Typing tool
|
Complete norovirus genomes
OR685283 | GII.17 | ||
---|---|---|---|
GII.P3 |
ORF1: 1..5109 ORF2: 5090..6715 ORF3: 6715..7494LOCUS OR685283 7494 bp RNA linear VRL 22-OCT-2023 DEFINITION Norovirus GII isolate Hu/USA/2023/GII.17[P17]/CA-RGDS-1180 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION OR685283 VERSION OR685283.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7494) AUTHORS Pan,C.-Y., Hatada,A., Padilla,T., Wright,C. and Morales,C. TITLE Direct Submission JOURNAL Submitted (17-OCT-2023) Viral and Rickettsial Disease Laboratory, California Department of Public Health, 850 Marina Bay Parkway, Richmond, CA 94804, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious Prime v. 2022.0.2; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7494 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/USA/2023/GII.17[P17]/CA-RGDS-1180" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA: CA" /collection_date="Mar-2023" /note="genotype: GII.17[P17]" gene 1..5109 /gene="ORF1" CDS 1..5109 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WOC94336.1" /translation="MKMASNDASAAVAGKNNNNDKEKSSSDNLFSNMTVTFKKALGAR SKQPPPGEVKQTQKPPRPPTPELVKRIPPPPPNGEDGPQIVYKVGEGVSGLPDLTTVT RPDTQDTAYSVPPLSQREAGEAKEPLPGSILEMWDGEIYHYGLYVERGNVLGVHKPPA AVSLAKIELTPLSLYWRVVYTPQYLISPDTLKGLSGETFPYTAFDNNCYAFCCWVLDL NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI IGKLRPLNILNILATCDWTFAGIVESMILLAELFGVYWTPPDVSAMIAPLLGDYEMQG PEDLAVELVPVVMGGIGLVLGFTKEKVGKMLSSAATTLRACKDLGSYGLEILKLIMKW FFPKKEEASELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMLSGRPGIGKTHLA RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA DTCPLTLNCDRIENKGKVFDSDVIVITTNLANPAPLDYVNFEACSRRIDFLVYAEAPD IEKAKRDFPGQPDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVMKSLTVGSLI ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV KTLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELTGALH HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVKRMNISNLWSKPPVEEGDEPEDK GGCPKPRDEDDLTIDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE RNGKYSIEEYLQDRDRYYEELAIAKAIEEDFCEEEEIKIRQRIFRPTRKQRKEERATL GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW VSPSLFITSTHVIPKGITEAFGVPMSQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRMVGGQMGMLLTGSNAKSMDLGTT PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP ILGPGSAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHARKN DYWNGETFTGKLADQASKANLMYEEGKHMQPVFTAALKDELVKTDKIYGKIKKRLLWG SDLSTMIRCARAFGGLMDELKANCIALPVRVGMNMNEDGPIIFEKHSRYRYHYDADYS RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSIYSFYGDDEIVSTDIKLDPEKLTA KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQIYWT RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPAFYSKVSKLVISELKEGGMDFYVP RQESMFRWIRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 1..999 /gene="ORF1" /product="p48" mat_peptide 1000..2097 /gene="ORF1" /product="NTPase" mat_peptide 2098..2634 /gene="ORF1" /product="p22" mat_peptide 2635..3033 /gene="ORF1" /product="VPg" mat_peptide 3034..3576 /gene="ORF1" /product="Pro" mat_peptide 3577..5106 /gene="ORF1" /product="RdRp" gene 5090..6715 /gene="ORF2" CDS 5090..6715 