Typing tool
|
Complete norovirus genomes
MG746026 | GII.2 | ||
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GII.P16 |
ORF1: 5..5104 ORF2: 5085..6713 ORF3: 6713..7492LOCUS MG746026 7536 bp ss-RNA linear VRL 06-APR-2018 DEFINITION Norovirus GII isolate LNLY502, complete genome. ACCESSION MG746026 VERSION MG746026.1 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="LNLY502" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="China" /collection_date="13-Jun-2017" /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="AUY62161.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPAIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMRIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGSFGKLDQSSIWRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISRLVITELKEGGMDFYVPRQE 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="AUY62162.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" CDS 6713..7492 /note="ORF3; minor structural protein; minor capsid protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="AUY62163.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" 3'UTR 7493..7536 ORIGIN 1 gttaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga 61 caaagaaaaa tcttcaggtg aaggcttatt tacaaatatg tcttccacct taaagaaagc 121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaagc ccccaagacc 181 accaaccccc gagttggtca agaggatacc ccctcctcca cctaacggcg aagaagaaga 241 agaaccagcc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac 301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga 361 aaacagggag gccaaggagc cgctaacagg ggcaatatta gagatgtggg atggagagat 421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccataagc atggcaagag tggagctgac gccgttgtca ttgtactggc gtgtggtgta 541 cactccccaa tacctcatct cccctgaaac cctcaggagg ctcaatggag aggcattccc 601 ttacaccgcc tttgataaca actgctatgc cttttgctgc tgggtgttag acctcaatga 661 ctcatggctt agcaggagga tggtacaaag aacaacgggc ttcttcagac cttaccaaga 721 gtggaacaga aaacccctgc ctaccatgga tgactccaag attaagaagg tagcaaatat 781 atttctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat 841 taaaccattg aacatattga atatcctggc aacgtgtgac tggacttttg ccggaatagt 901 ggaatctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc 961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt 1021 tgaactcgta cctgtggtaa tgggggggat tggtttggtg ttgggattca ccaaagagaa 1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc 1141 ctatggctta gagatactta aattggtcat gaagtggttc ttcccaaaga aagaggaggc 1201 caatgagcta gctatggtga gggccataga ggatgctgta ctagaccttg aggcaataga 1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac 1321 actggacatg gaggaggaga aagccaggag gttgtccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcat tagtccacag 1441 ggccaaggaa gagctatcta gcaggataag gccagtagtt gttatgatat ctggcaaacc 1501 aggaataggt aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac 1561 aggggatcaa agagtcggac tcataccacg aaacggtgtg gaccattggg atgcatacaa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccctattc atgatgctct 1681 tcgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa 1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaacctcg ccaatccagc 1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc 1861 tgaggcacca gaagtagaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa 1921 ggacgccttc aagccggact tctcacacat caagctacag cttgcacccc agggcggctt 1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc 2041 actgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg 2101 tcccacaatc accaccttca atttcgaccg gaacagaatc acggcattca 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 taacgagttg gctggggccc tgcaccatct 2401 caaacatgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat 2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcatcgca cgccgcatga acatacaaga 2521 actctggtcg aagccacaac 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 ggagtatcta caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga 2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcctaccag 2881 gaaacaaaga aaggaagaga gggccacatt agggctagta acaggttcag aaattaggaa 2941 aagaaaccct gatgacttca aacccaaagg gaagctgtgg gccgatgaca ataggagtgt 3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag 3061 ctttggttct ggctggggct tctgggtgtc accaagcctt ttcataacat caactcatgt 3121 aatccccgca ggcataacag aagcatttgg agtccccatc aaacaaattc