Typing tool
|
Complete norovirus genomes
OR062612 | GII.17 | ||
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GII.P17 |
ORF1: 5..5113 ORF2: 5094..6716 ORF3: 6716..7495LOCUS OR062612 7561 bp RNA linear VRL 04-JUN-2023 DEFINITION Norovirus GII isolate Hu/NI/2017/GII.17[P17]/NIC4691, complete genome. ACCESSION OR062612 VERSION OR062612.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7561) AUTHORS Diez-Valcarce,M., Bucardo,F., Becker-Dreps,S., Montmayeur,A.M., Vinje,J. and Chhabra,P. TITLE Direct Submission JOURNAL Submitted (30-MAY-2023) Viral Gastroenteritis Branch, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7561 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/NI/2017/GII.17[P17]/NIC4691" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="Nicaragua" /collection_date="29-Nov-2017" /note="genotype: GII.17[P17]" gene 5..5113 /gene="ORF1" CDS 5..5113 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WIA63860.1" /translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGAR SKQPPPGEIKQTQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVV QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA AISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDL NDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV KTLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALH HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNVSNLWSKPPIEESDEPEDR GGCPKPRDGDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKGMDLGTT PGDCGCPYLYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG SDLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 5..1003 /gene="ORF1" /product="p48" mat_peptide 1004..2101 /gene="ORF1" /product="NTPase" mat_peptide 2102..2638 /gene="ORF1" /product="p22" mat_peptide 2639..3037 /gene="ORF1" /product="VPg" mat_peptide 3038..3580 /gene="ORF1" /product="Pro" mat_peptide 3581..5110 /gene="ORF1" /product="RdRp" gene 5094..6716 /gene="ORF2" CDS 5094..6716 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WIA63861.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISNNDDFQFQPTKFTPVGVN DDDDDHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6716..7495 /gene="ORF3" CDS 6716..7495 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WIA63862.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa 61 cgacaaggaa aaatcttcaa gtgacagctt gtttgctaac atgtccgtca cttttaagaa 121 agccctcggg gcgcggtcta aacaaccgcc cccgggagaa ataaaacaaa cacaaaaacc 181 accaaggcca ccgacaccgg aattggtgaa gagaatacct ccacccccac ccaatggcga 241 ggatgaacca gggatagtgt acaaggtggg agagggtgtg tctgggctgc ccgacctaac 301 aactgtggta caacctgacg cacaaaacac agcttatagt gttcccccac ttagccagag 361 agaagtcggc gaagctaaag aaccgctgcc tggctccatt ctggaaatgt gggatggtga 421 gatctaccac tatgggctgt atgttgagcg ggggcatgtg ctcggagtac acaaaccacc 481 tgctgcaata agccttgcca aaattgaaat aacaccgctg tctctctact ggagagtggt 541 ctacactccc cagtatttga tagatccagg aactcttaag aacttgagtg gagagacttt 601 cccatacacg gcctttgaca acaactgtta tgccttctgt tgttgggtcc tagacctcaa 661 cgactcctgg cttagcagga gaatgatcca aagaacaact ggattcttca aaccttatca 721 ggattggaac agaaaaccct taccaaccat ggatgaacca aaaatcaaga aggccgcgaa 781 tgctgtccta tgcgctctct cctcactctt cactagaccc attaaggaca tcattggaaa 841 gcttagacca ctgaacattc ttaatatact ggcaacctgc gattggactt ttgcaggcat 901 agtggaatcc ttgatccttc ttgctgaact ctttggggtg ttctggacac ccccagatgt 961 gtctgcgatg attgctccct tactcggtga ctacgagatg caaggccccg aagacctggc 1021 cgtggaactt gtgcccgtgg tgatgggagg aataggtttg gtgttaggat tcactaaaga 1081 aaagatcggc aagatgcttt catcagctgc gaccacactt agggcctgca aggatctagg 1141 atcttatgga