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Typing tool
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Complete norovirus genomes
PP658560 | GII.12 | ![]() |
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GII.P16 |
ORF1: 1..5100 ORF2: 5081..6688 ORF3: 6688..7467LOCUS PP658560 7501 bp RNA linear VRL 01-JUN-2024 DEFINITION Norovirus GII isolate PBH23490-STN nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION PP658560 VERSION PP658560.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7501) AUTHORS Doungngern,P., Pittayawong-anont,C., Kraipatanapong,S., Waikhruea,K., Menkoon,K., Rattanatumhi,K., Supataragul,A., Thippamom,N., Khunnawutmanotham,W., Hirunpatrawong,P., Wacharapluesadee,S., Sereewit,J., Sobolik,E.B., Roychoudhury,P., Greninger,A.L. and Putcharoen,O. TITLE Direct Submission JOURNAL Submitted (13-APR-2024) Virology, University of Washington, 850 Republican St, Seattle, WA 98109, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 2023; metaspades v. 2024 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7501 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="PBH23490-STN" /isolation_source="Rectal swab" /host="Homo sapiens" /db_xref="taxon:122929" /geo_loc_name="Thailand" /collection_date="2023-08-21" /note="genotype: GII" gene 1..5100 /gene="ORF1" CDS 1..5100 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WZF77181.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYDVKSGVSGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRIAAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQSESETKEE ALKPEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNERLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGNPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEGLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 1..996 /gene="ORF1" /product="p48" mat_peptide 997..2094 /gene="ORF1" /product="NTPase" mat_peptide 2095..2625 /gene="ORF1" /product="p22" mat_peptide 2626..3024 /gene="ORF1" /product="VPg" mat_peptide 3025..3567 /gene="ORF1" /product="Pro" mat_peptide 3568..5097 /gene="ORF1" /product="RdRp" gene 5081..6688 /gene="ORF2" CDS 5081..6688 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WZF77182.1" /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKLVFAAVPPHFPLENISPGQITMFPHVIIDVRTLEPVLLPLPD VRNSFFHYNQQNEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP TVESKTKPFTLPVLTIGELTNSRFPVPIDELYTSPNESLVVQPQNGRCALDGELQGTT QLLPTAICSFRGRINQKVSGENHVWNMQVTNINGTPFDPTEDVPAPLGTPDFSGKLFG VLSQRDHDNACRSHDAVIATDSTKFTPKLGAVQIGTWEQDDVHINQPTKFTPVGLFEN EGFNQWTLPNYSGALTLNMGLAPPVAPTFPGEQILFFRSHIPLKGGVADPVIDCLLPQ EWIQHLYQESAPSQTDVALIRFTNPDTGRVLFEAKLHRSGYITVANTGSRPIVVPANG YFRFDSWVNQFYSLAPMGTGNGRRRMQ" gene 6688..7467 /gene="ORF3" CDS 6688..7467 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WZF77183.1" /translation="MAGAFIAGLAGDIVTNSIGSLVNAGANAINQKVDFENNKQLQQA SFNHDKEMLQAQIQATKQLQADMIAIRQGVLTAGGFSPTDAARGAINAPMTQVLDWNG TRHWAPGATKTTAFSGGFTSASHARTVDLTKKTPATPAPTPVSRPSSIASTVSTRSTL ISGSSNSPSLARSSSSVSSQPTSPSSRTSEWVRSQNRALEPYMSGALRTAYVTPPSSR ASSNGTVSTVPKEVLDSWSSAFNTHRQPLFAHLRRRGESQV" ORIGIN 1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag 61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggctaggc ccaaacagcc tgccccgaga gacaaaccac aaaagccccc aagaccacca 181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa 241 ccagtcatta ggtatgatgt taagagcggg gtctctggcc tgcccgagct cacaacagtc 301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac 361 agggaggcca aggaaccgct aacaggggca atattagaga tgtgggatgg agagatatac 421 cactatggcc tatacgtgga gaaaggccta gtgttgggtg tgcacaaacc acctgcagcc 481 ataagtatgg caagagtgga attgacgccg ctatcattat actggcgtgt agtgtacact 541 ccccaatatc tcatctcccc tgaaactctt aggaggctca acggagaggc tttcccttat 601 accgcctttg acaacaactg ctacgccttt tgttgctggg tgttagacct caacgactca 661 tggcttagca ggagaatggt gcagagaaca acgggcttct tcagacctta ccaagagtgg 721 aacagaaaac ccctgcctac catggatgat tccaaaatta agaaagtggc