Typing tool
|
Complete norovirus genomes
OR536447 | GII.14 | ||
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GII.P7 |
ORF1: 1..5076 ORF2: 5057..6667 ORF3: 6667..7409LOCUS OR536447 7409 bp RNA linear VRL 04-MAR-2024 DEFINITION Norovirus GII isolate Hu/NL/2017/GII.14/Rotterdam/I89S14_P18-d307 nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION OR536447 VERSION OR536447.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7409) 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multi-lineage evolution of human Norovirus in immunocompromised individuals: Implications for treatment JOURNAL Unpublished REFERENCE 2 (bases 1 to 7409) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,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..7409 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/NL/2017/GII.14/Rotterdam/I89S14_P18-d307" /isolation_source="feaces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Netherlands: Rotterdam" /collection_date="10-Oct-2017" /note="genotype: GII.14" gene <1..5076 /gene="ORF1" CDS <1..5076 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WMX17719.1" /translation="DATTAFGSQNSVNDSTNTAPSNREEVGAFSNIKVGLKKMLGAVP KSTKAPSSDQQCPTVKIGPRTLVVPPEPPNGEDVVQFDVKSETVSGLPDLTTVQNEHE NTPYTVPPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVSGGKALGVHKPPAAISLA TIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWL CRRSISRTSGFFKPYQTWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLK PLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLA VELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKK EEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKARKLSTKS SSPDIVGTINAILARIAAARSLLHRAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAK SIASTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPV TLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVK RDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAG LVHERRDEFQLQGSDLQIYNFDTNRVSAFRKLAADNKYGIMETMKVGAALKNVKTLED LKVALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDHASQTANEVSSALLRLRQA RARYYISCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETVESEKETAQSR WEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYL QDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKR KPDDFQPKGNLWADDTRGVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTH VLPRGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVK RPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYK RGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLS TKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPA ILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGP LADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCAR AFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYKYHYDADYSRWDSTQQRSVL SAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAH WILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPAKLTQKLREYGLVPTR PDKTEGPLVITENLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYES MVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRF SDLSTWEGDRNLAPEGVNEDGVE" mat_peptide <1..984 /gene="ORF1" /product="p48" mat_peptide 985..2082 /gene="ORF1" /product="NTPase" mat_peptide 2083..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..6667 /gene="ORF2" CDS 5057..6667 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WMX17720.1" /translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLSRMYNGHAGG MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT TLQSVSICNFRGTMQAKLNEQPRYQLQITNLDGSPIDPTDDMPAPLGTPDFQATLYGV ASQRSPRDNATRAHEAQIDTAGDTFAPKIGQVRFESSSDDFDLHDPTKFTPIGVKVDD QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFADGAMDCLLP QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN GYFRFEAWVNPFYTLAPVGTGSGRRRIQ" gene 6667..>7409 /gene="ORF3" CDS 6667..>7409 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WMX17721.1" /translation="MAGAFLAGLAGDVAASSLGSLVGAGANAINQKVEYDFNRQLQEA SFKHDKDMLRAQVAATAGLQQAMIDIKREALTAGGFSPADAARGSVRAPMTKILDWNG SRHWAPNSMKTTGYSGTFTSQGIKSSPHLSNQTPSAVKPTKTLPSISSSSSVYSSPST APSQSTQSTALSAGTGSSRPNTVSTKTSTLSRTSDWVRGQNEILGPFMSGALQTAYVT PPSSRASSQGTVSTVPKAVLDSWTPMFNTL" ORIGIN 1 gacgctacca ctgcctttgg cagccaaaac tctgtcaatg acagtactaa caccgcccct 61 tccaatagag aagaggttgg tgcattctcc aacattaaag ttggacttaa gaaaatgctg 121 ggtgccgtgc ccaagagcac caaagcgccc agcagtgacc aacaatgccc cacagtcaag 181 attggaccca gaacattagt ggtcccgcct gaaccaccaa atggagaaga tgtcgtgcag 241 tttgatgtaa agtcagaaac tgtgagtggg ctaccagatc tgacaacggt gcaaaatgaa 301 catgaaaaca ccccatatac agtcccccca ctgagtgaga gggaacacag accagccgct 361 gagccactcc ctggtacaat actagagatg tgggacggtg agttctacca ctactccatc 421 tatgtcagtg gtggtaaggc cctgggggtc cacaaacccc ctgcggctat aagtcttgca 481 acaatcgagt taacccccat atctctgtac tggcggcctg tctacacccc taactacttg 541 gtttgtccag acacattgaa gggtcttgct ggtgagaagt tcccctacac ggctttcagc 601 aacaactgtt acaacttctg ctgctgggtg ctggagctca acgacacgtg gctttgcaga 661 aggtccatat ctagaacctc tggcttcttt aaaccgtacc agacctggaa cagaaagcct 721 ctcccaactg tcgatgatgg aaagattaag aaggtggcca atgcaattct ctgtgcgctt 781 ggttcactat tttcaaaacc aatcaaagac ctattaggca agctcaaacc actgaatctg 841 ctgcacctgc tcgcttcatg tgattggacg tttgcgggta tagtggagac ggtcatctta 901 atggcggaac tctttaacgt cttctggacc ccgcctgacg tctccaattt catagcctcc 961 ctgataggtg actttgagtt acaggggcct gaggacttgg ctgtggaact agtccctgtg 1021 gttatgggtg gcataggcat ggttcttggc ttcacggctg agaagatagg ccgcatgttg 1081 tcatctgctg catcaactct ccgggcgtgc aaagatctgg gaaactacgc cctcgacata 1141 cttaaactgg tcatgaaatg gttcttccct aagaaagaag aaaaagctga gatggaaacc 1201 ttaagggcga ttgaggatgc tgtcttggac atggaggcta taggaaacaa tcacctcaca 1261 actcttctta aagacaagga tagcctcgca gccttcatga agaccctaga tctagaagag 1321 gaaaaagcga ggaagctgtc gaccaaatca tcgtcacctg acatcgtcgg caccatcaac 1381 gccatactgg ctagaattgc cgctgccagg tccctcctac acagggccaa agaagagatg 1441 ttcagcagaa tcagaccagt ggttgttatg atctcaggca ggcctggcat tggcaagacc 1501 cacatggcaa gacacctggc caagagcatc gctagcacca tgagtggtga ccagagagtc 1561 ggactcgttc cgcggaacgg agtagaccac tgggatgcat acagagggga gagagtggtc 1621 ttgtgggatg actatggcat gggcagccct gtcaaagatg ctctaaccct gcaagaattg 1681 gccgacactt gcccagtcac cctaaattgt gacaggattg aaaacaaagg gaagatgttt 1741 gacagtgatg tcattataat cacaactaac ttggtcaacc ccgcacccct cgactatgtg 1801 aactttgagg cgtgctccag aagagttgat ttcctggtct atgcagagtc accagaaatt 1861 gaaaaggtca agagggattt ccctggtcaa cctgacatgt ggaaagacca cttcaagcca 1921 gacttctccc atataaaact gaccctagcc ccccagggtg ggtttgataa gaatggtaac 1981 actccgcatg gcaagggcac catgcgatct ctaacccaag gttctttaac tgcaagagtt 2041 gcagggttag tccatgagag gagagatgag ttccagctcc aaggaagtga cctccaaata 2101 tacaattttg acaccaacag ggtctctgcg tttaggaaac tggctgcaga caacaagtat 2161 ggaatcatgg agacaatgaa agtgggcgct gcactcaaga atgtcaaaac cttggaagat 2221 ctaaaggttg ctttgaggga tgtgaaattc aatgagtgtg agatcattta caggagttct 2281 aaatatagag tctcttccaa tggcaagggt tcagtttctg ttgacaaggt tgaggaccac 2341 gcatcccaga ccgcaaatga agtgagttca gcactcctga ggctcaggca agcaagggcc 2401 agatattata tcagctgctt ccaggacctt gtctacacgc tcatacaagt cgccggggcg 2461 tcatttgttg tcaacagaat ctccaagagg ttttgctggg aaagatgggt taaaccaacc 2521 gagactcagg agacagttga gtccgagaag gagaccgctc aaagcaggtg ggagattgaa 2581 cccaaagata cagaaccaga aggcaagaag ggtaaaaaca agaagggaag aggcaagaag 2641 cacacagcct tctccagcaa gggtctgagt gatgaagaat atgatgagtt caagagaatc 2701 agggaggaaa gaaatggaaa gtactccatt gaggagtacc tacaagaccg ggaccgatac 2761 tacgaagaag tggcagtcgc ccgagcaaca gaggaagatt tctgtgaaga ggaggaggcc 2821 aagatcagac agagaatttt ccgcccaacg aagaaacaaa ggaaagagga gaggggagtg 2881 ctcggcctgg tcaccggctc agacattaga