ttggagatac tcaaattggt catgaagtgg ttcttcccca agaaggagga 1201 ggctaatgaa ctagccatgg tgagggccat tgaggatgca gtcctggatt tggaggcaat 1261 agaaaacaat cacatgacca cccttctcaa ggataaagac agcctggcca catacatgag 1321 gactcttgac ttggaagaag agaaagcaag gaaactgtca accaaatcgg cgtcacctga 1381 catcgtgggt acaataaacg cattgttggc tagaatagca gccgccaggt cactggtcca 1441 caaggctaag gaggagctct cgagcagaca gagacctgtt gttgtaatga tatcaggtag 1501 accaggtata ggaaagaccc atctggccag agagctagcc aagaaagttg cgtcaacact 1561 gtcaggcgac caaaggattg gactggtacc taggaatggc gtcgaccatt gggacgccta 1621 caagggagaa agggtggtcc tgtgggatga ttatggtatg agcaacccta tacaggacgc 1681 actgaggctc caagaattgg ctgacacctg tcctctaacc ctaaattgtg ataggattga 1741 aaacaaagga aaagtgttcg acagtgatgc cataattata acaaccaacc ttgcaaaccc 1801 agcaccacta gactatgtca actttgaggc ctgctctaga cgcatagact tcttggtgta 1861 tgcagacgca cctgacattg agaaggctaa gcgtgacttc cctggccaac cagatatgtg 1921 gaaagaccat ttcagaccag acttctcaca cattaaactt cagctggcac cacagggagg 1981 ttttgacaaa aatggcaata ccccacatgg caaaggtgtg gtaaagtccc tgacgattgg 2041 ttctctgatc gccagggcct ccggcttgct ccacgagaga atggatgaat ttgagctcca 2101 aggctctgac ctgccaacct tcaattttga ccgcaacaaa gtcgccgcct tcagacaatt 2161 agcagctgaa aacaaatatg gtcttatgga cacattgagg gtcggtaacc aactgaaaag 2221 tgttaagacc ctggatgagc tgaagcaggc cataaagaac atcagtatca agaagtgtca 2281 gatagtgtat aatggatgca cctataccat ggaatctgat gggaggggca aggttgtggt 2341 tgaaaaggta caaaacgcaa cagttcaaac caacaatgaa cttgtggggg cgctccacca 2401 cctgagatct gcaaggataa gatattatgt taaatgtttc caagaagcca tttactctct 2461 actccaaatt gctggtgcag cctttgtcac ctcacgcatc gtgaggcgca tgaacgtatc 2521 aaacctctgg tcgaagccac ccatcgagga gagtgatgag cctgaagaca gaggaggatg 2581 ccccaagccc agggatggag atgacctcac tattgactct agagacatta aagtggaagg 2641 gaagaagggc aagaacaagt ctggccgggg caagaaacac acagccttct cttccaaggg 2701 cctcagtgat gaagagtacg atgagtacaa gagaatcaga gaggagagga atggcaaata 2761 ctcaatagag gaatacctcc aggataggga 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 ccaagtctct ttataacttc 3121 aacacacgtc ataccaaaag gaatcactga ggcctttgga gtgcccataa accaaatcca 3181 aattcacaaa tctggagaat tttgccgctt gcggtttcca aagccaatta gaccagacgt 3241 gagtgggatg atcttggaag agggcgcccc tgaaggcact gttgtgtcta ttctcatcaa 3301 aaggacaaca ggggagctga tgcctcttgc agtcagaatg gggactcatg ccacaatgaa 3361 aatccaaggt agaacggtgg gtggtcagat gggtatgctt ctcactggct caaatgctaa 3421 aggcatggat ctaggcacaa cgccaggtga ctgcggatgt ccatacttat acaaaagggg 3481 caatgacctt gtggtcattg gggtgcacac tgcagcagct cgtggaggca acacggtcat 3541 atgtgccaca cagggaagtg aaggtgaagc cactcttgaa ggaggtgaca acaagggtac 3601 ctattgtgga gcccccattt tggggcctgg caatgcacca aaattgagca caaagacaaa 3661 attctggaga tcctctaacg caccgcttcc cccaggcact tatgaaccag cataccttgg 3721 tgggagagac ccgcgcgtga agggaggtcc atctctgcaa caagttatga gagaccaact 3781 taaacctttt acagagccca gagggaagcc accaaaccca aatgtcttag agtcagcaaa 3841 gaagactatc atcaatgttc tggaacaaac cattgacccc cctcaaaagt ggtcatatgc 3901 ccaagcctgt gcatccctcg acaagacaac ctccagtgga tacccgcacc acgtccggaa 3961 gaatgactat tggagtggtg aatccttcac aggaaaactt gcagatcagg cttcaaaagc 4021 aaatctcatg tatgaggaag gcaagcacat gcaaccagtt tacaccgcag cactcaaaga 4081 cgagctcgtg aaaactgaca agatttacgg caaaatcaag aaaagactcc tgtggggttc 4141 tgacctctcc acaatgattc gatgcgccag agcatttggt ggtctcatgg atgaattcaa 4201 agcaaactgt attacactcc ctatcagagt tggtatgaat atgaatgaag atggtcccat 4261 aatatttgag aaacactcca ggtacaggta ccactatgat gctgattact cccgctggga 4321 ctccacacaa cagcgggcag tgctggaagc ggcacttgaa atcatggtga gattttctgc 4381 tgagccacag ctggcacaaa tagtggcaga