Typing tool
|
Complete norovirus genomes
MN897755 | GII.4 Sydney | ||
---|---|---|---|
GII.P16 |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS MN897755 7580 bp RNA linear VRL 09-JAN-2020 DEFINITION Norovirus GII isolate Hu/US/2018/GII.4 Sydney[P16]/Polk0185, complete genome. ACCESSION MN897755 VERSION MN897755.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7580) AUTHORS Montmayeur,A.M., Tim,D., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (03-JAN-2020) 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..7580 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Polk0185" /isolate="Hu/US/2018/GII.4 Sydney[P16]/Polk0185" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="06-Nov-2018" /note="genotype: GII.4 Sydney[P16]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QHB18524.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRGEPQKPPRPPTPELVKRIPPPPPNGGEEEEPAIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLNRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVERVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE TPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQRWSYAQACASLDKTTSSGHPHHVRKNEFW NGETFTSKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..1000 /gene="ORF1" /product="p48" mat_peptide 1001..2098 /gene="ORF1" /product="NTPase" mat_peptide 2099..2629 /gene="ORF1" /product="p22" mat_peptide 2630..3028 /gene="ORF1" /product="VPg" mat_peptide 3029..3571 /gene="ORF1" /product="Pro" mat_peptide 3572..5101 /gene="ORF1" /product="RdRp" gene 5085..6707 /gene="ORF2" CDS 5085..6707 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QHB18525.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6707..7513 /gene="ORF3" CDS 6707..7513 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QHB18526.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAVLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSRALPGRDNLRDAVPARGSSNKSS NSSAATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga 61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc 121 cctcggggca aggcccaaac agcctgcccc gagaggcgaa ccacaaaagc ccccaagacc 181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg gagaagaaga 241 agaaccagcc atcaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac 301 agtccctcaa ccagacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga 361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat 421 ataccactac ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccataagt atggcaagag tggagctgac gccgctgtca ttgtactggc gtgtggtgta 541 cactccccaa tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcattccc 601 ttacaccgcc ttcgacaaca actgctatgc cttttgctgc tgggtgttag acctcaatga 661 ctcatggctt aacaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga 721 gtggaacaga aaacccctgc ctaccatgga tgactccaaa attaagaagg tagcaaatat 781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat 841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacgtttg ctggaatagt 901 ggagtctctg atattatttg ctgaactctt cggagttttc tggacacccc cagatgtgtc 961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt 1021 tgaactcgta cctgtggtaa tgggagggat tggcctggtg ttgggattca ccaaagagaa 1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc 1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc 1201 caatgagcta gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga 1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac 1321 actggacatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgctc tgctggctcg aatagcagcg gccaggtcat tagtccacag 1441 ggccaaggaa gagttatcta gcaggataag accagtagtt gttatgatat ctggcaaacc 1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac 1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct 1681 tcgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa 1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc 1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc 1861 tgaggcacca gaagtggaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa 1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacctc agggcggttt 1981 tgataagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc 2041 tctgattgcc cgtgcatcag gcctattgca tgagaggatg gatgaatttg aactccaagg 2101 ccccacaatc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc 2161 tgcagaaaac aagtatggat tggtggacac catgaaagtt ggcaatcaac taaaaggagt 2221 gaaaaccatg gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgtcggat 2281 catttacggt ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga 2341 aagggtcaag aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct 2401 caaacacgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat 2461 acaaattgcc ggcgctgcgt ttgtcaccac ccgcattgca cgccgcatga acatacaaga 2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggagg agacccccaa 2581 gtcagaagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg 2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga 2701 cgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actctataga 2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga 2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag 2881 gaaacaaagg aaggaagaaa gggccacatt agggttagtg acaggttcag aaatcagaaa 2941 aagaaaccct gatgacttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt 3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag 3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt 3121 aatccccgcg ggcataacag aagcatttgg agtccccatc aaacagattc agatccacaa 3181 atcaggtgaa ttttgccgat ttagattccc aaaaccaatt aggccagacg tgacaggaat 3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac 3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg 3361 ccgcatggtt ggcggacaga tgggcatgtt gctcactgga tcaaatgcta aaggaatgga 3421 tttgggaaca actcctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta 3481 tatagccatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac 3541 acaaggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg 3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacta aattttggag 3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcttaccttg gtggtcgtga 3721 tccgcgtgtt aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt 3781 cactgaaccc aggggtaaac ctccaagacc aagtgtactg gaagcagcca aacaaaccat 3841 tatcaatgtc ctcgaacaaa ccctggatcc tccacaaaga tggtcatacg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg gcatccccat cacgtccgaa agaatgaatt 3961 ctggaatggt gagaccttca ctagcaaatt ggcagaccaa gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacata tgacaccagt gtatacagca gcactcaagg acgagctagt 4081 caagactgag aaaatctatg gaaagatcaa gaagagattg ctctggggct ctgacttgtc 4141 caccatgatc cggtgcgcta ggtcatttgg tgggctcatg gatgagatga aggcacactg 4201 catatcactc ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga 4261 gaaacactcc agatataaat atcactatga tgcagactac tctcgttggg attcaacaca 4321 acagagggca gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca 4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt 4441 taaaatcaca ataaatgaag ggctcccatc tggtgtacca tgcacttccc aatggaactc 4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga 4561 cattatacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga 4621 cataaaactg gaccctgaac agttaaccgc caagctgaag gagtacggcc tgaaaccaac 4681 ccgaccagac aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt 4741 cctccgaagg acggtgactc gcgacccagc tggctggttt gggaaactgg accaaagctc 4801 aattttgagg cagatgtact ggactagagg gccaaaccat gaagacccca atgagacaat 4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctctcca 4921 cggaccctct ttctacagta aaatcagtaa attggtcata actgaactca aagaaggtgg 4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg 5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag 5281 tgtcccctag aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa 5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaattct cgcggggaac gcgttcaccg ccgggaagat catatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagtccta gccaggtcac tatgttcccc catataatag 5521 tagatgttag acaattagaa cctgtgctga ttcccttacc cgatgtcagg aataatttct 5581 atcattataa tcaatcaaat gactccacta ttaagttgat agcaatgttg tatacaccac 5641 ttagggctaa taatgctggg gatgatgttt tcacagtctc gtgccgagtt ctcacgagac 5701 catcccccga ttttgatttt atatttttag tgccacccac agttgaatca agaactaaac 5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt 5821 tggaaaagtt gttcacgggc cccagcagtg cctttgttgt tcaaccgcaa aatggcagat 5881 gcacaactga tggcgtgctc ctaggcacta cccaactgtc tcctgtcaac atctgcacct 5941 tcagagggga tgtcacccac atcacaggta gtcgcaacta cacaatgaat ttggcttctc 6001 aaaattggaa taactatgac ccaacagaag aaatcccagc ccctctagga actccagatt 6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc 6181 aatttgaaac tgacacagac catgactttg aagccaacca aaacacaaag ttcaccccag 6241 tcggtgtcat tcaagatggt agcaccaccc accgaaatga accccaacag tgggtgcttc 6301 caagttactc aggcagaaat actcacaatg tacatctggc ccctgctgta gcccccacct 6361 tcccgggtga acaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca 6421 atatggattt ggactgcctg ctcccccagg aatgggtgca gtacttctat caagaggcag 6481 ccccagcaca atctgatgtg gctctgttaa gatttgtgaa tccagataca ggtagggttt 6541 tgtttgagtg caagcttcac aaatcaggct atgtcacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttacttta gatttgattc atgggtcaac cagttctaca 6661 cgcttgcccc catgggaaac ggaacggggc gtagacgtgt ggtataatgg ctggagcttt 6721 ctttgctgga ttggcatctg atgtcctcgg ctctggactt ggttccctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc 6841 cttccaattt agcagcaact tgcaacaggc ttcctttcaa catgataaag agatgcttca 6901 agcacaaatt gaggccacca aaagactaca acaggaaatg atgaaagtta agcaggcagt 6961 gctcttagag ggtggattct ctgagacaga tgcagcccgc ggggcaatta acgctcccat 7021 gacaaaagct ttggattgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atacaatgca ggccgcttct ccacccctca accatcgagg gcactgccag gaagagataa 7141 cctcagggat gctgtccctg ctcggggatc ctccaacaaa tcttctaact cttctgctgc 7201 cacctctgtg tactcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg 7261 aaccagtgtc tcaagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag 7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattattttt cttttcttta gtgtctttta 7561 aaaaaaaaaa aaaaaaaaaa //