Typing tool
|
Complete norovirus genomes
MG746033 | GII.2 | ||
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GII.P16 |
ORF1: 5..5104 ORF2: 5085..6713 ORF3: 6713..7492LOCUS MG746033 7536 bp ss-RNA linear VRL 06-APR-2018 DEFINITION Norovirus GII isolate SZ123, complete genome. ACCESSION MG746033 VERSION MG746033.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7536) AUTHORS Ao,Y., Cong,X., Jin,M., Sun,X., Wei,X., Wang,J., Zhang,Q., Song,J., Yu,J., Cui,J., Qi,J., Tan,M. and Duan,Z. TITLE Genetic Analysis of Re-Emerging GII.P16-GII.2 Noroviruses in 2016-2017 in China JOURNAL J. Infect. Dis. (2018) In press PUBMED 29617875 REMARK Publication Status: Available-Online prior to print REFERENCE 2 (bases 1 to 7536) AUTHORS Ao,Y. TITLE Direct Submission JOURNAL Submitted (26-DEC-2017) Department of Viral Diarrhea, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, 155 Changbai Road, Chang-ping District, Beijing 102206, China COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7536 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="SZ123" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="China" /collection_date="09-Oct-2016" /collected_by="Yuanyun Ao" /note="genotype: GII.P16-GII.2" 5'UTR 1..4 CDS 5..5104 /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AUY62182.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLHLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMAPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 5..1000 /product="p48" mat_peptide 1001..2098 /product="NTPase" mat_peptide 2099..2629 /product="p22" mat_peptide 2630..3028 /product="VPg" mat_peptide 3029..3571 /product="Pro" mat_peptide 3572..5101 /product="RdRp" CDS 5085..6713 /note="ORF2; major capsid protein" /codon_start=1 /product="VP1" /protein_id="AUY62183.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" CDS 6713..7492 /note="ORF3; minor structural protein; minor capsid protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="AUY62184.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMDIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESRA" 3'UTR 7493..7536 ORIGIN 1 gttaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga 61 caaagaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc 121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaagc ccccaagacc 181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga 241 agaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac 301 agtcccccaa ccggacgtgg ccaacacagc atttagtgtt ccaccactga gcttgagaga 361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat 421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccataagc atggcaagag tggagctgac gccgctgtca ttgtactggc gtgtggtgta 541 cactccccaa tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcattccc 601 ttacaccgcc tttgacaaca actgctatgc cttttgctgc tgggtgttag accttaatga 661 ctcatggctt agcaggagga tggtacaaag aacaacgggc ttcttcagac cttaccaaga 721 gtggaacaga aaacccctgc ctaccatgga tgactccaaa attaagaagg tagcaaatat 781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat 841 taaaccatta aacatattga atatcctggc aacgtgtgac tggacttttg ccggaatagt 901 ggagtctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc 961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt 1021 tgaactcgta cctgtggtga tgggggggat tggtttggtg ttgggattca ccaaagagaa 1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc 1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc 1201 caatgagcta gccatggtga gggccataga ggatgctgta ctagatcttg aggcaataga 1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac 1321 attggacatg gaggaggaga aagccaggag gttgtccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcgt tagtccacag 1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc 1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac 1561 aggggatcaa agagtcggac tcataccacg aaacggtgtg gaccattggg atgcatacaa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct 1681 tcgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa 1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaatccagc 1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtatacgc 1861 tgaggcacca gaagtagaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa 1921 ggacgccttc aagccggact tttcacacat caagctacat cttgcacccc agggcggctt 1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc 2041 tctgatagcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg 2101 tcccacaacc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc 2161 tgcagaaaac aagtatggat tggtggatac catgaaagtt ggcaatcaat taaaaggagt 2221 gaaaaccatg gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgccagat 2281 catctacggt ggttccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga 2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gctggggccc tgcaccatct 2401 caaacatgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat 2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga 2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcccccaa 2581 gtcagaagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg 2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga 2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actctataga 2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga 2821 agaagacttc tgtgaagagg aagagatcaa