Typing tool
|
Complete norovirus genomes
MW305734 | GII.17 | ||
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GII.P3 |
ORF1: 1..5076 ORF2: 5057..6682 ORF3: 6682..7461LOCUS MW305734 7499 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate DS284 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305734 VERSION MW305734.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7499) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Genome-wide analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7499) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Direct Submission JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993, USA COMMENT ##Assembly-Data-START## Assembly Method :: High-performance Integrated Virtual Environment (HIVE) v. 2 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7499 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="DS284" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Saudi Arabia" /collection_date="1990" /note="genotype: GII.17[GII.P3]" gene <1..5076 /gene="ORF1" CDS <1..5076 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QPJ59538.1" /translation="VAGKNINNDKEKSSSDSLFSNMTVTFKKALGARPKQPPPGETKQ TQKPPRPPTPELVKRIPPPPPNGEDEPKVVYRVGEGVSGLPDLTTVAQPDAQNTAYSV PPLSQREAGEAKEPLPGSILEMWDGEIYHYGLYVERGHILGVHKPPAAISLAKIELTP LSLYWRVVYTPQYLIAPDTLKNLSGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ RTTGFFRPYQDWNRKPLPTMDEPKIKKVANAVLCALSSLFTRPIKDIIGKLKPMNILN ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPV VMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL AMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV GTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTL SGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQ PDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERM DEFELQGPNLPTFNFDRNKIAAFRQLAAENKYGMVDTLRVGNQLKSVKTMDELKQAIK SITIKKCQIVYNGCTYTMESDGRGRVSVDKVQNTTVQTNNELSGALHHLRSARIRYYV KCFQEVVYSLLQIAGAAFVTSRIVRRMNISSLWSKPPVEESDEPEDKEGCPKPRDEDD LTIDSKDIKVEGKKGKNKSGRGKKHTAFSAKGLSDEEYDEYKRIREERNGKYSIEEYL QDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR NPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTH VIPKGITEAFGVPMNQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVASILIK RTTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK RGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLS TKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPS VLESAKKTIINVLEQVIDPPQKWSYAQACASLDKSTSSGHPHHVRKNDYWSGESFTGK LADQASKANLMYEEGKHMPPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMIRCAR AFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVL AAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAH WLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTR PDKTEGPLVVSEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTRGPNHEDPSET MIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRF SDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..966 /gene="ORF1" /product="p48" mat_peptide 967..2064 /gene="ORF1" /product="NTPase" mat_peptide 2065..2601 /gene="ORF1" /product="p22" mat_peptide 2602..3000 /gene="ORF1" /product="VPg" mat_peptide 3001..3543 /gene="ORF1" /product="Pro" mat_peptide 3544..5073 /gene="ORF1" /product="RdRp" gene 5057..6682 /gene="ORF2" CDS 5057..6682 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59539.1" /translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAAVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYNNRPSERMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTISELTNSRFPAPIDSLFTAQNNVLNVQCQNGRCTLDGELQGTT QLLPTGICSFRGKITANVEGSHDDKWHMSLTNLNGTPFDPTEDVPAPLGTPDFTGLLF GVASQRNVGGTANNTTRAHEAVISTTSTQFVPKLGSVNFGSESPDFQIGQPTRFTPVG IKIEDGHPFEQWKLPNYAGALTLNMNLAPPIAPNFPGEQLLFFRSNVPCAGGISDGVI DCLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHTGDYPL VVPSNGYFRFDSWVNQFYSLAPMGTGNGRRRIQ" gene 6682..7461 /gene="ORF3" CDS 6682..7461 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59540.1" /translation="MAGAFIAGLAGDMLTNAVGSLANAGANAITQKIDFENNKQLQTA SFQHDKDMLRAQVDATKQLQSEMIAIRQGVLTAGGFSPTDAARGAVGAPMTKVLDWSG TRYWAPNSTKTTSYSGQFTSTPVHTPNLSSKPKPTNVKTQPLSSSSGSVYSLSTQSTT LSGPSSGSSVSSASTQSTKLSSVSSMNRTADWVNQQRSLSPYMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV" ORIGIN 1 gttgctggca aaaacatcaa caacgacaag gaaaaatctt caagtgacag cttgttttca 61 aacatgactg ttacttttaa gaaagccctc ggggcgcggc ctaaacagcc gcccccgggg 121 gaaacaaaac aaacacaaaa accaccaaga ccaccaacac cggaattggt gaaaagaata 181 cccccacccc cacccaacgg cgaggatgaa cctaaggtgg tgtacagggt gggagagggt 241 gtgtccgggc tgcccgactt aacaaccgtg gcgcagcctg acgcacaaaa cacagcttat 301 agtgttcccc cacttagcca gagagaggca ggcgaagcta aagagccgct acctggatcc 361 attctggaaa tgtgggatgg tgagatctac cactatgggc tatacgttga gcggggacac 421 atacttggag tgcataaacc acctgctgca ataagcctcg ccaaaatcga attaacacca 481 ctgtctctct actggagagt ggtttacact ccccagtact tgatagcccc agacactctg 541 aagaacttga gtggagaatc attcccatat acggcctttg acaacaattg ttacgccttc 601 tgttgttggg tcttagatct caatgactct tggcttagca ggagaatgat tcaaaggaca 661 accggcttct tcaggccgta tcaagattgg aatagaaaac ccttgccaac catggatgag 721 ccaaaaatca agaaggtcgc gaatgctgtt ctgtgcgctc tctcctcact cttcactaga 781 cccattaagg acattattgg aaaactcaaa ccaatgaaca tcctcaatat attagcaact 841 tgtgactgga cttttgcagg catagtggaa tccctaattc ttcttgctga actctttggg 901 gtgttctgga cacccccaga tgtgtctgcg atgattgctc ccttactcgg tgactacgag 961 atgcaaggcc ccgaagacct ggccgtggaa ctcgtacctg tggtgatggg aggggtaggt 1021 ttggtgttgg gattcaccaa ggagaagatc ggcaagatgc tttcatcagc tgcatccacg 1081 cttagggcct gcaaagatct aggggcctat ggattggaga tactcaaatt agtcatgaag 1141 tggttcttcc ccaagaaaga agaggctaat gagttagcca tggtaagggc catcgaggat 1201 gcagtcttgg acttggaggc aatagaaaac aaccacatga ccactcttct caaggacaaa 1261 gacagtctgg ccacatacat gaggactctt gacttggagg aagagaaagc aaggaaactg 1321 tccaccaaat ctgcatcacc tgacattgta ggcacaataa atgcattatt ggcaaggatt 1381 gcagccgcta ggtcactagt ccataaggct aaggaggagc tttcaagcag acagaggcct 1441 gttgtcgtga tgatatcagg tagaccaggc ataggaaaga cccatctcgc cagagagcta 1501 gccaagaaag ttgcatcaac actgtcgggc gaccaaagaa ttggactggt gcctagaaac 1561 ggtgtagacc actgggatgc ctacaagggg gaaagagtag tgctatggga cgactatggc 1621 atgagcaacc ccatacagga tgcactgaga cttcaagagt tggccgatac ctgtcctcta 1681 actctaaact gtgatagaat tgaaaacaag ggaaaagtgt ttgacagtga tgccataatc 1741 ataacaacca accttgcaaa cccagcacca ctggattatg tcaattttga ggcttgctcc 1801 agacgcatag acttcttagt gtatgcagat gcacctgaca ttgagaaggc caagcgcgac 1861 ttccctggcc aaccagatat gtggaaagat cattacagac cagacttcac acacatcaaa 1921 cttcagctag caccacaggg aggttttgat aagaatggta acaccccaca tggtaaaggt 1981 gtagtgaagt ctctgacgat