Typing tool
|
Complete norovirus genomes
OP712198 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS OP712198 7599 bp RNA linear VRL 29-OCT-2022 DEFINITION Norovirus GII isolate GII/Hu/RU/2022/GII.4_Sydney[P16]/Nizhny_Novgorod567, complete genome. ACCESSION OP712198 VERSION OP712198.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7599) AUTHORS Epifanova,N.V., Alekseeva,A.E., Brusnigina,N.F., Oparina,S.V. and Novikova,N.A. TITLE Whole genome sequencing of noroviruses, detected in Nizhny Novgorod, Russia JOURNAL Unpublished REFERENCE 2 (bases 1 to 7599) AUTHORS Epifanova,N.V., Alekseeva,A.E., Brusnigina,N.F., Oparina,S.V. and Novikova,N.A. TITLE Direct Submission JOURNAL Submitted (22-OCT-2022) Laboratory of Molecular Epidemiology of Viral Infections, I.N. Blokhina Nizhny Novgorod Research Institute of Epidemiology and Microbiology, Malaya Yamskaya, 71, Nizhny Novgorod 603950, Russia COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. v. 3.11.1. Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7599 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="GII/Hu/RU/2022/GII.4_Sydney[P16]/Nizhny_Novgorod 567" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Russia: Nizhny_Novgorod" /collection_date="03-Mar-2022" /note="genotype: GII.4_Sydney[P16]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="UYO73027.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSITHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE 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="UYO73028.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKAIVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6707..7513 /gene="ORF3" CDS 6707..7513 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="UYO73029.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARITTYNSGHFSTPQPSGALPGRANLRDAVPARGSSTKSS NSSAATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPLSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga 61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc 121 cctcggggct aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc 181 accaactccc gagttggtca agaggatacc ccctccccca cctaatggcg aagaagaaga 241 agaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac 301 agttccccaa ccggacgtgg ccaacacagc atttagtgtt ccaccactga gcttgagaga 361 aaacagggag gccaaggaac cgctaacagg ggcaatacta gagatgtggg atggagagat 421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc 481 agccataagc atggcaagag tggagttggc gccgctgtca ttgtactggc gtgtggtgta 541 cactccccaa tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcgtttcc 601 ttacaccgcc ttcgacaaca actgctatgc cttttgctgc tgggtgttag acctcaatga 661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcaggc cttaccaaga 721 gtggaataga aaacccttgc ctactatgga tgactccaaa ataaagaagg tagcaaatat 781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat 841 caaaccacta aacatattga acatcttggc aacatgtgac tggacgtttg ccggaatagt 901 ggagtctctg atattgcttg ccgagctctt cggagttttc tggacacccc cagatgtgtc 961 tgctatgatc gctcccttac tcggggacta cgagttacaa gggccagaag acctcgctgt 1021 tgaactcgta cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa 1081 aatcggcaaa atgttgtcct cagcagcatc aacactcagg gcttgtaaag atcttggtgc 1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc 1201 caatgagcta gccatggtga gggccataga ggatgccgtg ctagatcttg aggcaataga 1261 gaataaccac atgacaaccc tgttgaaaga taaagacagc ttagcaacat acatgaaaac 1321 actggacatg gaggaggaga aagccagaag gctatccaca aaatctgcat cccctgacat 1381 agttgggaca atcaacgccc tgctggctcg aatagcagcc gccaggtcat tagtccacag 1441 ggccaaggaa gagctgtcca gcaggataag accagtagtt gttatgatat ctggcaaacc 1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac 1561 aggggaccaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa 1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct 1681 ccgcatacaa gaattggctg atacgtgccc ccttacctta aattgtgaca gaattgaaaa 1741 taagggaaaa gtctttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc 1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc 1861 tgaggcacca gaagtagaaa aggcaaaacg ggattttcct ggtcagccag atatgtggaa 1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacctc agggcggctt 1981 tgacaagaat ggcaataccc cacatgggaa aggagtgatg aagaccctca ctaccggttc 2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg 2101 tcccacaatc accactttca attttgaccg gaatagaatc acagcattca gacaattggc 2161 tgcagaaaac aagtacggac tggtggacac catgaaagtt ggcaatcaac taaaaggagt 2221 gaaaaccatg gaagaactca aacaagcaat cagaaatgtg accatcaaga ggtgccggat 2281 catctacggt ggttccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga 2341 aaaggtcaag aacacctcta tacagaccaa caacgagttg gccggggccc tgcaccatct 2401 taaacatgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat 2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga 2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcccccaa 2581 gtcagaagat gacgagttcg tcatatcttc taaggatatc aaggaggaag gaaagaaggg 2641 caaaaataaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga 2701 tgaggagtat gacgagtaca agaggataag agaagagaga aacgggaagt actctataga 2761 ggaatatctc caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga 2821 agaggacttc tgtgaagagg aggaaatcaa aatccgtcag agaattttcc gtcccaccag 2881 gaaacaaaga