ggacctgctg tcaccaagtg tggttgatgt 4441 gggcgacttc aaaatcgcta tcaatgaagg cctaccatct ggcgtgcctt gcacctcaca 4501 atggaactct attgcccact ggttacttac tttgtgtgcc ctttctgaag tgacaggatt 4561 aggtcctgac atcatacaag ctaactccat gtactctttc tatggtgatg atgagattgt 4621 gagcacagac ataaaattgg acccagagaa attgaccgca aagctcaagg aatatggcct 4681 taaacccact cggcccgaca aaactgaggg gccgttggtg attagtgagg acttgaatgg 4741 gttgactttc ctccgccgaa cagtcacccg tgatccagca ggttggtttg gaaagttgga 4801 ccaaaactcc atcctcaggc agttgtactg gacaagagga cccaaccatg aagaccccag 4861 tgagaccatg ataccacacg cacaaagacc tgtgcagctc atggcactac taggagaatc 4921 ctccctacat ggaccctcat tttacagcaa ggttagcaaa ttagtcatat ctgaacttaa 4981 agagggagga atggattttt atgtgcccag acaagagtca atgttcagat ggatgaggtt 5041 ctcagatcta agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga 5101 tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagagggca 5161 acaacgagac ccttccccta gaaccagttg cgggcgcagc tatagccgca cccgtcactg 5221 gccaaaataa tataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag 5281 agttcacagt gtcacccaga aactctcctg gagaaattct attaaattta 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 actcttgaac caattatgat cccactccct gatgttagga 5581 atacattctt tcattatagt aatcagccta acagccgcat gagattagtg gctatgctct 5641 ataccccact cagatctaat ggctcaggtg atgatgtctt tactgtctct tgcagggttt 5701 tgactaggcc tactcccgac tttgagttca cttatttagt gccaccttct gttgaatcta 5761 aaactaagcc tttttcctta cctattttaa ccctttctga gctcacaaat tcgaggtttc 5821 cagtccccat cgattcgctt ttcaccgccc agaataatgt gttgcaggtg cagtgtcaaa 5881 atggcaggtg tacacttgat ggtgagttac aaggcacaac ccagttgctc ccaactggca 5941 tctgtgcatt cagaggacgg gtgacagcac aaattaacca acgtgacagg tggcacatgc 6001 aactgcaaaa cctcaatggt acaacatatg acccaactga tgatgtgcca gccccgctgg 6061 gtacacctga cttcaagggc gtcgtgtttg ggatggtaag ccaaagaaat gtgggtaatg 6121 atgcgcctgg ctcaaccaga gcccaacagg cgtgggtttc aacctatagc ccccaatttg 6181 tccccaaatt aggttctgtc aatcttagaa ttagtaataa tgatgatttc caattccagc 6241 cgacaaaatt cacaccagtg ggcgtcaatg atgacgatga tgaccacccg ttcagacagt 6301 gggaactacc aaactattca ggggagctta ccttgaatat gaatcttgcc cccccagttg 6361 ctccaaattt tcctggtgaa caattgttat tcttcaggtc tttcgtgcca tgttcaggag 6421 gttacaacca aggtattata gattgtctta ttccccaaga atggatccaa catttctatc 6481 aggaatcagc accctcccag tcagacgtgg ccctaatcag gtatgtcaac cccgacacgg 6541 gacgcacact gtttgaagca aaattgcaca gatctggtta tattactgtg gctcactctg 6601 gagactatcc tcttgttgtt ccggctaatg gacactttag atttgattct tgggtaaatc 6661 agttttactc actcgcccca atgggaactg ggaatgggcg aagaagggct cagtaatggc 6721 tggggctttc attgcaggat tggcaggcga catgctcacg tcatctgtgg gctcccttgt 6781 gaacgcaggg gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca 6841 gtctgcttcc tttcagcatg ataaagagat gctccaagcg caggtgaggg caaccaagca 6901 gctgcaatct gaaatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc 6961 cactgatgca gcgaggggat ccattggtgc acccatgaca aaggtgcttg actggtctgg 7021 cactcgatac tgggcgccca attccacaaa gacaactggc tattcgggac aatttacctc 7081 ttcacctgtg catatgtcta gcccaaatgc tccacaatca aaacctgcaa agcctaggtc 7141 tctagctcct tcctcttctt ctagcagtgt ctatagtatg tatactcaat ctactcattt 7201 gacatctggc tcttctagta atgcttcttc tgcctctaca aaattgacaa atttaagctc 7261 tggctcctct caaaacagga cagcagagtg ggtaaatcaa cagagaagtc ttagcccttt 7321 catgagtggc gcacttaaca tctcacatgt cacgccaccc tcaagtaggg cttccagttc 7381 tgggacggtc tcgaccgtgc ccaaggaagt tttggactcc tggacgtctg cgtttaacac 7441 acacagacag ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa 7501 agaaataatt ggctataatg tgatttcttt ctaaatttgg ctaatttgca tcttttaaaa 7561 a //