aatccgtcag agaattttcc gtcccaccag 2881 gaaacaaaga aaggaagaga gggccacatt agggctagta acaggttcag aaatcagaaa 2941 aagaaaccct gatgacttca aacccaaagg gaagctgtgg gccgatgaca acaggagtgt 3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag 3061 ctttggttct ggctggggct tctgggtgtc accaagcctt ttcataacat caactcatgt 3121 aatccccgca ggcataacag aggcatttgg agtccccatc aaacaaattc agatccacaa 3181 atcaggtgag ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat 3241 gattttggaa gaaggtgcgc ctgagggcac cgtggcaact gtgctcatca aacgccccac 3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg 3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga 3421 tttgggaaca acccctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta 3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac 3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg 3601 ggcacccatt ctaggccctg gaggtgcacc aaaattgagc accaaaacca aattttggag 3661 atcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga 3721 tccgcgtgtt aagggtgggc cttccctgca gcaggtaatg agagaccagt tgaagccatt 3781 cactgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat 3841 catcaatgtc ctcgaacaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg gcatccccat cacgtccgaa agaatgaatt 3961 ctggaatggt gagaccttca ctggtaaact ggcagaccaa gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacaca tggcaccagt gtacacagca gcactcaagg acgagctagt 4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc 4141 caccatgatc cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg 4201 catatcactc ccagtccgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga 4261 gaaacattcc agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca 4321 acagagggca gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca 4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt 4441 taaaattaca ataaatgaag ggctcccttc tggtgtgcca tgcacttctc aatggaactc 4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga 4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga 4621 cataaaattg gaccctgaac aattaaccgc caaattgaag gagtacggcc tgaaaccaac 4681 ccgcccagac aaaaccgagg gacccctgat tatcagtgaa gatttgaacg gtctcacttt 4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc 4801 aattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat 4861 gataccccat tctcaaagac ccatacagct catggcactg ctcggtgaag cctctctcca 4921 cggaccctct ttctacagta aaatcagtaa attggtcata actgaactca aagaaggtgg 4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aacaatgagg 5161 tcatggctct tgaacccgtg gctggtgccg ccttggcagc cccggtcacc ggtcaaacaa 5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag 5281 tctctccccg aaatgcccct ggtgaagtgc tattgaatct agagttgggt ccagaattaa 5341 atccttatct ggcacattta gcaagaatgt acaatgggta tgccggtggg atggaggtgc 5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gccgtgcctc 5461 ctcacttccc ggttgaaaac cttagcccac agcaaatcac catgttccct catgtgatca 5521 tagatgtgag aaccttggaa cctgttttat taccactccc tgatgttagg aataatttct 5581 tccattataa tcaaaaagat gatcccaaga tgaggattgt ggctatgctt tatacccccc 5641 tcaggtctaa tggttcaggt gatgatgtgt ttacagtctc ctgtagagtg ttgactagac 5701 cttcccctga ctttgacttc acatacctgg tgccaccaac agtggagtct aaaacaaagc 5761 cattcaccct cccaatcctc acacttgggg aactatccaa ttctaggttc ccagtgtcca 5821 tagaccagat gtataccagc cctaatgaag ttatatcagt gcagtgtcaa aatggtaggt 5881 gcacactgga cggggagctc caagggacaa cacaactcca agtcagtggc atttgtgctt 5941 tcaaaggtga agtgaccgcc cacttgcatg acaatgatca cctatataat gttaccatca 6001 caaacttgaa tgggtcccct tttgatccct ccgaggacat ccctgcccct ctgggtgtgc 6061 ctgacttcca gggaagggtt tttggtatca tctcccaaag agacaaacac aatagtcctg 6121 ggcataatga accagcaaac aggggacacg acgctgtggt ccctacttac acagcacagt 6181 acactccaaa actgggacaa attcaaattg gcacatggca gactgacgac cttacagtca 6241 accaaccagt caaattcacc ccagttggac tcaatgacac tgaacatttt aatcaatggg 6301 tggtccctag gtatgctggt gccctaaacc tcaatacaaa ccttgcccct tctgttgctc 6361 cagtatttcc aggagagcgc ctgctcttct tcagatcata cattcccctc aagggcggtt 6421 atggaaaccc agccattgat tgcctactac cacaagagtg ggtgcaacac ttctaccagg 6481 aagcagcccc ttcaatgagt gaggtggccc tcgtcagata catcaacccg gacactggtc 6541 gggcactgtt tgaggccaag ctccacagag ctggtttcat gacagtctcg agcaacacca 6601 gtgccccggt ggttgtgcct gccaacggat acttcagatt tgattcttgg gtgaaccaat 6661 tctattctct cgcccccatg ggaactggga atgggcgtag aagggttcaa taatggctgg 6721 agcttttgta gctggtcttg caggggacgt gctcagcaat gggcttagtt cattaatcaa 6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattgcagca 6841 gaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct 6901 gcaggcagac atgatggata taaaacaagg ggtcttgacc gctggcggct tttcccctgc 6961 tgatgcagcc agaggtgctg tgaacgcgcc catgacacag gcgctggatt ggaatggcac 7021 aaggtattgg gcaccaaact ccatgaggac cacatcttat tctggaaaat tcacatcaac 7081 cgccccagtg aggcaggctg acttccagca cacccaaaac cggccttcga gtggctcctc 7141 tgtgtcttcc ttcgccactc agtcttcaag gccaactctg accacaacca ctggttcctc 7201 acatggcaca gcctcatcaa attcaactcg cagcacaagc ctctcccaat caacggtctc 7261 cagagctaca tctaggactg gtgagtgggt tagagatcaa aatagaaatt tggaacccta 7321 catgcatggt gccttacaga cagcctttgt caccccacct tccagcaggg catctgacgg 7381 gacagtctca accgtcccga aaggtgtttt ggactcctgg acacctgcgt ttaacacccg 7441 caggcagccg ctttttgcac acctccgtaa gaggggggag tcacgagctt agtgaaaagg 7501 tgaaaattta tttaggatga attgatttta cctttt //