aaggaagaga gggccacatt agggctggta acaggttcag aaatcagaag 2941 aagaaaccct gatgatttca aacctaaagg gaagctttgg gccgatgaca acagaagtgt 3001 cgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta gaattgtgag 3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caacccatgt 3121 tatccctgca ggcataacag aagcatttgg agtccccatc aaacaaattc agattcacaa 3181 atcaggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat 3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac 3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga agattcaagg 3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aagggatgga 3421 tttgggaaca actcctggtg actgtggctg cccttacatc tataaaaggg gcaatgacta 3481 tatagtcatt ggggtacaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac 3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg 3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag 3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga 3721 cccacgtgtt aggggtgggc cctccttaca gcaggtaatg agagaccagt tgaagccatt 3781 cactgagccc aggggcaaac ctccaagacc aagtgttttg gaagcagcca aacaaaccat 3841 tatcaatgtc ctcgaacaaa ccctggatcc tccacaaaaa tggacatatg cacaggcgtg 3901 tgcctcactt gacaaaacca cctccagcgg gcatccacac cacgcccgaa agaatgaatt 3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccag gcatcaaaag caaacctaat 4021 gtttgaggaa gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagttagt 4081 taagactgag aaaatctatg gaaaggtcaa gaagagactg ctctggggct ctgacttgtc 4141 caccatgatc cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg 4201 catatcactt ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga 4261 gaaacattcc agatacaaat accactatga tgcagactac tctcgctggg attcaacgca 4321 acagagggca gtattagcag cagccttgga aatcatggtt agattctctg cagaaccaca 4381 attggcacaa atagtcgctg aggatctact ggcccctagt gtagtggatg taggagactt 4441 taaaatcaca ataaatgaag ggctcccatc tggtgtgcca tgcacttctc aatggaactc 4501 cataacacac tggctgctaa ctctctgcgc cttgtctgaa gtcaccaaac tgtcccctga 4561 cattatacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga 4621 cataaaattg gaccctgaac agttgaccgc caagttgaag gaatacggcc tgaaaccaac 4681 tcgcccagac aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt 4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagttc 4801 aattttgagg cagatgtact ggactagagg gccaaatcat gaagacccca atgagacaat 4861 gataccccat tctcagagac ccatacagct catggcactg cttggtgaag cctctcttca 4921 cggaccctct ttctacagta gaatcagtaa attggtcata actgaactta aagaaggtgg 4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt 5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtctgcag ccaacctcgt accagaggtc aacaatgagg 5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acccgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagttcacag 5281 tatcccctag aaatgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa 5341 atccctacct atcccattta gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaattct cgcggggaac gcgttcaccg ccgggaagat tatatttgca gcagtcccac 5461 caaattttcc aactgaaggt ttaagcccta gccaggtcac tatgttcccc cacataatag 5521 tagatgttag acaattggaa cctgtgctga tccccttacc cgatgttagg aataatttct 5581 atcactacaa tcagtcaaat gattccacca ttaagttgat agcaatgttg tacacaccac 5641 ttagggctaa taatgctgga gatgatgttt tcacagtttc gtgccgagtt ctcacgagac 5701 catcccccga ttttgatttt atatttttag taccacccac agttgagtca agaactaaac 5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt 5821 tggaaaagtt gtttacaggc cccagcagtg catttgtcgt tcaaccacaa aacggcagat 5881 gcacaactga tggcgtgctt ctaggcacca cacaactttc tcctgtcaac atctgcacct 5941 tcagagggga tgtcactcac atcacaggta gtcacaacta cactatgaat ttggcttctc 6001 aaaattggaa caactatgat ccaacagaag aaatcccagc ccctctagga actccagatt 6061 ttgtggggaa gattcaaggc atgctcaccc agaccacaag gacagatggt tcaacacgcg 6121 gtcacaaagc tatagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc 6181 aatttgaaac tgacacaaac catgattttg aagccaatca aaacacaaag ttcaccccag 6241 tcggtgtcat ccaagatggt agcaccaccc atcgaaacga accccagcag tgggtgctcc 6301 caagttactc aggcagaaat actcacaatg tacatttggc ccccgctgta gcccccactt 6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag 6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgagtg caagcttcac aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttctaca 6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt 6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aggttgagtt tgaaaataac agaaaactgc aacaagcatc 6841 ctttcaattt agcagcaatt tgcaacaggc ttcctttcaa catgataaag agatgctcca 6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgagagtta agcaggcaat 6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat 7021 gacaaaggct ttggactgga gcgggacaag gtactgggct ccagatgcta gaattacaac 7081 atataattca ggccactttt ccacccctca accatcgggg gcactgccag gaagagctaa 7141 tcttagggat gctgtccctg ctcggggatc ctccaccaaa tcttctaatt cttctgctgc 7201 cacttctgtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg 7261 aaccagtgtc tcgagcctcc cgtcgactgc aaggactagg agctgggttg aggatcaaaa 7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcatttgtca ccccactatc 7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaaattt tggactcctg 7441 gaccggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaaca gattattttc tttttctttt ctttagtgtc 7561 ttttaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaa //