Typing tool
|
Complete norovirus genomes
LC597112 | GII.17 | ||
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GII.P17 |
ORF1: 5..5113 ORF2: 5094..6716 ORF3: 6716..7495LOCUS LC597112 7542 bp RNA linear VRL 14-JAN-2021 DEFINITION Norovirus GII GII/Hu/ID/2016/GII.17[P17]/SOEP83 RNA, comlete genome. ACCESSION LC597112 VERSION LC597112.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Utsumi,T., Lusida,M.I., Dinana,Z., Wahyuni,R.M., Soegijanto,S., Soetjipto, Athiyyah,A.F., Sudarmo,S.M., Ranuh,R.G., Darma,A., Juniastuti, Yamani,L.N., Doan,Y.H., Shimizu,H., Ishii,K., Matsui,C., Deng,L., Abe,T., Katayama,K. and Shoji,I. TITLE Molecular epidemiology and genetic diversity of norovirus infection in children hospitalized with acute gastroenteritis in East Java, Indonesia in 2015-2019 JOURNAL Infect Genet Evol 88, 104703 (2021) PUBMED 33401005 REMARK DOI:10.1016/j.meegid.2020.104703 Publication Status: Available-Online prior to print REFERENCE 2 (bases 1 to 7542) AUTHORS Utsumi,T. and Shoji,I. TITLE Direct Submission JOURNAL Submitted (09-DEC-2020) Contact:Takako Utsumi Kobe University School of Medicine, Center for Infectious Diseases; 7-5-1 Kusunoki-cho Chuo-ku, Kobe, Hyogo 650-0017, Japan FEATURES Location/Qualifiers source 1..7542 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="GII/Hu/ID/2016/GII.17[P17]/SOEP83" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="Indonesia" /collection_date="2016" CDS 5..5113 /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BCN97249.1" /translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTLKKALGAR SKQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVV QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGQVLGVHKPPA AISLAKIETTPLSLYWRVVYTPQYLIDPGTLKSLSGETFPYTAFDNNCYAFCCWVLDL NDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG PEDLAVELVPVVMGGIGLVIGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLLVKW FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV KTLDELKQAIKNISIKKCQIVYNGYTYTMESDGRGKVVVEKVQNATVQTNNELVGALH HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPTEEGDEPEDR GGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN DYWSGESFTGKLADQASKANLMYEEGKHTQPVYTAALKDELVKTDKIYGKIKKRLLWG SDLSTMIRCARAFGGLMDEFKANCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYS RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5094..6716 /note="ORF2" /codon_start=1 /product="VP1" /protein_id="BCN97250.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAALAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSSQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID CLMPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" CDS 6716..7495 /note="ORF3" /codon_start=1 /product="VP2" /protein_id="BCN97251.