Typing tool
|
Complete norovirus genomes
OR536456 | GII.14 | ||
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GII.P7 |
ORF1: 4..5097 ORF2: 5078..6688 ORF3: 6688..7482LOCUS OR536456 7501 bp RNA linear VRL 04-MAR-2024 DEFINITION Norovirus GII isolate Hu/NL/2020/GII.14/Rotterdam/I89S19_P18-d1170 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION OR536456 VERSION OR536456.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7501) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I., Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and de Graaf,M. TITLE Intra-host multi-lineage evolution of human Norovirus in immunocompromised individuals: Implications for treatment JOURNAL Unpublished REFERENCE 2 (bases 1 to 7501) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I., Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and de Graaf,M. TITLE Direct Submission JOURNAL Submitted (11-SEP-2023) Viroscience, Erasmus Medical Center, Dr. Molewaterplein 40, Rotterdam, Zuid-Holland 3015 GD, Netherlands COMMENT ##Assembly-Data-START## Assembly Method :: Spades v. 3.15.4; BWA-MEM v. 0.7.17 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7501 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/NL/2020/GII.14/Rotterdam/I89S19_P18-d1170" /isolation_source="feaces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Netherlands: Rotterdam" /collection_date="20-Feb-2020" /note="genotype: GII.14" gene 4..5097 /gene="ORF1" CDS 4..5097 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WMX17746.1" /translation="MKMASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNFKVGFKK MLGAVPKSTKAPSSDQQCPTVKIGPRTLVVPPEPPNGEDIVQFDVKSETVSGLPDLTT VQNEHENTPYTVPPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVGGGKTLGVHKPP AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGERFPYTAFSNNCYNFCCWVLE LNDTWLSRKSISRTTGFFKPYQTWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKAR KLSTKSSSPDIVGTINAILARIAAARSLLHRAKEEMFSRIRPVVVMISGRPGIGKTHM ARHLAKSIASTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMASPVKDALTLQEL ADTCPVTLNCDRIENKGKMFDSDVIIITTNLANPAPLDYVNFEACSRRVDFLVYAESP EIEKVKRDFPGQPDMWKDHFKPDHSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL TARVAGLVHERRDEFQLQGNDLQVYNFDTNKVSAFRKLAADNKYGIMETMKVGAALKN VKTLEDLKVALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDHASQTANEVCSAL LRLRQARARYYLSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETFESEK ETAQSRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRVFRPTRKQRKEERGVLGLVTG SDIRKRKPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL LITTTHVLPRGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYKYHYDADYSRWDST QQRSILTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQ WNSIAHWILTLSAMAEVTGLSPDVVQAHSCFSFYGDDEIVSTDINLDPAKLTQKLREY GLVPTRPDKTEGPLVITENLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM FRWMRFSDLSTWEGDRNLAPEGVNEDGVE" mat_peptide 4..1005 /gene="ORF1" /product="p48" mat_peptide 1006..2103 /gene="ORF1" /product="NTPase" mat_peptide 2104..2622 /gene="ORF1" /product="p22" mat_peptide 2623..3021 /gene="ORF1" /product="VPg" mat_peptide 3022..3564 /gene="ORF1" /product="Pro" mat_peptide 3565..5094 /gene="ORF1" /product="RdRp" gene 5078..6688 /gene="ORF2" CDS 5078..6688 