Typing tool
|
Complete norovirus genomes
MK756038 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5092 ORF2: 5073..6695 ORF3: 6695..7501LOCUS MK756038 7501 bp RNA linear VRL 11-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/Alameda0791 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MK756038 VERSION MK756038.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7501) 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characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7501) AUTHORS Barclay,L., Cannon,J.L., Johnston,S.H., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission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..7501 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Alameda0791" /isolate="Hu/US/2016/GII.P16-GII.4 Sydney/Alameda0791" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="01-Jun-2016" /note="genotype: GII.P16-GII.4 Sydney" gene <1..5092 /gene="ORF1" CDS <1..5092 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="QBW96068.1" /translation="ASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQP APRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQSDV VNTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM AKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW LSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI KPLNILNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGEYELQGPEDL AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA KRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTME ELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKH ARIRYYVKCVQEAIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPK SEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS EIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLF ITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC PYIYKRGNDYIVIGVHTAAARGGNTIICATQGSEGEATLEGGDDKGTYCGAPILGPGG APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGE TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTM IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQ QRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQW NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG LKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE DPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMF RWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide <1..988 /gene="ORF1" /product="p48" mat_peptide 989..2086 /gene="ORF1" /product="NTPase" mat_peptide 2087..2617 /gene="ORF1" /product="p22" mat_peptide 2618..3016 /gene="ORF1" /product="VPg" mat_peptide 3017..3559 /gene="ORF1" /product="Pro" mat_peptide 3560..5089 /gene="ORF1" /product="RdRp" gene 5073..6695 /gene="ORF2" CDS 5073..6695 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBW96069.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6695..7501 /gene="ORF3" CDS 6695..7501 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBW96070.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAAPARGPSNKSS NSSTVTSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILNSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aggaaaaatc 61 ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag 121 gcccaaacag cccgccccga gagacgaacc acaaaagccc ccaagaccac caactcccga 181 gttggtcaag aggatacccc ctcctccacc taatggcgaa gaagaagaag aaccagtcat 241 taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag tcccccaatc 301 ggacgtggtc aacacagcat tcagtgttcc accactgagc ttgagagaaa acagggaggc 361 caaggaaccg ctaacagggg caatattaga gatgtgggac ggagagatat accactatgg 421 cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat 481 ggcaaaagtg gagctgacgc cgctgtcatt gtactggcgt gtggtgtaca ctccccaata 541 cctcatctcc cctgaaactc tcaggaggct caacggagag gcgttccctt acaccgcctt 601 cgacaacaac tgctatgcct tttgctgctg ggtgttagac ctcaatgact catggcttag 661 caggaggatg gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa 721 acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat tcctgtgttc 781 attgtccacg ttattcacca gacccataaa agacctcata ggaaaaatta aaccattaaa 841 catattgaac atcctggcaa cgtgtgactg gacgtttgcc gggatagtgg aatctatgat 901 attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc 961 tcccttactc ggggaatacg agttgcaggg gccagaagac ctcgccgttg aactcgtacc 1021 tgtggtaatg ggagggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat 1081 gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct atggcttaga 1141 gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggcca atgagctagc 1201 catggtgagg gccatagagg atgccgtact agatcttgag gcaatagaaa ataaccacat 1261 gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga 1321 ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc cctgacatag ttgggacaat 1381 caacgccctg ctggctcgaa tagcagcggc caggtcatta gtccacaggg ccaaggaaga 1441 gctatctagc aggataagac cagtagttgt tatgatatct ggcaaaccag gaataggcaa 1501 aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag gggatcaaag 1561 agtcggactc ataccaagaa acggtgtgga ccattgggat gcatacaaag gtgagagagt 1621 cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc gcatacaaga 1681 attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt 1741 ttttgacagt gaagtcataa taattacaac aaaccttgcc aatccagccc cacttgatta 1801 tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg aggcaccaga 1861 agtagaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg acgccttcaa 1921 gtcggacttt tcacacatca agctacagct tgcacctcag ggcggctttg acaagaatgg 1981 caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc tgattgcccg 2041 tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggtc ccacaatcac 2101 caccttcaat ttcgaccgga acagaatcac agcattcaga caattggctg cagaaaacaa 2161 gtacggattg gtggatacca tgaaagttgg caatcaacta aaaggagtga aaaccatgga 2221 agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccggatca tctacggtgg 2281 ctccacgtac gacctcgaat ctgatggcaa gggcaaagtt ttggtggaaa aggtcaagaa 2341 cacctctgta cagaccaaca acgagttggc cggggccctg caccatctca aacacgcccg 2401 aatcaggtac tatgtcaaat gtgtgcaaga agcaatctac tccatcatac aaattgccgg 2461 cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa 2521 gccacaatta gatcaaaatg aatcagagac taaggaagag gcccccaagt cagaagacga 2581 tgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca aaaacaaaac 2641 tggccgtggc aagaaacaca ctgcattctc cagcaagggt ttgagcgatg aggagtatga 2701 cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg agtatcttca 2761 agatagagac aggtactatg aggagctcgc cattgccaag gccacagaag aagacttctg 2821 tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga aacaaagaaa 2881 ggaagagagg gccacattag ggctagtaac aggttcagaa atcagaaaaa gaaaccctga 2941 tgacttcaaa cccaaaggga agctgtgggc cgatgacaac agaagtgttg actacaatga 3001 gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct ttggttctgg 3061 ctggggcttc tgggtatcac caagcctgtt cataacatca actcatgtaa tccccgcagg 3121 cataacagaa gcgtttggag tccccatcaa acaaattcag atccacaaat caggtgaatt 3181 ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga 3241 aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa cgccctaccg gagagctcat 3301 gcctcttgca gccaggatgg gaacacacgc aaccatgaaa attcaaggcc gcatggttgg 3361 cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggatt tgggaacaac 3421 tcctggtgac tgtggctgtc cttacatcta taaaaggggc aatgactaca tagtcattgg 3481 ggtgcacact gcagcagccc gtggtggaaa caccatcatc tgtgctacac agggaagtga 3541 gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg cacccattct 3601 aggccctggg ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac 3661 gccccttcca ccagggacat atgagcctgc ctacctcggt ggccgtgatc cgcgtgttaa 3721 gggtgggccc tccttgcagc aggtaatgag agaccagttg aagccattca ctgaacccag 3781 gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatta tcaatgtcct 3841 cgaacaaacc ctggaccctc cacaaaagtg gacatacgca caggcgtgtg cctcacttga 3901 caaaaccacc tccagcgggc atccccatca cgtccgaaag aatgaattct ggaatggtga 3961 gaccttcact ggtaaattgg cagaccaagc atcaaaagca aacctaatgt ttgaggaagg 4021 gaaacacatg acaccagtgt atacagcagc actcaaggat gagctagtca agactgagaa 4081 aatctatgga aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg 4141 gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgca tatcactccc 4201 agtacgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag 4261 atataaatac cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt 4321 actagcagca gctttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaat 4381 agtcgctgag gatctgctgg cccctagtgt agtagatgta ggagacttta aaatcacaat 4441 aaatgaaggg ctcccatctg gtgtgccatg cacttctcaa tggaactcca tcgcacactg 4501 gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca ttatacaagc 4561 aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca taaaattgga 4621 ccctgaacag ttaaccgcca agttgaagga gtacggcctg aaaccaaccc gcccagacaa 4681 gaccgaggga cccctgatca tcagtgaaga tttgaacgga ctcactttcc tccgaaggac 4741 ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagctcaa ttttgaggca 4801 gatgtactgg actagaggac caaatcatga agaccccaat gagacaatga taccccattc 4861 tcaaagaccc atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt 4921 ctacagtaaa atcagtaaat tggtcataac tgaactcaaa gagggtggga tggactttta 4981 cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga 5041 gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgagt gacgccaacc 5101 catctgatgg gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctttgg 5161 agcccgttgt tggtgccgct attgcggcac ctgtagcggg ccaacaaaat gtaattgacc 5221 cctggattag aaataatttt gtacaagccc ctggtgggga gtttacagta tcccctagaa 5281 acgctccagg tgaaatacta tggagcgcgc ccctaggccc tgacctaaat ccctacctat 5341 cccatttggc cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaattctcg 5401 cggggaacgc gttcaccgcc gggaagatca tatttgcagc agtcccacca aattttccaa 5461 ctgaaggctt aagtcctagc caagtcacta tgttccccca tataatagta gatgttagac 5521 aattagaacc tgtgctgatt cccttacccg atgttaggaa taatttctat cattataatc 5581 agtcaaatga ctccactatt aagttgatag caatgttgta tacaccactt agggctaata 5641 atgctgggga tgatgttttc acagtttcgt gccgagttct cacgagacca tcccccgatt 5701 ttgatttcat atttttagtg ccacccacag ttgagtcaag aactaaacca ttctctgtcc 5761 cagttttaac tgttgaggag atgaccaatt caagattccc cattcctttg gaaaagttgt 5821 tcacgggccc cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc acaactgatg 5881 gcgtgctcct aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggggatg 5941 tcacccacat cacaggtagt cgcaactaca caatgaattt ggcttctcaa aattggaaca 6001 attatgaccc aacagaagaa atcccagccc ctctaggaac tccagatttt gtggggaaga 6061 ttcaaggcat gctcacccaa accacaagga cagatggttc aacacgcggc cacaaagcta 6121 cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg 6181 acacagacca tgattttgaa gctaatcaaa acacaaagtt caccccagtc ggtgtcatcc 6241 aagatggtag caccacccac cgaaacgaac cccaacagtg ggtgctccca agttactcag 6301 gcagaaatac tcacaatgta catctggccc ccgctgtagc ccccaccttt ccgggtgagc 6361 aacttctttt cttcagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg 6421 actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat 6481 ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgca 6541 agcttcacaa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc 6601 ctcccaatgg ttactttagg tttgattcct gggtcaacca gttctacacg cttgccccca 6661 tgggaaatgg aacggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt 6721 ggcatctgat gtccttggct ctggacttgg ttccctcatc aatgctgggg ctggggccat 6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag 6841 cagcaatctg caacaggctt cctttcaaca tgataaagag atgctccaag cacaaattga 6901 ggccaccaaa aagctacaac aggaaatgat gaaagttaag caggcagtgc tcctagaggg 6961 tgggttctct gagacagatg cagcccgcgg ggcaattaac gcccccatga caaaagcttt 7021 ggattggagc gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg 7081 ccgcttttcc acccctcaac catcgggggc actgccaggg agagctaatc ttagggatgc 7141 tgcccctgct cggggaccct ccaacaaatc ttctaactct tctactgtca cctctgtgta 7201 ctcaaatcaa actatttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtctc 7261 gagcctcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc 7321 acctttcatg aggggggccc acaacatatc atttgtcacc ccaccatcta gcagatcctc 7381 tagccaaggc acagtctcaa ccgtgcctaa agagattttg aactcctgga ctggcgcttt 7441 caacacgcgc aggcagcctc tcttcgctca cattcgtaag cgaggggagt cacgggtgta 7501 a //