Typing tool
|
Complete norovirus genomes
OR700741 | GII.4 | ||
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GII.P4 Yerseke |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7512LOCUS OR700741 7512 bp RNA linear VRL 24-OCT-2023 DEFINITION Norovirus GII isolate Hu/US/2023/GII.4[P4]/CA-RGDS-11182 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION OR700741 VERSION OR700741.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7512) AUTHORS Pan,C.-Y., Hatada,A., Padilla,T., Wright,C. and Morales,C. TITLE Direct Submission JOURNAL Submitted (19-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..7512 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/US/2023/GII.4[P4]/CA-RGDS-11182" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA: CA" /collection_date="Apr-2023" /note="genotype: GII.4[P4]" gene 1..5100 /gene="ORF1" CDS 1..5100 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WOE94996.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGAKP KQPPPREKQQKPPRPSTPELVKCIPPPPPNGEDEVVVSYSVKDGVSGLPDLTTVRQPE ESNTAFSVPPLNLRENKDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAIS LAKIELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLNRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGIFWTPPDVSAMIAPLLGDYELQGPED IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEKNELAMVRAIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM SELKQALKNVSIKKCQIVYSGNTYILESDGKGNVKVDKVQSAAVQINNELAGALHHLR SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQLEDTEETASKDGC PKPKDDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEELAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGVKEFFGVSIKQIQIHKSGEFCRLRFPRPIRTDVTGMILEEGAPEG TVASLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGNAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDYW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMVRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYAYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVVSEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSKTMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 1..990 /gene="ORF1" /product="p48" mat_peptide 991..2088 /gene="ORF1" /product="NTPase" mat_peptide 2089..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..6703 /gene="ORF2" CDS 5081..6703 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WOE94997.1" /translation="MKMASSDASPSNGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGSVTHISGSRNWTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRSNGSTRGHTATVLTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRGTNNVHLAPAVAPTFPGEQLLFFRSTLPGCSGYPNLDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6703..7512 /gene="ORF3" CDS 6703..7512 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WOE94998.1" /translation="MAGALFAGMASDVLGSGLSSLINAGAGAINQKIDFDNNRKLQEA SFQFSSNLQQASFKHDQDMLQAQIEATKKLQQEMMRVKQSMLLEGGFSETDAARGAIN APMTKVLDWSGTRYWAPEARTTTYNAGRFSTPQSSGAPSGRANLRAATPARGSSSNTP SISSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHN ISFVTPPSSRSSSQGTVSTVPKEILDSWTSAFNTHRQPLFAHIRKRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc 121 ggggcgaagc ctaaacagcc tcccccgagg gaaaaacaac aaaaaccccc acgaccatcc 181 actccagaac tggtcaaatg tattccccct cccccaccca acggggagga tgaagtggtg 241 gtctcttaca gtgttaaaga tggtgtttct ggtctgcctg accttaccac cgttaggcag 301 ccagaagaat ctaacacggc ctttagtgtc cctccactca acctaaggga gaacaaagat 361 gccaaggagc cacttactgg aacaattctg gaaatgtggg acggggaaat ttaccattat 421 ggcctgtatg tggaccgagg tctcgtacta ggtgtacaca aaccaccagc tgccattagc 481 ctcgccaaga ttgagctagc accactttcc ttgtactgga gacctgtgta cactcctcag 541 tacctcatct caccggacac tctcaagaag ctgtccggag agacgttccc ctacacagcc 601 tttgacaaca actgttatgc cttttgctgc tgggtcctgg acctaaatga ctcatggctg 661 aacaggagaa tgatccagag aacaaccggt ttcttcagac cctaccaaga ctggaatagg 721 aaaccccttc ccaccatgga tgactccaaa ataaagaagg tagctaacat tttcctgtgt 781 gctctgtcct cactgttcac cagacccata aaggacataa tagggaagat aaggccactc 841 aacatcctca