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVKATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNVPQSKPAKPRSLAPSSSSSSVYSMYTQST HLTSGSSSNASSASTKLTNLSSGSSRNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa 61 cgacaaggaa aaatcttcaa gtgacagctt gtttgctaac atgtctgtta ctttaaagaa 121 agcactcggg gcgcggtcta aacaaccgcc cccgggagaa acaaaacaaa tacaaaaacc 181 accaaggcca ccgacaccgg aattggtgaa gagaatacct ccacccccac ccaatggcga 241 ggatgaacca gggatagtgt acaaggtggg agagggtgtg tctgggctgc ccgacctaac 301 aactgtggta caacctgacg cacaaaacac agcttacagt gttcccccac ttagccagag 361 agaagtcggc gaagctaaag aaccgctgcc tggctccatt ctggaaatgt gggatggtga 421 gatctaccac tatgggctgt atgttgagcg ggggcaagtg ctcggagtac acaaaccacc 481 tgctgcaata agccttgcca aaattgaaac aacaccgctg tctctctact ggagagtggt 541 ctacactccc cagtatttga tagatccagg aactcttaag agcttgagtg gagagacttt 601 cccatacacg gcctttgaca ataactgtta tgccttctgt tgttgggtct tagacctcaa 661 cgactcctgg cttagcagga gaatgatcca aagaacaact ggattcttca aaccttatca 721 ggattggaac agaaaaccct taccaaccat ggatgaaccg aaaatcaaga aggccgcgaa 781 tgctgttcta tgcgctctct cctcactctt cactagaccc attaaggaca tcattggaaa 841 gcttagacca ctgaacattc ttaatatact ggcaacctgc gattggactt ttgcaggcat 901 agtggaatcc ttgatccttc ttgctgaact ctttggggta ttctggacac ccccagatgt 961 gtctgcgatg attgctccct tactcggtga ctacgagatg caaggccccg aagacctggc 1021 cgtggaactt gtgcccgtgg tgatgggagg aataggtttg gtgataggat tcaccaaaga 1081 aaagatcggc aagatgcttt catcagctgc gaccacactt agggcctgca aggatctagg 1141 atcttatgga ttggagatac tcaaattgct cgtgaagtgg ttcttcccca agaaggagga 1201 ggctaacgaa ctagccatgg tgagggccat tgaggatgca gtcctggatt tggaggcaat 1261 agaaaacaat cacatgacca cccttctcaa ggataaagac agcctggcca catacatgag 1321 gacccttgac ttggaagaag agaaagcaag gaaactgtca accaaatcgg cgtcacctga 1381 catcgtgggt acaataaacg cattactggc taggatagca gccgccaggt cactggtcca 1441 caaggctaag gaggagctct cgagcagaca gagacctgtt gttgtaatga tatcaggtag 1501 accaggtata ggaaagaccc atctggccag agagctagcc aagaaagttg cgtcaacact 1561 gtcaggcgac caaaggattg gactggtacc tagaaatgga gtcgaccatt gggacgccta 1621 caagggagaa agggtggttc tgtgggatga ttatggtatg agcaacccta tacaggacgc 1681 actgaggctc caagaattgg ctgacacctg tcctctgacc ctaaattgtg acaggattga 1741 gaacaaagga aaagtgttcg acagtgatgc cataattata acaaccaacc ttgcaaaccc 1801 agcaccacta gactatgtca attttgaggc ctgctctaga cgcatagact tcttggtgta 1861 tgcagacgca cctgacattg agaaggctaa gcgtgacttc cctggccaac cagatatgtg 1921 gaaagaccat ttcagaccag acttctcaca cattaaactt cagctggcac cacagggagg 1981 ttttgacaaa aatggcaaca ccccacatgg caaaggtgtg gtgaagtccc tgacgattgg 2041 ttctctgatc gccagggcct ctggcttgct ccacgagaga atggatgaat tcgagctcca 2101 aggctctgac ctgccaacct tcaattttga ccgcaacaaa gtcgccgcct tcagacaatt 2161 agcagctgaa aacaaatatg gtcttatgga cacactgagg gtcggcaacc aactgaaaag 2221 tgttaagacc ctggatgagc tgaaacaggc cataaagaac atcagtatca agaagtgtca 2281 gatagtgtat aatggataca cctataccat ggaatctgat gggaggggca aggttgtggt 2341 tgaaaaggta caaaacgcaa cagttcaaac caacaatgaa cttgtagggg cgctccacca 2401 cctgagatct gcaaggataa gatactatgt taaatgtttc caagaagcca tttactctct 2461 actccaaatt gctggtgcag ccttcgtcac ctcacgcatc gtgaggcgca tgaacatatc 2521 aaacctctgg tcgaagccac ccaccgagga gggtgatgag cctgaagaca gaggaggatg 2581 ccccaagccc agggatgaag atgacctcac tattgactct agagacatta aagtggaagg 2641 gaagaagggc aagaacaagt ctggccgggg caagaaacac acagccttct cttccaaggg 2701 cctcagtgat gaagagtacg atgagtacaa gagaatcaga gaggagagga atggtaaata 2761 ctcaatagag gaatatctcc aagataggga cagatactat gaagagcttg ccattgctaa 2821 ggccactgag gaggacttct gtgaggagga ggagatcaaa atccgccaga gaatcttccg 2881 acccaccagg aagcagcgga aagaggaaag ggccacgctt gggcttgtca caggatcgga 2941 aatcagaaag aggaatccag atgactttaa accaaaagga aaattgtggg ctgatgacaa 3001 caggagcgtg gattacaatg agaggataga ttttgaggct cccccgagtg tttggtctag 3061 gatagtcaac tttggcacag gctggggatt ctgggtttct ccaagtcttt ttataacttc 3121 aacacacgtc ataccaaaag gaatcactga ggcctttgga gtgcccataa accaaatcca 3181 aattcacaaa tctggggaat tttgccgctt gcggtttcca aagccaatta gaccagacgt 3241 gagtgggatg atcttggaag agggtgcccc tgaaggcact gttgtgtcta ttctcatcaa 3301 aaggacaaca ggggagctga tgcctcttgc agtcaggatg gggactcatg ccacaatgaa 3361 aatccaaggt agaacggtgg gtggtcagat gggtatgctt ctcactggct caaatgctaa 3421 aagcatggat ctaggtacaa cgccaggtga ctgcggatgt ccatacatat acaaaagggg 3481 caatgacttt gtggtcattg gggtgcacac tgcagcagct cgtggaggca acacggttat 3541 atgtgccaca cagggaagtg aaggtgaagc cactcttgaa ggaggtgaca acaagggtac 3601 ctattgtgga gcccccattt tgggacctgg caatgcacca aaattgagca caaagacaaa 3661 attctggaga tcctccaacg caccgcttcc cccaggtact tatgaaccag cataccttgg 3721 tgggaaagac ccgcgcgtga agggaggccc atctctgcaa caagttatga gagaccaact 3781 caaacctttt acagagccta gagggaagcc accaaaccca aatgtcttag agtcagcaaa 3841 gaagactatc atcaatgttc tggaacaaac cattgacccc cctcaaaagt ggtcatatgc 3901 ccaagcttgt gcatccctcg ataagacaac ctccagtgga tacccgcacc acgtccggaa 3961 gaatgactat tggagtggtg aatccttcac aggaaaactt gcagatcagg cttcaaaagc 4021 aaatctcatg tatgaggaag gcaagcacac gcaaccagtt tacaccgcag cactcaaaga 4081 cgagctcgtg aaaactgaca aaatctatgg caaaatcaag aaaagactcc tgtggggttc 4141 tgacctctcc acaatgattc gatgcgccag agcatttggt ggtctcatgg atgaattcaa 4201 agcaaactgc atcacactcc ctgtcagagt tggtatgaat atgaatgaag atggtcccat 4261 aatatttgag aaacactcca ggtacaggta ccactatgat gctgattact cccgctggga 4321 ctctacacaa cagcgggcag tgctggaagc ggcacttgaa atcatggtga gattttctgc 4381 tgagccacag ctggcacaaa tagtggcaga ggacctgctg tcaccaagtg tggttgatgt 4441 gggcgatttc aaaatcgcta tcaatgaagg cctaccatct ggcgtgcctt gcacctcaca 4501 atggaattct attgcccact ggttacttac cttgtgtgcc ctttctgaag tgacaggatt 4561 aggtcctgac atcatacaag ctaactccat gtactctttc tatggtgatg atgagattgt 4621 gagcacagac ataaaattgg acccagaaaa attgaccgca aagctcaaag aatatggcct 4681 taaacccact cggcccgaca aaactgaggg gccgttggta attagtgagg acctgaatgg 4741 gttgactttc cttcgccgaa cagtcacccg tgatccagca ggttggtttg gaaagttgga 4801 ccaaaactcc atcctcaggc agttgtactg gacaagagga cccaaccatg aagaccccag 4861 tgagaccatg ataccacacg cacaaagacc tgtacagctc atggcactac taggagaatc 4921 ctccctacat ggaccctcat tttatagcaa ggttagcaaa ttagtcatat ctgaacttaa 4981 agagggagga atggattttt atgtgcccag acaagagtca atgttcagat ggatgaggtt 5041 ctcagatcta agcacatggg