgtggc aagaaacaca ctgcattctc cagcaagggc ttgagcgatg 2701 aggagtatga cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg 2761 agtatcttca agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag 2821 aagacttctg tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga 2881 aacaaagaaa ggaagagagg gccacattag ggctagtaac aggttcagaa atcagaaaaa 2941 gaaaccctga tgacttcaaa cccaaaggga agctgtgggc cgatgacaac aggagtgttg 3001 actacaatga gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct 3061 ttggttctgg ctggggcttc tgggtgtcac caagcctttt cataacatca actcatgtaa 3121 tccccgcagg cataacagag gcatttggag tccccatcaa acaaattcag atccacaaat 3181 caggtgaatt ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga 3241 ttttggaaga aggtgcgcct gagggcaccg tggcaactgt gctcatcaaa cgccccaccg 3301 gagagctcat gcctcttgca gccagaatgg gaacacacgc aaccatgaaa attcaaggcc 3361 gcatggttgg cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggatt 3421 tgggaacaac ccctggtgac tgtggctgtc cttacatcta taaaaggggc aatgactata 3481 tagtcattgg ggtgcacact gcagcagccc gtggtggaaa caccgtcatc tgtgccacac 3541 agggaagtga gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg 3601 cacccattct aggccctgga ggtgcaccaa aattgagcac caaaaccaaa ttttggagat 3661 catcgaacac gccccttcca ccagggacat atgagcctgc ctacctcggt ggccgtgatc 3721 cgcgtgttaa gggtgggcct tccctgcagc aggtaatgag agaccagttg aagccattca 3781 ctgaacccag gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatca 3841 tcaatgtcct cgagcaaacc ctggaccctc cacaaaaatg gacatacgca caggcgtgtg 3901 cctcacttga caaaaccacc tccagcgggc atccccatca cgtccgaaag aatgaattct 3961 ggaatggtga gaccttcact ggtaaactgg cagaccaagc atcaaaagca aacctaatgt 4021 ttgaggaagg gaaacacatg acaccagtgt acacagcagc actcaaggac gagctagtca 4081 agactgagaa aatctatgga aagatcaaga agagactgct ctggggctct gacttgtcca 4141 ccatgatccg gtgcgctagg tcatttggtg ggctcatgga cgagatgaag acacactgca 4201 tatcactccc agtccgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga 4261 aacattccag atacaaatat cactatgatg cagactactc tcgttgggat tcaacacaac 4321 agagggcagt actagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat 4381 tggcacaaat agtcgctgag gatctgctgg cccctagtgt agtagatgta ggagacttta 4441 aaattacaat aaatgaaggg ctcccttctg gtgtgccatg cacttctcaa tggaactcca 4501 tcgcacactg gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca 4561 ttatacaggc aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca 4621 taaaattgga ccctgaacaa ttaaccgtca aattgaagga gtacggcctg aaaccaaccc 4681 gcccagacaa aaccgaggga cccctgatta tcagtgaaga tttgaacggt ctcactttcc 4741 tccgaaggac ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagctcaa 4801 ttttgaggca gatgtactgg actagaggac caaatcatga agaccccaat gagacaatga 4861 taccccattc tcaaagaccc atacagctca tggcactgct tggtgaagcc tctcttcacg 4921 gaccctcttt ctacagtaaa atcagtaaat tggtcataac tgaactcaaa gaaggtggga 4981 tggactttta cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga 5041 gcacgtggga gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgaat 5101 gacgccgctc catctactga tggtgcagcc ggcctcgtgc cagaaagtaa caatgaggtc 5161 atggctcttg aacccgtggc tggtgccgcc ttggcagccc cggtcaccgg tcaaacaaat 5221 attatagacc cttggattag agcaaatttt gtccaggccc ccaatggtga atttacagtc 5281 tctccccgaa atgcccctgg tgaagtgcta ttgaatctag agttgggtcc agaattaaat 5341 ccttatctgg cacatttagc aagaatgtac aatgggtatg ccggtgggat ggaggtgcag 5401 gtcatgttgg ctgggaacgc gttcacagcc ggcaagttgg tcttcgccgc cgtgcctcct 5461 cacttcccgg ttgaaaacct tagcccacag caaatcacca tgttccctca tgtgatcata 5521 gatgtgagaa ccttggaacc tgttttatta ccactccctg atgttaggaa taatttcttc 5581 cattataatc agaaagatga tcccaagatg aggattgtgg ctatgcttta tacccccctc 5641 aggtctaatg gttcaggtga tgacgtgttt acagtctcct gtagagtgtt gactagacct 5701 tcccctgact ttgacttcac atacctggtg ccaccaacag tggagtctaa aacaaagcca 5761 ttcaccctcc caatcctcac acttggggaa ctatccaatt ctaggttccc agtgtccata 5821 gaccagatgt acaccagccc taatgaagtt atatcagtgc agtgtcaaaa tggcaggtgc 5881 acactggacg gggagctcca agggacaaca caactccaag tcagtggcat ttgtgctttc 5941 aaaggtgaag tgaccgccca cttgcatgac aatgatcacc tatataatgt taccatcaca 6001 aacttgaatg ggtccccttt tgatccctcc gaggacatcc ctgcccctct gggtgtgcct 6061 gacttccagg gaagggtttt tggtatcatc tcccaaagag acaaacacaa tagtcctggg 6121 cataatgaac cagcaaacag gggacacgac gctgtggtcc ctacttacac agcacagtac 6181 actccaaaac tgggacaaat tcaaattggc acatggcaga ctgacgacct tacagtcaac 6241 caaccagtca aattcacccc agttggactc aatgacactg aacattttaa tcaatgggtg 6301 gtccctaggt atgctggtgc cctaaacctc aatacaaatc ttgccccttc tgttgctcca 6361 gtatttccag gagagcgcct gctcttcttc agatcataca ttcccctcaa gggcggttat 6421 ggaaacccag ccattgattg cctactacca caagagtggg tgcaacactt ctatcaggaa 6481 gcagcccctt caatgagtga ggtggccctc gtcagataca tcaacccgga cactggtcgg 6541 gcactgtttg aggccaagct ccacagagct ggtttcatga cagtctcgag caacaccagt 6601 gccccggtgg ttgtgcctgc caacggatac ttcagatttg attcttgggt gaaccaattc 6661 tattctctcg cccccatggg aactgggaat gggcgtagaa gggttcaata atggctggag 6721 cttttgtagc tggtcttgca ggggacgtgc tcagcaatgg gcttagttca ttaattaatg 6781 caggtgctaa tgcaataaat cagagggcag aatttgattt taatcaaaaa ttgcagcaaa 6841 attcttttaa tcatgataag gagatgttgc aggctcagat tcaggcaact aagcagctgc 6901 aggcagacat gatggctata aaacaagggg tcttgaccgc tggcggcttt tcccctgctg 6961 atgcagccag aggtgctgtg aacgcgccca tgacacaggc gctggattgg aatggcacaa 7021 ggtattgggc accaaactcc atgagaacca catcttattc tggaaaattc acatcaaccg 7081 ccccagtgag gcaggctgac ttccagcaca cccaaaaccg gccttcgagt ggctcctctg 7141 tgtcttcctt cgccactcag tcttcaaggc caactctgac cacaaccact ggttcctcac 7201 atggcacagc ctcatcaaat tcaactcgca gcacaagcct ctcccaatca acggtctcca 7261 gagctacatc taggactggt gagtgggtta gagatcaaaa tagaaatttg gaaccctaca 7321 tgcatggtgc cttacagaca gcctttgtca ccccaccttc cagcagggca tctgacggga 7381 cagtctcaac cgtcccgaaa ggtgttttgg actcctggac acctgcgttt aacacccgca 7441 ggcagccgct ttttgcacac ctccgtaaga ggggggagtc //