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WOC94337.1" /translation="MKMASNDAAPSNDGATGLVPEINTETLPLEPVAGASLAAAVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNRPSERMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTISELTNSRFPAPIDSLFTAQNNVLNVQCQNGRCTLDGELQGTT QLLPTGICAFRGKITADVENQHDDRWHLSITNLNGTPFDPTEDVPAPLGTPDFTGLLF GVASQRNVGGSGNNTTRAHEAVISTTSTQFVPKLGSVNFGSQSDDFQVSQPTKFTPVG IKIETGHPFEQWRLPNYAGALTLNMNLAPPIAPNFPGEQLLFFRSNIPCAGGISDGVI DCLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHTGDYPL VVPSNGFFRFDSWVNQFYSLAPMGTGNGRRRIQ" gene 6715..7494 /gene="ORF3" CDS 6715..7494 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WOC94338.1" /translation="MAGAFIAGLAGDMLTSTVGSLANAGANAINQKIDFENNKQLQAA SFQHDKDMLLAQVNATKQLQSDMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG TRYWAPNSTKTTSYSGQFTSTPVHTPNLSSKPKTTSVKSPSPSSSSGSVYSLATQSTS LSGPSSGSSASSASTQSTKLSSTSSMSRTIDWVNQQRSLSPYMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac 61 aaggaaaaat cttcaagtga caacttgttt tctaacatga ctgtcacttt taagaaagcc 121 ctcggggcgc ggtctaaaca gccgcccccg ggagaagtaa aacaaacaca gaaaccacca 181 agaccaccga caccggaatt ggtgaagaga atacccccac ccccacccaa tggcgaggat 241 ggaccacaaa tagtgtataa ggtgggggag ggtgtgtctg ggctacccga cctaacaacc 301 gtgacgcggc ctgacacaca agacacagct tatagtgttc ccccgctaag ccagagagaa 361 gccggcgaag ctaaagaacc actgcctggt tccattcttg agatgtggga tggtgagatc 421 taccattatg ggctgtatgt tgaacgggga aatgtactcg gggtgcacaa accacctgct 481 gcagtaagcc tcgccaaaat tgaattaaca cctctgtctc tctactggag agtggtatac 541 actccccagt atctgatatc tccagacact cttaagggct tgagcggaga gactttccca 601 tacacggcct ttgataacaa ctgctatgcc ttctgttgtt gggtcctaga cctcaatgac 661 tcctggctca gcaggaggat gatccaaaga acaactggat ttttcagacc gtatcaggat 721 tggaacagaa agcctttgcc aaccatggat gagccgaaaa tcaagaaggc cgcaaatgct 781 gtcctttgtg ctctctcctc actctttacc agacccatta aggatatcat tggaaaactc 841 aggccattaa acatcctcaa cattctggca acatgtgact ggacttttgc aggcatagtg 901 gaatccatga tccttcttgc tgaactcttt ggggtgtact ggactccccc agacgtgtct 961 gcgatgattg ctcccttact cggtgactac gaaatgcaag gccccgaaga cctggccgtg 1021 gaacttgtgc ccgtggtaat gggaggaata ggcttggtgt taggattcac caaagaaaag 1081 gtcggcaaga tgctttcatc agctgcaacc acacttaggg cctgtaaaga cctaggttct 1141 tatggactgg agatactcaa attaatcatg aagtggttct tccccaagaa ggaagaggct 1201 agtgaactag ccatggtgag ggccattgag gatgcagtcc tggatttgga ggcgatagaa 1261 aataaccaca tgaccaccct cctcaaggac aaagatagcc tggccacata catgagaact 1321 cttgacttgg aggaagagaa agcaaggaaa ctatcaacca aatcggcatc acctgacatc 1381 gtgggcacaa taaacgcatt attggcaagg attgcagctg ctaggtcact ggtccacaag 1441 gccaaggagg agctctcgag cagacagagg cctgttgttg taatgttatc aggtagacca 1501 ggcataggaa agacccacct tgccagagag ctagccaaga aagttgcatc tacactgtca 1561 ggtgaccaaa gaattggatt ggtgcctaga aatggcgtcg atcactggga tgcctacaag 1621 ggagaaaggg tagtcctgtg ggatgactac ggtatgagca accctataca ggacgcattg 1681 aggctccaag aattggctga cacatgccca ctaaccctaa attgtgacag gattgaaaac 1741 aaaggaaaag tgttcgacag tgatgtcata gtcataacaa ccaaccttgc aaacccagca 1801 ccactagatt atgtcaactt tgaggcctgc tctagacgca tagacttctt ggtgtatgca 1861 gaagcacctg acatcgagaa ggctaagcgt gatttccctg gccaaccaga tatgtggaaa 1921 gaccactata gaccagactt cacacacatt aaacttcaac tggcaccaca aggaggtttt 1981 gacaagaatg gtaacacccc acatggcaaa ggtgtgatga agtcactgac ggttggttct 2041 ctgatcgcca gggcttctgg