aaatatattc 781 ctatgttcat tgtctacatt attcaccaga cccataaaag atctcatagg aaaaattaaa 841 ccattaaaca tattaaatat tctggcaacg tgcgactgga cgtttgccgg gatagtggag 901 tctctaatac tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ccttgctcgg ggactacgag ttgcagggac cagaggacct cgctgttgaa 1021 ctcgtgcctg tggtgatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt 1081 ggcaaaatgt tgtcttcggc agcatcaaca ctcagggctt gcaaagatct tggtgcctat 1141 ggcttagaga tactaaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat 1201 gagctagcca tggtgagggc catagaggat gctgtactag atcttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaagacactg 1321 gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt 1381 gggacaatca acgccctact ggcccgaata gcagcggcca ggtcattagt ccacagggcc 1441 aaggaagagc tatccagcag gataagacca gtagttgtta tgatatctgg caaaccagga 1501 ataggtaaaa ctcatctggc cagggaggtg gcaagaaagg tggcttccac tctcacaggg 1561 gaccagagag tcggactcat accaagaaac ggtgtggacc actgggacgc atacaaaggc 1621 gagagagtcg tgctgtggga cgattatggc atgagtaatc ccatccatga tgctcttcgc 1681 atacaagaat tggctgatac gtgtcccctc accttaaatt gtgacagaat tgaaaacaaa 1741 ggaaaagttt ttgacagtga agtcataata atcacaacaa accttgccaa cccggcccca 1801 cttgattatg tcaactttga ggcttgttcc aggagaattg acttcctggt gtacgctgag 1861 gcaccagaag tagagaaggc aaagcgggac ttccctggtc agccagatat gtggaaggat 1921 gccttcaagc cggacttttc acatatcaag ctgcaacttg cacctcaggg cggctttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggctctctg 2041 atcgctcgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggccct 2101 acaatcacca ccttcaattt cgaccggaac agaatcgcag cattcagaca actggctgca 2161 gaaaacaagt atggattagt ggacaccatg aaagttggca atcaattaaa aggagtgaaa 2221 accatggaag aactcaaaca agcaattagg aatgtgacca tcaagaggtg ccggatcatt 2281 tacggtggct ccacatatga ccttgaatct gacggcaagg gcaaagttct ggtggaaaag 2341 gtcaaaaaca cctctgtaca gaccaacaac gagttggccg gagccttgca ccatctcaaa 2401 cacgcccgaa tcaggtacta tgtcaaatgc gtgcaagaag cagtctattc catcatacaa 2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaattaga ccaaagtgaa tcagagacta aggaagaggc cctcaagcca 2581 gaagacgacg agttcgtcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa 2641 aataaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt gagtgatgag 2701 gagtatgacg agtataagag gataagagaa gagagaaatg ggaagtactc tatagaggag 2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa 2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc cactaggaaa 2881 caaagaaagg aagagagggc cacattaggg ctagtaacgg gttcagaaat cagaaagaga 2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac 3001 tacaatgaaa gactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt 3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtgatc 3121 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca 3181 ggtgaatttt gccggttcag gttcccaaaa ccaattagac cagatgttac aggaatgatc 3241 ttggaagaag gcgcgcctga gggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga 3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc 3361 atggttggcg ggcagatggg tatgttgctc actggatcaa atgctaaagg aatggatttg 3421 ggaacaactc ctggtgactg tggctgcccc tacatctata agagaggcaa cgactatata 3481 gtcattgggg tgcacactgc agcagcccgt ggtgggaata ccgtcatctg tgccacacag 3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca 3601 cccattctgg gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc cccttccacc agggacgtat gagcctgcct acctcggcgg ccgtgatccg 3721 cgtgtcaagg gtgggccctc cttgcagcag gtaatgagag atcagttgaa gccattcact 3781 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagctaaaca aaccatcatc 3841 aatgtcctcg aacaaaccct ggatcctcca caaaaatgga catacgcaca ggcgtgtgcc 3901 tcacttgaca aaaccacctc cagcgggaac ccccatcacg tccgaaagaa tgaattctgg 3961 aatggtgaga ccttcactgg aaaattggca gaccaagcat caaaagcaaa cctaatgttt 4021 gaggaaggga aacatatgac accagtgtat acagcagcac tcaaggacga gctagttaag 4081 actgagaaaa tctatggaaa gatcaagaag aggctactct ggggctctga cctgtccacc 4141 atgatccggt gtgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata 4201 