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WMX17747.1" /translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLSRMYNGHAGG MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRSENIIVQPQNGRCTTDGELLGTT TLQSVSICNFRGTMQAKLNEQPRYQLQITNLDGSPIDPTDDMPAPLGTPDFQAMLYGV ASQRSPRDIATRAHEAQIDTAGDTFAPKIGQVRFQSGSDDFDLHDPTKFTPIGIKVDD QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFSDGAMDCLLP QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN GYFRFEAWVNPFYTLAPVGTGSGRRRIQ" gene 6688..7482 /gene="ORF3" CDS 6688..7482 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WMX17748.1" /translation="MAGAFLAGLAGDVAASSLSSLVGAGANAINQKVEYDFNRQLQEA SFKHDKDMLRAQVAATTGLQQAMIDIKREALTAGGFSPADAARGAVKAPMTKLLDWNG SRHWAPNSMRTTGYSGTFTSQGIKSSPHLSNQTPSAVKPTKTLPSISSSSSVYSSPST APSQSTQSTALSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNQMIGPFMNGALQTAYVT PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQT" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgctacc actgcctttg gcagccaaaa ctctgtcaat 61 gacagtacta acaccgcccc ttccaataaa gaagaggttg gtgcattctc caactttaaa 121 gttggattta agaaaatgct gggtgccgtg cccaagagca ccaaagcgcc cagcagtgac 181 caacaatgcc ccacagtcaa gattggaccc agaacattag tggtcccgcc tgaaccacca 241 aatggagaag atatcgtgca gtttgatgta aagtcagaaa ctgtgagtgg gctaccagac 301 ctgacaacgg tgcaaaatga acatgaaaac accccatata cagtccctcc actgagtgag 361 agggaacaca gaccagccgc tgagccactc cctggcacaa tattagagat gtgggacggt 421 gagttctacc actactccat ctatgtcggt ggtggtaaga ccctgggggt ccacaaaccc 481 cctgcggcta taagccttgc aacaatcgag ttaaccccca tatctctgta ctggcggcct 541 gtctacaccc ctaattactt ggtttgtcca gacacattga agggtcttgc tggtgagagg 601 ttcccctaca cggctttcag taacaactgt tacaacttct gctgctgggt gctggagctc 661 aacgacacgt ggcttagcag aaagtccata tctagaacca ctggcttctt taaaccgtac 721 cagacttgga acagaaagcc tctcccaact gtcgatgatg gaaagattaa gaaggtggcc 781 aatgcaattc tctgtgcgct tggttcgcta ttttcaaaac caatcaaaga cctattaggc 841 aagctcaaac cactgaatct gctgcacctg ctcgcttcgt gtgattggac gtttgcgggt 901 atagtggaga cggtcatctt aatggcggaa ctctttaacg tcttctggac cccgcctgac 961 gtctccaatt tcatagcctc cctgataggt gactttgagt tacaagggcc tgaggacttg 1021 gctgtggaac tagtccctgt ggttatgggt ggcataggca tggttcttgg cttcacggct 1081 gagaagatag gccgcatgtt gtcatctgct gcatcaactc tccgggcgtg caaagatctg 1141 ggaaactacg cccttgacat acttaaactg gtcatgaaat ggttcttccc caagaaagag 1201 gaaaaagctg agatggaaac cttaagggcg attgaggatg ctgtcttgga catggaggct 1261 ataggaaaca atcacctcac aactcttctt aaagacaagg atagcctcgc agccttcatg 1321 aagaccctag atctagaaga ggaaaaagcg aggaagctgt cgaccaaatc atcgtcacct 1381 gacatcgtcg gcaccatcaa cgccatactg gctagaattg ccgctgccag gtccctccta 1441 cacagggcca aagaggagat gttcagcaga atcagaccgg tggttgttat gatctcaggc 1501 aggcctggca ttggcaagac ccacatggca agacacctgg ccaagagcat cgctagcacc 1561 atgagtggtg accagagagt cggactcgtt ccgcggaacg gagtagacca ctgggatgca 1621 tacagagggg agagagtggt cttgtgggat gactatggca tggccagtcc tgtcaaagat 1681 gctttaaccc tgcaagaatt ggccgacact tgcccagtca ccttaaattg tgacaggatt 1741 gaaaacaaag ggaaaatgtt tgacagtgat gtcatcataa tcacaaccaa cttggccaac 1801 cccgcacccc tcgactatgt gaactttgag gcgtgctcca gaagagttga tttcctggtc 1861 tatgcagaat caccagaaat tgaaaaggtc aagagggatt tccctggtca acctgacatg 1921 tggaaagacc acttcaagcc agaccactcc catataaaac tgaccctagc cccccagggt 1981 gggtttgata agaatggtaa cactccgcat