cttgctccac gaaagaatgg atgaatttga gctccagggc 2101 tctgacctgc caaccttcaa ctttgaccgt aacaaagtcg ccgccttcag gcaattggca 2161 gctgaaaata aatatggtct tatggacaca ctgagggtcg gcaaccaact gaagagtgtc 2221 aaaaccctag atgagctgaa gcaggccata aagaacatca gcatcaagaa gtgccaaata 2281 gtgtataatg gctgtacata caccatggaa tctgatggga ggggcaaggt tgtggttgaa 2341 aaggtgcaaa atgcaacagt ccaaaccaat aacgaactca caggagcact ccatcacctg 2401 aggtctgcaa ggataagata ttatgtcaaa tgtttccaag aagccattta ctccttactc 2461 caaatcgctg gtgcagcctt tgttacttca cgcatcgtga aacgcatgaa catctcaaat 2521 ctctggtcaa aaccacccgt cgaagagggt gatgaacctg aagacaaagg aggatgccct 2581 aaacccaggg atgaagatga cctcaccatt gactctaaag acataaaagt ggaagggaaa 2641 aagggcaaaa acaagtctgg tcggggcaag aaacacacag ccttctcatc caagggcctc 2701 agtgatgaag agtacgatga gtacaagaga atcagagagg agaggaatgg taaatactca 2761 atagaggaat acctccaaga tagagacaga tactatgaag aacttgccat tgctaaggcc 2821 attgaagagg acttctgtga agaggaggaa atcaaaatcc gccagagaat cttccgaccc 2881 accaggaagc aacgaaaaga ggagagggcc acgctcggac tcgtcacagg atcagaaatc 2941 aggaaaagaa acccagatga ctttaaacca aaaggaaaat tgtgggctga tgacaacagg 3001 agtgtggatt acaatgagag aatagatttt gaggcccccc cgagcgtttg gtctagaata 3061 gtcaattttg gcacaggttg gggattctgg gtttctccaa gtctctttat aacttcaaca 3121 catgtcatac caaaaggaat tactgaagcc tttggagtgc ccatgagtca aatccagatt 3181 cacaaatccg gagaattttg ccgcttgcgg tttccaaaac caattagacc agacgtgagt 3241 gggatgatct tggaagaggg tgcccctgaa ggcactgttg tgtctattct catcaaaagg 3301 acaacagggg agctgatgcc tcttgcagtc agaatgggaa cccatgccac aatgaaaatt 3361 caaggtagaa tggtgggtgg tcagatgggt atgcttctca ctggttcaaa tgccaaaagc 3421 atggatttgg gtacaacgcc aggtgattgc gggtgtccat acatctacaa aaggggcaat 3481 gacttcgtgg tcattggggt gcacactgca gcagcacgtg gaggcaacac agtcatatgt 3541 gccacacagg gaagtgaagg tgaggccact cttgaaggag gtgacaacaa gggcacctac 3601 tgtggagcac ccattctggg acctggcagt gcaccaaaac tgagcacaaa aacaaaattc 3661 tggagatctt ccaatacgcc gcttccccca ggcacctatg aaccagcgta ccttggtggg 3721 agagacccgc gtgtgaaggg aggcccgtct ctgcagcagg ttatgagaga tcaactcaaa 3781 ccctttacag aacccagagg gaagccacca aacccaaatg tcctggagtc agcaaagaag 3841 actattatca atgttttgga acaaaccatc gacccccctc agaagtggtc gtatgcccaa 3901 gcttgtgcat ctcttgacaa aacgacctcc agtggatacc cacaccacgc ccggaagaat 3961 gattattgga atggtgaaac attcacaggg aaactcgcag accaggcttc aaaggcaaat 4021 ctcatgtatg aagaaggcaa gcacatgcaa ccagttttca ctgcagcact caaagacgag 4081 cttgtaaaaa ctgataaaat ttatggtaaa atcaagaaaa gactcctgtg gggttctgac 4141 ctctccacca tgattcgttg cgctagagca ttcggtggtc tcatggacga gcttaaagca 4201 aactgcattg cactccctgt cagagttggt atgaatatga atgaagatgg tcccataata 4261 tttgagaaac actctaggta cagataccac tatgatgcag attactcccg ctgggattcc 4321 acacaacagc gggcagtgct ggaagcggca cttgaaatta tggtgagatt ttctgctgaa 4381 ccacagctgg cacaaatagt ggcagaggat ctgctgtcac caagtgtggt ggatgtgggc 4441 gacttcaaaa tcgcaatcaa tgaaggccta ccatctggtg tgccttgcac ctcacaatgg 4501 aactctattg cccactggct actcaccctg tgtgcccttt ctgaagtgac aggactaggc 4561 cccgacatca tacaagccaa ctccatatac tctttctatg gtgatgatga gattgtgagc 4621 acggacataa aattggaccc agagaaatta actgcaaaac tcaaagaata tggccttaaa 4681 cccacacggc ccgacaaaac tgagggaccg ctggtgatca gtgaggacct gaatgggtta 4741 acattcctac gccggacagt gacccgcgac ccagcaggct