acatcctggc ctcatgtgat tggacttttg caggcatagt agagtccctg 901 atactcttgg cagaactctt tgggattttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac tcggtgatta cgagctgcaa ggacctgaag acattgcagt agagcttgtc 1021 cccgtggtga tgggggggat tggtttggtg ctaggattca ccaaagagaa gattgggaaa 1081 atgttatcat ctgctgcatc cacattaaga gcttgtaaag accttggtgc atatgggctg 1141 gagatcctaa agctggttat gaaatggttc ttcccgaaga aggaggagaa aaatgagctg 1201 gctatggtga gggctatcga ggatgcagtc ctggacctcg aggcaattga aaacaaccat 1261 ttgaccacct tgcttaagga caaagacagt ctggcaacct atatgaggac ccttgacctt 1321 gaggaggaga aagccaggaa actttcaacc aagtctgctt cacctgacat cgtgggcaca 1381 atcaacgccc tcctggcgag aatcgccgcc gcacgctctc tggtacaccg agcgaaggag 1441 gagctctcca gcagaccaag acctgtggtg ttgatgatct caggcaggcc gggaatagga 1501 aagacccatc tcgccaggga agtggctaag agaatcgcat cctccctcac aggggaccag 1561 cgtgtgggcc tcattccacg caacggcgtc gaccactggg atgcgtacaa aggggagagg 1621 gtcgtcctat gggacgacta tggaatgagc aaccctattc acgacgccct caggttgcaa 1681 gaactcgccg acacctgtcc cctcacccta aattgtgaca ggattgaaaa caaagggaag 1741 gtctttgaca gcgatgtcat cattatcacc accaacctgg ccaacccagc accactggac 1801 tatgtcaact ttgaagcatg ttcgaggcgc atcgacttcc tcgtgtatgc agaagcccct 1861 gaggtcgaaa aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc 1921 agtcctgatt tctcacacat aaagctaaca ttggccccac agggtggttt cgacaaaaac 1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccactggttc cctcattgcc 2041 cgggcatcag ggttactcca tgagagatta gacgaatttg aactacaggg cccagctctc 2101 accaccttca atttcgatcg caataaggtg cttgccttca gacagcttgc tgcagaaaac 2161 aagtatggat tgatggacac aatgagggtc gggaaacaac tcaaggatgt caaaaccatg 2221 tcagaactca aacaagcact caagaatgtc tcaatcaaga agtgccaaat agtgtatagt 2281 ggtaacacct acatacttga gtctgatggc aagggcaacg tgaaagttga caaagtccaa 2341 agcgccgctg tgcagatcaa caatgagctg gccggcgccc tgcaccactt gaggagcgcc 2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attccatcat tcaaattgct 2461 ggagctgcat tcgtcaccac gcgcattgcc aaacgcatga acatacaaaa cctatggtcc 2521 aaaccacaat tggaagacac agaggaaact gccagcaagg acgggtgccc aaaacccaag 2581 gatgatgagg agtttgtcgt ttcatccgac gacatcaaaa ctgagggcaa gaaggggaag 2641 aataagactg gccgtggcaa gaaacacaca gcattttcaa gcaaaggtct cagtgatgaa 2701 gagtacgatg agtacaagag gatcagggaa gaaaggaatg gcaagtactc catagaagag 2761 taccttcagg acagggacaa atactatgaa gaattggcca ttgccagggc gactgaggaa 2821 gacttctgcg aagaagagga ggccaagatc cggcaaagga tcttcaggcc aacaaggaaa 2881 caacgcaagg aggaaagagc ttctctcggc ctggtcacag gctctgaaat tagaaagagg 2941 aacccagaag acttcaagcc caagggtaaa ctgtgggctg acgacgacag gagtgtggac 3001 tacaatgaaa agctcagctt tgaggcccca ccaagcatct ggtcaagaat agtcaatttt 3061 ggttcaggtt ggggattctg ggtctcccct agtctgttta taacatcaac ccatgtcata 3121 ccccagggtg taaaagaatt ctttggagtc tccatcaaac aaatacagat acacaaatca 3181 ggcgagttct gccgcttgag gttcccaaga ccaatcagga ctgatgtgac gggcatgatc 3241 ttagaagaag gagcacctga gggcaccgtg gcctcattac tcatcaaaag acccactggg 3301 gaactcatgc ccctagcagc taggatgggg acccacgcca ccatgaagat tcaagggcgc 3361 accgttggag gccagatggg catgctacta acaggatcca acgccaagag catggatctg 3421 ggtaccacac caggtgattg tggctgcccc tacatctaca agagaggtaa tgactatgtg 3481 gtcattggag tccacacggc tgccgcacga gggggaaaca ccgtcatatg tgccacccag 3541 gggagtgaag gagaggctac gcttgagggt ggtgacaaca agggtacata ctgtggtgca 3601 ccaatcttag gcccagggaa tgctccaaca ctcagcacta agaccaaatt ctggagatca 3661 tccacagcat cgctgccacc tggtacatat gaaccagcct accttggtgg caaagacccc 3721 agagtcaagg gtggcccttc attgcagcaa gtcatgagag aacaattgaa accatttaca 3781 gagccaagag gcaagccacc aaaaccaagt gtattagaag ctgccaagaa gaccatcatc 3841 aatgtccttg aacaaacaat tgacccacct gagaaatggt cgttcgcaca agcctgtgcg 3901 tcccttgaca agaccacctc cagtggtcat ccgcatcacg tgcggaaaaa cgactactgg 3961 aacggggagt ccttcacagg taaattagca gaccaagctt ccaaggccaa tctaatgttt 4021 gaagaaggga agaacatgac cccagtctat acagctgcac tcaaagatga attggttaaa 4081 actgacaaaa tctatggcaa gatcaagaag aggctactct ggggttcgga cctggcaacc 4141 atggtccgat