ggcaagggca ccatgcgatc tctaacccaa 2041 ggttctttaa ctgcaagggt tgcagggtta gtccatgaga ggagagatga gttccagctc 2101 caaggaaatg acctccaagt atacaatttt gacaccaaca aggtctctgc gtttaggaaa 2161 ctggctgcag acaacaagta tggaatcatg gagacaatga aggtgggcgc tgcgctcaag 2221 aatgtcaaaa ccttggaaga tctaaaggtt gctttgaggg atgtgaaatt caatgagtgt 2281 gagatcattt acaggagctc taaatataga gtctcttcca atggcaaggg ttcagtttct 2341 gttgacaagg ttgaggacca cgcatcccag accgcaaatg aagtgtgttc agcactcctg 2401 aggctcaggc aagcaagggc cagatattat ctcagctgct tccaggacct tgtctacacg 2461 ctcatacaag tcgccggggc gtcatttgtt gtcaacagaa tctccaagag gttttgctgg 2521 gaaagatggg ttaaaccaac cgagactcag gagacatttg agtccgagaa ggagaccgct 2581 caaagcaggt gggagattga acccaaagac acagaaccag aaggcaagaa gggtaaaaac 2641 aagaagggaa gaggcaagaa gcacacagcc ttctccagca agggtctgag tgatgaagaa 2701 tatgatgagt acaagagaat cagggaggaa agaaatggaa agtactccat tgaggagtac 2761 ctacaagacc gggaccgata ctacgaagaa gtggcagttg cccgagcaac agaggaagat 2821 ttctgtgaag aggaggaggc caagatcagg cagagggttt tccgcccaac gaggaaacaa 2881 aggaaagagg agagaggagt gctcggcctg gtcaccggct cagacattag aaagagaaaa 2941 ccagatgact ttcaaccaaa aggcaacttg tgggcagatg acaccagaag tgtggactat 3001 aatgagagac ttgactttga agctccccca agtgtttggt ctaggatagt cccattggga 3061 actggttggg gattctgggt ctcatccaat ctcctgatca ctacaacaca tgtcctgccc 3121 aggggactca aagaactctt cggagttgag gttaaacaaa ttcagatcca caaatctggc 3181 gagttttgta gattcagatt cccaagacca atcaggccag atgtcacagg gttggtgcta 3241 gaagagggtg ctccagaagg cactgtttgc tccatacttg tgaagagacc cacaggagag 3301 atgatcccct tggcggtgag gatgggcact catgcatcca tgaaaatcca gggcaggacc 3361 gtcggcggcc aaatgggaat gcttctcaca ggagcgaatg ccaagaacat ggaccttggc 3421 accggccctg gtgattgcgg ttgtccctac atctataaac gcggcaatga catagttgtt 3481 gcaggcgtcc ataccgcagc agcccgggga ggtaacactg tcatctgtgc tacccaagga 3541 caagatgggg aggcagtgct tgaagggaac gaaaatcttg gcacttactg tggtgccccg 3601 atcctaggtc ctggcaaggc acccaagctc agcacaaaaa ccaaattctg gcgctcatcg 3661 ccagacgcct taccacctgg cacatatgaa cctgcttacc taggaggcaa ggaccctaga 3721 gtggagaaag ggccctccct gcagcaggtc atgagagacc agctaaaacc cttcacagag 3781 cctagaggta aaccaccgag acctgcgatc ctagaagagg ctaagaagac agtgatgaat 3841 gttttggaac agaccatcga ccctgctaaa ccttggacct actctcaagc gtgtgcatca 3901 ctagataaaa ccacctccag tggcagcccc caccatgtta ggaagaatga ccactggaat 3961 ggagagtctt tcacaggccc ccttgcagac caagcatcta aagctaacct catgtatgaa 4021 caggccaaac atgtgcagcc cgtgtacacg gccgcactca aggatgaact tgttaagact 4081 gataaaatct acaaaaagat aaagaaaaga ctcctgtggg gatcagacct tggcacgatg 4141 atcaggtgcg ccagggcttt tggtggcctc atggatagca tgaaggcgag ctgcatagca 4201 cttccttgta gggtggggat gaacatgaat gaggatggtc caatcatctt tgacaagcac 4261 tccaagtaca aataccatta tgatgctgac tattcaaggt gggactcaac ccaacaaagg 4321 agtatcctaa cggccgctat ggaggtgatg gttcggttct ctgcagaacc agagctagca 4381 caagtagtag cagaggatct cttggcacct agtcaactgg atgttggtga ttttgtcgtc 4441 tcagtccagg agggtctacc atcgggtgtt ccatgcacat cacaatggaa ctcgatagcg 4501 cactggattc taaccttaag tgcaatggca gaagtgacag gcctttcacc agatgttgtc 4561 caggctcatt cctgtttctc cttctatggc gatgatgaga ttgtcagcac tgatatcaac 4621 cttgaccctg caaagctgac acagaaactc agggaatacg gccttgtccc cacccggcct 4681 gacaagactg agggtcccct tgtcataact gagaacctag ccggtctgac tttcctccgc 4741 aggtcgatag cacgggatcc