ggtttggaaa attggaccaa 4801 agttctatcc tcaggcagat ttattggaca aggggaccca accatgaaga tcccagtgaa 4861 accatgatac cacacgcaca gagacctgtg cagctcatgg cattattagg agaatcctcc 4921 ctacatggac cagcatttta cagcaaggtc agcaagctgg tcatatctga actcaaagag 4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcagatggat aaggttctcg 5041 gatctaagca catgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc 5101 gtcgaatgac gccgctccat ctaatgatgg tgctacgggc ctcgtcccag agatcaacac 5161 cgagaccctt cctttggaac cagtggctgg tgcatccctt gcagcagctg tcactggtca 5221 aaacaatata attgatccct ggattagaac aaattttgta caagcaccca atggggaatt 5281 tactgtatca cccagaaatt ccccaggaga gattcttcta aatttggaat taggtcctga 5341 tttaaatcct tatttggcac acctgtctag aatgtacaat ggctacgctg gcggagttga 5401 agtccaggtg ctcttggcgg ggaatgcgtt caccgctgga aagatccttt tcgccgctgt 5461 gccaccaaat tttccagttg aatttcttag tcctgctcaa ataactatgc ttccacattt 5521 gatagttgat gttagaactc ttgagccaat catgatacct cttcctgatg tgagaaatac 5581 cttcttccac tacaacaacc gtccctctga gcgcatgcgc ttagtggcta tgctgtatac 5641 tcctttaaga tccaatggtt caggtgatga tgtcttcaca gtctcgtgta gagttttaac 5701 caggcctacc ccagactttg agttcactta tttagtccca ccttcagttg aatctaaaac 5761 aaaacctttt tctctcccta tcctgactat ctctgagctg accaattcaa gattcccagc 5821 acctattgat tcactgttta ctgctcaaaa taatgtcctt aatgtccagt gtcaaaatgg 5881 ccggtgcact ctggatggag agctgcaagg aaccacccaa ttacttccaa ctggaatatg 5941 tgccttcagg ggaaagataa cagcagatgt agaaaatcag catgatgaca ggtggcactt 6001 gagtataaca aacctcaatg gaactccttt tgatccaaca gaagatgtcc cagccccatt 6061 aggcacccct gacttcacag gcctcctctt cggagttgca agccaaagaa atgtcggtgg 6121 gtcaggcaac aacaccacca gggcacatga ggctgtgata tcaacaacca gcacacaatt 6181 tgttccaaaa ttaggttctg tcaactttgg gagtcagagt gacgattttc aggtttctca 6241 gccaactaag ttcacaccag ttgggatcaa aattgaaact ggacaccctt ttgaacaatg 6301 gagattaccc aactatgctg gagcactgac acttaatatg aaccttgccc cacctatcgc 6361 tcccaacttt ccaggtgagc aattgctttt ctttaggtct aatatccctt gtgctggtgg 6421 tatcagtgac ggtgtcattg actgtctgct tcctcaggag tggatacaac acttctacca 6481 ggagtctgct ccttctcaat cagatgtggc tctaatcagg tacgtcaacc ctgacacggg 6541 tcgcactctc tttgaggcga agctccacag gaccggatac atcactgttg cccacaccgg 6601 cgattaccct cttgttgtcc cctctaatgg cttcttcaga tttgactctt gggtaaacca 6661 gttttactca cttgccccca tgggaactgg gaatgggcgt agaaggattc agtaatggca 6721 ggagctttta tagcaggtct tgcaggtgac atgctcacca gtactgttgg ctctctggcg 6781 aatgccggag caaacgccat aaaccaaaag atagactttg agaacaacaa acaattgcaa 6841 gctgcctctt tccaacatga caaagacatg ctcctcgcac aggtgaatgc aaccaaacaa 6901 ctgcagtcag acatgatcgc catcaagcag gggatattga ccgcgggcgg cttttcccct 6961 actgatgcag caaggggggc cgtgggggca cccatgacaa aagttctcga ttggtctggc 7021 actcgctatt gggcaccaaa ctccaccaag acaacaagct attcagggca attcacatca 7081 acgcctgtgc atacaccaaa tttgagtagc aagcccaaga ccacaagtgt caaatcccca 7141 tctccttctt cttcctctgg tagtgtttat agtctagcaa ctcagtcaac ttcactgtcc 7201 ggaccttctt caggttcctc tgcttcttct gcttcaacac aatcaacaaa attaagctca 7261 acttcttcta tgagtagaac aattgattgg gtcaatcaac aaagaagtct cagcccatac 7321 atgagtggag ctcttaacat ctcccatgtg acacctccat caagtagagc atctagttcg 7381 ggaacagtct caactgtccc caaagaagtt ttggactcct ggacatctgc atttaacaca 7441 cacagacagc cgctcttcgc acaccttagg gtaagggggg agtcacgtgt ttag //