agatccacaa 3181 atcaggcgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat 3241 gatcttggaa gaaggtgcgc ctgagggcac cgtggcaact gtgctcatca aacgccccac 3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga gaattcaagg 3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaacgcta aaggaatgga 3421 cttgggaaca actcctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta 3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacactgtca tctgcgccac 3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg 3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag 3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga 3721 tccgcgtgtt aagggtgggc cttccctgca gcaggtgatg agagaccagt tgaagccatt 3781 cactgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat 3841 catcaatgtc ctcgaacaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg gcacccccat cacgtccgaa agaatgaatt 3961 ctggaatggt gagaccttca ctggtaaact ggcagaccaa gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacaca tgacaccagt gtacacagca gcactcaagg acgagctagt 4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc 4141 caccatgatc cggtgcgcta ggtcatttgg tgggcttatg 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 acagtcgctg aggatctgct ggcccccagt 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 agttaaccgc caaattgaag gagtacggcc tgaaaccaac 4681 ccgcccagac aaaaccgagg gacccctgat tatcagtgaa gatctgaacg gtctcacttt 4741 cctccgaagg acggtgactc gtgacccagc tggctccttt ggaaaactgg accaaagctc 4801 aatttggagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat 4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca 4921 cggaccctct ttctacagta aaatcagtag 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 tactgaatct agagttgggt ccagaattaa 5341 atccttatct ggcacattta gcaagaatgt acaatgggta tgccggtggg atggaggtgc 5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gccgtgccac 5461 cccacttccc ggttgaaaac cttagcccac agcaaatcac catgttccct catgtgatca 5521 tagatgtgag aaccttggaa cctgttttat taccactccc tgatgttagg aataatttct 5581 tccattataa ccagaaagat gatcccaaga tgagaattgt ggctatgctt tatacccccc 5641 tcaggtctaa tggttcaggt gatgatgtgt ttacagtctc ctgtagagtg ttgactagac 5701 cttcccctga ctttgacttc acatacctgg tgccaccaac agtggagtct aaaacaaagc 5761 cattcaccct cccaatcctc acacttgggg aactttccaa ttctaggttc ccagtgtcca 5821 tagaccagat gtacaccagc cctaatgaaa ttatatcagt gcagtgtcaa aatggtaggt 5881 gcacactgga cggggagctc caagggacaa cacaactcca agtcagtggc atttgtgctt 5941 tcaaaggtga agtgaccgcc cacttgcatg acaatgatca cctatataat gtcaccatca 6001 caaacttgaa tgggtcccct tttgatccct ccgaggatat ccctgcccct ctgggtgtgc 6061 ctgacttcca gggaagggtt tttggtgtca tctcccaaag agataaacac aatagtcctg 6121 ggcataatga accagcaaac aggggacacg acgctgtggt ccctacttat acagcacagt 6181 acactccaaa acttggacaa attcaaattg gcacatggca aactgacgac cttacagtca 6241 accaaccagt caaattcacc ccagttggac ttaatgacac tgaacacttt aaccaatggg 6301 tggtccctag gtatgctggt gccctaaacc tcaatacaaa ccttgcccct tctgttgctc 6361 cagtatttcc aggagagcgc ctgctcttct tcagatcata cattcccctc aagggcggtt 6421 atggaaaccc agccattgat tgcctactac cacaagagtg ggtgcaacac ttctatcagg 6481 aagcagcccc ttcaatgagt gaggtggccc tcgtcaggta catcaacccg gacactggtc 6541 gggcactgtt tgaggccaag ctccacagag ctggtttcat gacagtctcg agcaacacca 6601 gtgccccggt ggttgtgcct gccaacgggt acttcagatt tgattcttgg gtgaaccaat 6661 tttattctct tgcccccatg ggaactggga atgggcgtag aagggttcaa taatggctgg 6721 agcttttgta gctggtcttg caggggacgt gctcagcaat gggcttagtt cattaatcaa 6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattgcagca 6841 aaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct 6901 gcaggcagac atgatggcta taaaacaagg ggtcttgacc gctggcggct tttcccctgc 6961 tgatgcagcc agaggtgctg tgaacgcgcc catgacacag gcgctggatt ggaatggcac 7021 aaggtattgg gcaccaaact ccatgaggac cacatcttat tctggaaaat ttacatcaac 7081 cgccccagtg aggcaagctg acttccagca cacccaaagc cggccttcga gtggctcctc 7141 tgtgtcttcc tttgccactc agtcttcaag gccaactctg accacaacca ctggttcctc 7201 acacggcaca gcctcatcaa attcaactcg cagcacaagc ctctcccaat caacggtctc 7261 cagagctaca tctaggactg gtgagtgggt tagagatcaa aatagaaatt tggaacccta 7321 catgcatggt gccttacaga cagcctttgt caccccacct tccagcaggg catctgacgg 7381 gacagtctca accgtcccta aaggtgtttt ggactcctgg acacctgcgt ttaacacccg 7441 caggcagccg ctttttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg 7501 tgaaaattta tttaggatga attgatttta cctttt //