tgggtcattg atcgccaggg cttctggctt gctccacgag 2041 agaatggatg aattcgagct ccaaggccct aacctaccaa ctttcaattt cgaccgcaac 2101 aagatcgccg ccttcaggca attggcagct gaaaacaaat atggtatggt agacacactg 2161 agggtcggta atcaactgaa aagtgtcaag accatggatg agcttaaaca ggctataaag 2221 agtatcacta tcaagaagtg ccaaatagtg tacaatgggt gtacctacac catggagtcc 2281 gatggaagag gcagggtctc agttgacaag gtgcaaaata caacagtcca aaccaataat 2341 gagctttcag gagcgctgca ccacttaaga tctgcaagaa taaggtatta tgtcaaatgt 2401 ttccaggaag ttgtctattc tttgctacaa attgctggtg cagcctttgt cacctcacgc 2461 atcgtgaggc gcatgaacat ctcaagcctc tggtcgaagc cacctgttga agagagtgat 2521 gaacctgaag acaaagaagg gtgccccaaa cccagagatg aagatgatct caccatcgat 2581 tccaaggaca ttaaagtgga aggaaagaag ggcaagaaca aatccggccg aggtaagaaa 2641 cacacagcct tctcagctaa gggcctcagt gatgaagagt acgatgagta taagagaatc 2701 agagaagaaa ggaatggcaa atactcaata gaagagtacc tccaagacag ggacaggtac 2761 tatgaagaac ttgccatcgc taaggccact gaagaggact tctgtgaaga agaggagatc 2821 aaaatccgtc agagaatctt ccgccccacc aggaagcagc ggaaagagga aagggctaca 2881 cttgggctcg tcacagggtc agagatcaga aagaggaatc cagatgactt caaaccaaaa 2941 gggaaattgt gggctgatga taacaggagt gtggactaca acgaaaggat agattttgaa 3001 gcacccccca gcgtttggtc aagaatagtc aactttggca caggttgggg attctgggtt 3061 tctcctagcc tcttcataac ctcaacacac gtgataccaa aaggaatcac ggaggccttt 3121 ggagtaccca tgaaccaaat ccaaattcat aaatcagggg aattctgccg cttaaggttt 3181 ccaaaaccaa tcaggccaga cgtgagtggg atgatcttgg aagagggtgc ccccgaagga 3241 actgttgcgt ccatcctcat caaaagaaca acaggggaac tgatgccact tgcagccaga 3301 atgggaaccc acgccacaat gaaaatccaa ggaagaacgg tgggtggtca gatgggcatg 3361 ttgctcaccg gttcaaatgc caaaagcatg gacctaggca caacaccagg tgactgtggg 3421 tgcccctaca tatacaagag gggcaatgac ttcgtggtca ttggcgtgca cactgcagca 3481 gcacgtggag ggaacacagt catatgtgcc acacaaggaa gcgagggtga agccactctt 3541 gaaggaggtg acaacaaagg cacctattgt ggagccccca ttttgggacc aggcaatgca 3601 ccaaaattga gcacaaaaac gaaattctgg agatcttcca atgcaccgct accgccaggc 3661 acctatgaac cagcgtacct gggtgggaaa gacccacgtg tgaagggtgg cccatcccta 3721 caacaggtca tgagggatca acttaaacct tttacagaac ccagggggaa accgccaaac 3781 ccaagtgtcc tagaatcagc aaagaaaact atcatcaatg ttctagaaca ggtcatcgac 3841 cccccccaga agtggtctta tgcccaagct tgtgcatctc ttgacaaatc aacctccagt 3901 ggacacccac accacgttcg gaagaatgac tactggagcg gtgaatcctt cacaggaaaa 3961 cttgcagacc aggcatcaaa agcaaacctc atgtacgagg aaggcaaaca catgccgcca 4021 gtttacaccg cagcgctcaa ggacgagctg gtgaagactg acaaaattta tggtaaaatc 4081 aagaagaggc tcctgtgggg ttctgacctc gccaccatga ttcgatgcgc cagagcattt 4141 ggtggtctca tggatgaact caaagcaaat tgtatcacac ttcctatcag agttggcatg 4201 aacatgaatg aagatggtcc cataatattt gagaaacatt ccagatacag ataccactat 4261 gatgcagatt actcccgctg ggattccacg cagcagcggg cagtgttggc agcagcacta 4321 gaaatcatgg tgaggttctc tgctgaacca cagttagcac aaatagttgc tgaagatctg 4381 ctggcaccaa gcgtggttga tgtgggtgac ttcaaaatca ccattaatga aggcctacct 4441 tctggtgtgc cttgcacctc acaatggaac tccattgccc actggttgct tactctatgt 4501 gccctttctg aagtgacagg actaggccct gacatcatac aagccaattc catgtactct 4561 ttttatggtg atgatgagat tgtaagcact gacataaaat tggacccaga gaaactgact 4621 gcaaaactca aagagtatgg cctcaaaccc actcgccccg acaaaactga agggccgctg 4681 gtggtcagtg aagacctgaa tgggttgacg ttcctccgcc gaacagtcac ccgtgaccca 4741 gcaggttggt tcggaaagct ggatcaaagt tccatcctca ggcagctata ctggacaaga 4801 ggacctaacc atgaagaccc cagtgaaacc atgataccac atgcgcaaag acccgtgcag 4861 ctcatggcac tgctgggaga gtcctcccta catggaccct cattttacag caaggttagc 4921 aagctagtca tatctgaact taaggaggga ggaatggatt tttatgtgcc cagacaagag 4981 tcaatgttca gatggatgag gttctcagat ctaagcacat gggagggcga tcgcaatctg 5041 gctcccagtt ttgtgaatga agatggcgtc gaatgacgcc gctccatcta atgatggtgc 5101 tacgggcctc gtcccagaga tcaacaacga gacccttccc ctagaaccag tggctggtgc 5161 ggctattgct gcagctgtca ctggtcaaaa taatataatt gatccctgga ttagaacaaa 5221 ttttgtacaa gcacctaacg gggaattcac cgtttcacct aggaattccc caggagagat 5281 tcttctaaat ttggaattag gtcctgatct aaatccttat ttggcacacc tatccagaat 5341 gtacaatggc tatgctggtg gagtggaagt tcaggttctc ctggcgggga acgcgttcac 5401 tgctggaaag atcctcttcg ctgctgtgcc accaaatttc ccagttgaat ttctgagtcc 5461 tgctcaaatt actatgctcc cacacttgat agttgatgtt agaactcttg aaccaatcat 5521 gatacccctc cccgatgtga gaaacacctt cttccactac aacaaccggc cttctgagcg 5581 catgcgcttg gtagccatgc tgtacacacc tctgaggtcc aatggttcag gtgatgatgt 5641 tttcacagtt tcatgtagag tgctgactag acctacccca gattttgagt ttacttattt 5701 agttccacct tcagtagaat ctaaaacaaa acctttctct ctccctatac tgactatttc 5761 tgaattaact aactcaagat tcccagcacc tattgattca ttgttcactg ctcaaaacaa 5821 tgtcctcaat gtccaatgtc agaatggccg atgcacactg gatggtgaac tacaggggac 5881 cactcaactg ctcccaactg gcatatgctc ctttagagga aagataacag caaatgtgga 5941 gggcagccac gatgacaagt ggcatatgag tttgacaaac ctcaatggaa ccccatttga 6001 cccaacggag gatgtcccag ccccactagg tacccctgac ttcacaggtc tcctctttgg 6061 agtcgcaagc caaaggaacg tcggtgggac agccaacaac accaccaggg cacatgaggc 6121 tgtgatatca acaaccagca cacaatttgt gccaaaatta ggttctgtca actttgggag 6181 tgagagtccg gatttccaga ttggccagcc aaccagattt acaccagttg gaatcaaaat 6241 tgaagatggg catccttttg aacaatggaa gttaccaaac tatgctggag cactgaccct 6301 caacatgaac cttgccccac ccattgctcc caatttccca ggtgagcagt tgcttttctt 6361 cagatcaaat gttccttgtg ctggtggtat cagtgacggt gtcattgact gtctgctacc 6421 tcaggagtgg atacagcatt tctaccaaga atctgccccg tcccaatcag acgtggcgct 6481 gatcagatat gtcaaccctg acacgggccg cactctcttt gaggcgaagc ttcacaggac 6541 tggctacatc actgttgccc acactggtga ttatcccctt gttgtcccct ccaatggcta 6601 cttcagattt gattcttggg taaatcaatt ttactcactt gcccccatgg gaactgggaa 6661 tgggcgcaga aggattcagt aatggcagga gccttcatag caggtcttgc aggtgacatg 6721 ctcaccaacg ctgttggctc tctggcgaac gccggagcaa atgccataac tcaaaagata 6781 gattttgaaa acaacaaaca actgcagaca gcctccttcc aacatgacaa ggacatgctc 6841 cgcgcgcaag tggatgcaac caaacaactg caatcagaga tgatcgccat caggcagggg 6901 gttttgaccg cgggcggctt ttcccctact gatgcagcga gaggggctgt gggagcaccc 6961 atgactaaag ttcttgattg gtctggcacc cgttactggg caccaaattc taccaaaaca 7021 acaagctatt cggggcaatt cacatcaaca cctgtgcaca caccaaattt gagtagcaaa 7081 cccaaaccca caaacgttaa aacccaaccc ctttcttctt cttctggtag tgtttatagt 7141 ctttcaactc agtcaactac actgtccgga ccttcttcag gttcatctgt ttcctctgct 7201 tcaacacaat caacaaaatt aagttcagtt tcttctatga atagaacagc tgattgggtc 7261 aatcaacaaa gaagccttag cccttacatg agtggagctc tcaacatctc tcatgtaaca 7321 cctccatcaa gcagggcttc tagttcggga acagtctcga ctgtacccaa agaagttttg 7381 gactcctgga catctgcatt taacacacgc agacagccgc tcttcgcaca cctcagagtg 7441 aggggggagt cacgtgttta gtgaaaagaa ataattgatt tttaattagg cttaaaatt //