agggagatcg caatctggct cccagttttg tgaatgaaga 5101 tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagagggca 5161 acaacgagac ccttccccta gaaccagttg cgggcgcagc tttagccgca cccgttactg 5221 gccaaaataa cataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag 5281 agttcacagt gtcacccaga aactctcctg gagaaatttt attaaactta gagttgggcc 5341 ctgatttgaa cccttatttg gctcatttgt caaggatgta caatgggtat gctggtggag 5401 tggaagttca ggttctcctg gcagggaacg cgttcactgc cggaaagatc ctcttcgccg 5461 ccgtcccgcc aaatttccca gtggaattct taagcccagc ccagatcaca atgctcccac 5521 atttaatagt agatgttagg acacttgaac caattatgat cccactccct gatgttagga 5581 atacattctt ccattatagt aaccagccta acagccgcat gagattagtg gctatgctct 5641 ataccccact cagatctaac ggctcaggtg atgatgtctt tactgtctct tgcagggttt 5701 tgactaggcc tactcctgat tttgagttca cttatttagt gccaccttct gttgaatcta 5761 aaactaagcc tttttcctta cctattttaa ccctttctga gctcacaaat tcgaggtttc 5821 cagtccccat tgattcgctt ttcaccgccc agaataatgt gttgcaggtg cagtgtcaaa 5881 atggcaggtg tacacttgat ggtgagttac aaggcacaac ccagttgctc ccatctggca 5941 tctgtgcatt cagaggacgg gtgacagcac aaattaacca acgtgacagg tggcacatgc 6001 aactgcaaaa cctcaatggt acaacatatg acccaaccga tgatgtgcca gccccgctgg 6061 gtacacctga cttcaagggc gtcgtgtttg ggatggtaag ccaaagaaat gtgggtaatg 6121 atgcgcctgg ctcaaccaga gcccaacagg cgtgggtttc aacctatagc tcccaatttg 6181 tccccaaatt aggttctgtc aatcttagaa ttagtgataa tgatgatttc caattccagc 6241 ctacaaaatt cacaccagtg ggcgtcaatg atgacgatga tggccacccg ttcagacaat 6301 gggaactacc aaactattca ggggagctca ccctgaatat gaatcttgcc cccccagttg 6361 ctccaaattt tcctggtgaa caattgttat tcttcagatc tttcgtgcca tgctcaggag 6421 gttacaacca aggtattata gattgcctta tgccccaaga atggatccaa catttctatc 6481 aggaatcagc accctcccag tcagacgtgg ccctaatcag gtatgtcaac cctgatacgg 6541 gacgcacact gtttgaagca aaattgcaca ggtctggtta cattactgtg gctcactctg 6601 gagactatcc tctcgtcgtt ccggctaatg gacactttag atttgattct tgggtaaacc 6661 agttttactc actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc 6721 tggggctttc attgcaggat tggcaggcga catgctcacg tcatctgtgg gctcccttgt 6781 gaacgcaggg gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca 6841 gtctgcttcc tttcagcatg acaaagagat gctccaagcg caggtgaagg caaccaagca 6901 gctgcaatct gaaatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc 6961 cactgatgca gcaaggggag ccattggtgc acccatgaca aaggtgcttg actggtctgg 7021 cactcgatac tgggcgccca attccacaaa gacaactggt tattcgggac aattcacctc 7081 ttcacctgtg catatgtcta gcccaaatgt tccacaatca aaacctgcaa agcctagatc 7141 tctagctcct tcctcttctt ctagcagtgt ctacagtatg tatactcaat ctactcattt 7201 aacatctggc tcttctagta atgcttcttc tgcctctaca aaattgacaa atttaagctc 7261 tggctcctct cgaaacagaa cagcagagtg ggtaaatcaa cagagaagtc ttagcccttt 7321 catgagtggc gcacttaaca tctcacatgt cacgccaccc tcaagtaggg cttccagttc 7381 tgggacggtc tcgaccgtgc ccaaggaagt tttggactcc tggacgtctg cgttcaacac 7441 acacagacag ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa 7501 agaaataatt ggctataatg tgatttcttt ctaaatttgg ct //