gtgctcgagc attcgggggc ttaatggatg aactcaaggc acactgtatc 4201 acgctcccta tcagagttgg tatgaacatg aacgaggatg gccccatcat cttcgagaaa 4261 cattccaggt acgcatacca ctatgatgct gattactccc gatgggactc aacacaacag 4321 agagccgtgt tggcagcagc tctagaaatc atggtcaaat tttcctcaga accacatcta 4381 gctcaagtag ttgcagagga tctcctttct cctagtgtag tggacgtggg cgatttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaattccatc 4501 gcccactggc tgctcactct ctgtgcactc tctgaagtca caaacctgtc ccctgacacc 4561 atacaggcca actccctctt ctctttctat ggtgatgatg aaattgttag cacagacata 4621 aaattggacc cagagaaact gacagcaaaa ctcagagagt atgggttaaa accaacccgc 4681 cctgataaaa ctgaaggacc ccttgtcgtt tctgaagacc tgaatggcct gacattcctg 4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggaaca aagttcaata 4801 ctcaggcaaa tgtactggac taggggcccc aaccatggag acccatctaa aacaatgatc 4861 ccacactccc aaaggcccat acaactgatg tccctactgg gggaggccgc tcttcacggc 4921 ccagcctttt acagcaaaat cagtaaattg gtcattgcag agctaaaaga aggtggcatg 4981 gatttttacg tgcccagaca agaaccgatg ttcagatgga tgagattctc agatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga 5101 cgccagccca tctaatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctttggag cccgtagttg gtgccgctat tgcggcaccc gttgcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagaat tcacagtgtc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc 5341 ctatctttcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aatcctcgca gggaatgcgt tcaccgcagg gaaaatcata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gccccagcca agtcactatg tttccccata taatagtaga 5521 tgttagacaa ttggaacccg tgttgatccc cttacccgat gttaggaaca atttctacca 5581 ctataaccaa tcaaatgatt ctaccattaa attgatagca atgttgtaca caccacttag 5641 ggctaacaat gccggggacg acgtcttcac agtctcttgc cgggttctca cgagaccgtc 5701 ccccgatttt gatttcatct ttctagtgcc gcccacagtt gaatcaagaa ctaagccatt 5761 ctctgtccca gtcttaaccg ttgaggagat gactaattca aggttcccca ttcctctgga 5821 aaagctgtac acaggtccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac 5881 gactgatggc gtgctcctag gtacaaccca actgtcccct gttaacatct gcaccttcag 5941 ggggagtgtc acccacatct caggtagccg caattggaca atgaatttgg cctcccaaaa 6001 ttggaacaat tatgatccaa cagaagaaat cccagcccct ttaggaactc cagatttcgt 6061 agggaaaatt caaggtgtgc tcacccaaac cacaaggtca aatggttcaa cccgtggtca 6121 cactgccaca gtgctcactg ggagcgccga cttttctcca aaactgggta gagttcaatt 6181 tgccactgac acagataatg actttgaaac taaccaaaac acaaagttca ccccagttgg 6241 cgtcatccag gacggtagca ccacccaccg aaatgaaccc caacaatggg tactcccaag 6301 ttattcaggc agaggcacta acaatgtaca tcttgccccc gctgtagccc ccaccttccc 6361 gggcgagcag ctcctcttct tcaggtctac cttgcccgga tgcagcgggt atcccaactt 6421 ggatttggac tgcctactcc cccaagaatg ggtgcagtac ttctaccagg aggcagcccc 6481 agcacaatct gatgtggctt tgttaagatt tgtgaatcca gatacaggta gggttttgtt 6541 tgagtgtaag ctccataaat caggctatgt cacagtggct cacactggtc aacatgattt 6601 ggtcatcccc cccaatggtt actttagatt tgattcctgg gtcaaccagt tctacacact 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcatta taatggctgg agctctcttt 6721 gctggaatgg catctgatgt ccttggctcc ggactcagtt ccctaatcaa tgctggagca 6781 ggagccatca accaaaagat tgattttgac aacaacagaa aattacaaga agcctccttc 6841 caatttagta gcaatttaca acaggcctcc ttcaaacatg atcaggacat gctccaagca 6901 caaattgagg ccaccaaaaa gttgcaacag gaaatgatga gagttaaaca atcaatgctc 6961 ctagagggtg gattttctga gacagatgca gcccgtgggg caatcaacgc ccccatgaca 7021 aaggtcttgg actggagcgg aacaagatac tgggcccctg aagctaggac tacaacatac 7081 aatgcaggcc gcttttccac cccccaatcc tcgggggcac catcaggaag agctaatctt 7141 agggctgcca cccccgctcg gggttcttct tctaatactc cttctatctc ttctactgct 7201 acttctgtgt attcaaatca aaccacatca acgagacttg gttctacagc tggttctggg 7261 accagtgtct cgagcctccc gtcaactgca aggactagga gttgggttga ggatcaaaac 7321 aggaatttgt cacctttcat gagaggggcc cacaacatct cgtttgtcac cccaccatca 7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaaatttt ggactcctgg 7441 actagtgctt tcaacacgca caggcagcct ctcttcgctc acattcgtaa gcgaggggag 7501 tcacgggtgt aa //