tcactcccag tccgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa 4261 cattccagat ataagtacca ctatgatgca gactactccc gttgggattc aacacaacag 4321 agggcagtgc tggcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg 4381 gcacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtagg agactttaaa 4441 atcacaataa atgaagggct cccctctggt gttccatgca cttctcaatg gaactccatt 4501 gcacactggc tactaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 atacaggcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata 4621 aaattagacc ctgaacagtt aaccgccaaa ttgaaggagt acggcctgaa accaacccgc 4681 ccagacaaaa ccgagggacc cctgatcatc agtgaaggtt tggacggact cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggta aactggatca gagctccatt 4801 ttgaggcaga tgtactggac tagagggcca aatcatgaag accccaatga aacaatgata 4861 ccccattctc agagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga 4921 ccctctttct atagtaaaat cagcaaattg gtcataactg aactcaagga aggtgggatg 4981 gatttttacg tgccaagaca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc 5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga 5101 cgccgctcca tctaatgatg gtgcagccgg tctcgtacca gaggtcaaca atgagaccat 5161 ggcacttgaa ccggtggctg gggcttcgat agccgcccca ctcaccggcc aaaacaatgt 5221 tatagacccc tggattagat taaattttgt gcaggcccct aatggagagt ttacagtctc 5281 accccgcaac tcgcccgggg aagtcctact taatttagaa ttaggtcccg aactgaaccc 5341 atatttggca cacctttcta gaatgtataa tggttatgca ggtggagttg aggtgcaagt 5401 gctactggct gggaacgcgt tcacggctgg aaaattggta tttgctgcag tcccccccca 5461 ttttccatta gagaatataa gccctggtca aataaccatg ttccctcatg taattattga 5521 tgttaggact ttggagccag ttctattacc tctaccagat gtcagaaata gcttcttcca 5581 ttacaaccag caaaatgagc cgaggatgag gcttgttgca atgctttata cccctcttag 5641 atctaatggt tctggtgatg atgtgttcac cgtctcttgt agggtgctca ctcgaccctc 5701 tcctgacttt gattttaatt atttggtgcc cccaacagtt gaatctaaaa caaaaccatt 5761 cacgctccct gtcttgacca ttggggagtt aaccaactcc aggttccctg tgcctataga 5821 tgaactctac actagtccca atgagagttt ggtggttcaa ccccagaacg ggaggtgcgc 5881 gctggatggg gagttacagg gcactaccca gctccttccc acggcgattt gctcgttcag 5941 gggtcggatc aatcagaaag tgagtggaga gaatcatgtt tggaacatgc aagtcaccaa 6001 cattaacgga accccttttg atccaacaga ggatgttcca gcccctctgg gcacgccaga 6061 cttttctggc aagctctttg gcgtcctaag ccagagggac catgataatg cctgcaggag 6121 tcatgatgca gtgattgcaa ctgattctac caaattcacc ccaaaattgg gtgctgtaca 6181 aattggcaca tgggaacaag atgatgtgca cattaaccaa cctactaagt tcactccagt 6241 tggattgttt gagaatgaag gctttaatca gtggacactt cccaattatt ctggagcttt 6301 aacactcaat atggggttgg ccccccctgt ggcccccaca ttccctggtg agcaaatcct 6361 cttcttcagg tcccacattc cccttaaagg aggtgttgca gacccagtta ttgattgtct 6421 tctaccccaa gagtggatcc aacaccttta tcaggagtca gccccttcac aaacagatgt 6481 ggcactgatt aggtttacaa atccagacac agggcgtgtc ctatttgagg caaagttgca 6541 caggagtggc tacataacag tggccaatac tggtagcaga ccaattgtgg tgccagctaa 6601 tggttatttc agatttgact cttgggttaa tcagttttac tctcttgccc ccatgggaac 6661 tgggaacggg cgcagaagga tgcagtaatg gctggagctt tcatagcagg gcttgctggt 6721 gacatagtca ccaatagcat tggctcactc gtgaacgctg gggccaatgc aataaatcag 6781 aaagtagact ttgaaaacaa caagcaacta caacaggcat ctttcaacca tgacaaagaa 6841 atgctgcaag ctcaaattca ggccaccaaa caactacagg ctgatatgat tgcaatcaga 6901 cagggggtgt tgaccgcggg cggcttctcc cctactgatg cagcaagagg tgcaatcaac 6961 gcgcccatga ctcaggtctt ggattggaat gggaccagac attgggcccc cggagccacg 7021 aaaacaactg ctttctccgg tgggtttacc agtgcctctc atgccaggac cgttgacctg 7081 accaagaaga caccagccac gccagcccct acgcctgtct ctaggcctag ttctattgct 7141 tctactgttt ctacccgctc cactttgatt agcgggtctt ctaattctcc ttctttagcc 7201 aggagctctt ctagtgtttc ttcccaaccc acttccccat cttcccgaac tagtgagtgg 7261 gtacgcagtc aaaatagagc gctggagcct tatatgagtg gggcgctgcg tacagcctac 7321 gtgacgcctc catccagtag ggcttctagc aatggcacag tctcaaccgt gccaaaagag 7381 gttttggact cctggtcgtc tgcatttaat acacacagac agccgctgtt tgcccatctc 7441 cgtcggagag gggagtcaca agtttagtga aaagatggtc ttttctttct ttcctttgaa 7501 a //