agctgggtgg tttggaaaac tggaccaaga ctcaatcctc 4801 agacaactgt actggacaag agggcctaac catgaaaacc catacgaaag catggtcccc 4861 cactcccaac gagctacaca gcttatggcc ctccttggtg aggcctcact acatgggccc 4921 cagttttaca agaaggttag caaaatggtc attaatgaga tcaaaagtgg tggtctggaa 4981 ttttacgtgc ccagacaaga ggccatgttc aggtggatga gattctctga cctcagcacg 5041 tgggagggcg atcgcaatct tgctcccgag ggtgtgaatg aagatggcgt cgaatgacgc 5101 tactccatct gatgatggtg cagccggcct cgtaccagag atcaacaatg aggttatggc 5161 tcttgaaccc gttgctgggg cctccattgc agcccctgtg gtcgggcaac agaatataat 5221 agatccctgg attagaaata attttgtaca agcccctgct ggtgaattca cagtttcccc 5281 tagaaactct cctggagaac tcttacttga tttggaattg ggccctgaac tgaatcccta 5341 tcttgcacac ctgtccagga tgtacaatgg gcacgcaggg ggaatggaag tgcagatagt 5401 actggctggg aatgcgttca cagctggtaa gatcctattt gccgccatcc cacctagctt 5461 cccctatgaa aatttgtcac ctgctcaatt gactatgtgt ccccatgtaa tagtggatgt 5521 gagacaacta gaaccagtgc ttctgccaat gccagacata agaaatgttt tctatcacta 5581 taaccaaaac aatagtccca aactcaggct tgtagctatg ctttacactc ctttgagagc 5641 taacaactca ggtgatgacg tgttcacggt gtcttgccgc gttttgacac gtccctctcc 5701 agacttccag ttcacctttc tggtcccacc cacagttgaa tctaaaacta agaacttcac 5761 cctccctgtc cttagggtct cagagatgac aaactcaagg ttccccgttg ttttggatca 5821 aatgtacaca agcaggagtg aaaacatcat tgtccaaccc caaaacggca ggtgcacgac 5881 tgacggtgag ctgctcggca ccaccacctt gcaatctgtg tctatatgca attttagagg 5941 aacaatgcag gcaaagctga atgaacaacc acgataccaa ttacaaatca ccaatttgga 6001 tggctcaccc atagacccaa cagatgacat gcctgccccc cttggcacac cagattttca 6061 ggccatgttg tatggcgttg caagtcaacg ctcccccaga gacatcgcca ctagggcaca 6121 tgaagcacag attgacactg cgggtgacac tttcgccccg aaaattggcc aggtccgctt 6181 ccaatcaggc tctgatgatt ttgacctaca tgaccctaca aagttcacac ccattggtat 6241 caaagtggat gatcagcacc cctttagaca gtggtccctg ccaaactacg gtggtcacct 6301 tgccctgaat aatcatttag cccccgctgt gacaccactc ttccccggcg agcagatttt 6361 gttcttcagg tcacacattc caagcgccgg aggcttttca gacggtgcta tggactgctt 6421 gctgccccaa gagtggatag agcacttcta ccaggaggca gctcctgccc agtctgacat 6481 cgcactggtg aggttcatca accccgatac aggaagagtg ctccttgaag ctaagttgca 6541 caaacagggc ttcctcacag ttgcagcatc tggagaccac cccattgtga tgcccgctaa 6601 tggttatttt aggtttgaag cttgggtcaa ccccttctac actctcgccc ccgtgggaac 6661 tgggtctggg cgcagaagga ttcagtaatg gcaggagctt tccttgcagg tctggcaggt 6721 gacgttgcgg cttctagttt gagctcactc gtgggcgctg gagccaacgc catcaatcag 6781 aaggtggagt atgacttcaa cagacaactc caggaggctt ccttcaaaca tgataaggat 6841 atgctcagag cccaggttgc agcaacaaca ggcctccaac aggccatgat agacatcaag 6901 cgggaggcat tgaccgcagg cggcttttcc cccgctgatg ctgcaagagg tgcagtcaag 6961 gcgcccatga caaaactcct tgattggaat ggctctaggc attgggcacc caactccatg 7021 aggacaactg gctattcagg cacatttact tcccagggca tcaaaagttc cccccacctg 7081 tctaatcaaa ctccaagtgc tgtcaaaccc actaaaacct tgccatctat atctagttct 7141 tctagtgtat atagctctcc ttctactgcc ccctcgcaat caacacaatc aacagcgctg 7201 tctgcaggaa cagggtcgtc cagacctaac accgtgtcca caaagacctc cacactgtcg 7261 aggacaagtg actgggtcag ggatcaaaat cagatgattg gcccgttcat gaatggtgca 7321 cttcaaactg cttatgtcac tccaccatcg agcagggcct catcacaagg gacggtctcg 7381 accgtaccca aggctgtttt ggactcctgg actcctatgt tcaacaccca caggcagcct 7441 ctcttcgccc acttgcgtag gcgaggggag tcacagactt agtgaaaagg atgattaggg 7501 c //