aagagaaaac cagatgactt tcaaccaaaa 2941 ggcaacttgt gggcagatga caccagaggt gtagactata atgagagact tgactttgag 3001 gctcccccaa gtgtttggtc taggatagtc ccattgggaa ctggttgggg tttctgggtc 3061 tcatccaatc tcctgatcac tacaacacat gtcctgccca ggggactcaa agaactcttc 3121 ggagttgagg ttaaacaaat tcagatccac aaatctggcg agttttgtag attcagattc 3181 ccaagaccaa tcaggccaga tgtcacaggg ttggtgctag aagagggtgc tccagaaggc 3241 actgtttgct ccatacttgt gaagagaccc acaggtgaga tgatcccctt ggcggtgagg 3301 atgggcactc atgcatccat gaaaatccag ggcaggaccg tcggcggcca aatgggaatg 3361 cttctcacag gagcgaatgc caagaacatg gaccttggca ccggccctgg tgattgcggt 3421 tgtccctaca tctataaacg cggcaatgac atagttgttg caggcgttca taccgcagca 3481 gcccggggag gtaacactgt catctgtgct acccaaggac aagatgggga ggcagtgctt 3541 gaagggaacg aaaatcttgg cacttactgt ggtgccccga tcctaggtcc tggcaaggca 3601 cccaagctca gcacaaaaac caaattctgg cgctcatcgc cagacgcctt accacctggc 3661 acatatgaac ctgcttacct aggaggcaag gaccctagag tagagaaagg gccctccctg 3721 cagcaggtca tgagagacca gctaaaaccc ttcacagagc ctaggggtaa accaccgaga 3781 cctgcgatcc tagaagaggc taagaagaca gtgatgaatg ttttggaaca gaccatcgac 3841 cctgctaaac cttggaccta ctctcaagca tgtgcatcac tagataaaac cacctccagt 3901 ggcagccccc accatgttag gaagaatgac cactggaatg gagagtcttt cacaggtccc 3961 cttgcagacc aagcatctaa agctaacctc atgtatgaac aggccaaaca tgtgcagccc 4021 gtgtacacgg ccgcactcaa ggatgaactt gttaagactg ataaaatcta caaaaagata 4081 aagaagagac tcctgtgggg atcagacctt ggcacgatgg tcaggtgcgc cagggctttt 4141 ggtggcctca tggatagcat gaaggcgagc tgcatagccc ttccttgtag ggtgggaatg 4201 aacatgaatg aggatggtcc aatcatcttt gacaagcact ccaagtacaa ataccattat 4261 gatgctgact attcaaggtg ggactcaacc caacaaagga gtgtcctatc tgccgctatg 4321 gaggtgatgg ttcggttctc tgcagaacca gagctagcac aagtagtagc agaggatctc 4381 ttggcaccta gtcaactgga tgttggtgat tttgtcatct cagtccagga gggtctacca 4441 tcgggggttc catgcacatc acaatggaac tcgatagcgc actggatcct aaccttaagt 4501 gcaatggcag aagtgtcagg cctttcacca gatgttgtcc aggctcattc ctgtttctcc 4561 ttctatggcg atgatgagat tgtcagcact gatatcaacc ttgaccctgc aaaactgaca 4621 cagaaactca gggaatacgg ccttgtcccc acccggcctg acaagactga gggtcccctt 4681 gtcataactg agaacctagc cggtctgact ttcctccgca ggtcgatagc acgagatcca 4741 gctgggtggt ttggaaaact ggaccaagac tcaattctca gacaattgta ctggacaaga 4801 gggcctaacc atgaaaaccc atacgaaagc atggtccccc actcccaacg agctacacag 4861 cttatggccc tccttggtga ggcctcacta catgggcccc agttttacaa gaaggttagc 4921 aaaatggtca ttaatgagat caaaagtggt ggtctggaat tttacgtgcc cagacaagag 4981 gccatgttca ggtggatgag attctctgac ctcagcacgt gggagggcga tcgcaatctt 5041 gctcccgagg gtgtgaatga agatggcgtc gaatgacgct actccatctg atgatggtgc 5101 agccggcctc gtaccagaga tcaacaatga ggttatggct cttgaacccg tcgctggggc 5161 ctccattgca gcccctgtag tcgggcaaca gaatataata gatccctgga ttagaaataa 5221 ctttgtacaa gcccctgctg gtgaattcac agtttcccct agaaactctc ctggagaact 5281 cttacttgat ttagaattgg gccctgaact gaatccctat cttgcacacc tgtccaggat 5341 gtacaatggg cacgcagggg gaatggaagt gcagatagta ctggctggga atgcgttcac 5401 agctggtaaa atcctatttg ccgccatccc acctagcttc ccctatgaaa atttgtcacc 5461 tgctcaattg actatgtgtc cccatgtaat agtggatgtg agacaactag aaccagtgct 5521 tctgccaatg ccagacataa gaaatgtttt ctatcactat aaccaaaaca atagtcccaa 5581 actcaggctt gtagctatgc tttacactcc tttgagagct aacaactcag gtgatgacgt 5641 gttcacggtg tcttgccgcg ttttgacacg tccctctcca gacttccagt tcacctttct 5701 ggtcccaccc acagttgaat ctaaaactaa gaacttcacc ctccctgtcc ttagggtctc 5761 agagatgaca aactcaaggt tccccgttgt tttggaccaa atgtacacaa gcaggaatga 5821 aaacatcatt gtccaacccc aaaacggcag gtgcacgact gacggtgagc tgctcggcac 5881 caccaccttg cagtctgtgt ctatatgcaa ttttagagga acaatgcagg caaagctgaa 5941 tgaacaacca cgataccaat tacaaatcac caatttggat ggctcaccca tagacccaac 6001 agatgacatg cctgcccccc ttggcacacc agatttccag gccacgttgt atggcgttgc 6061 aagtcaacgc tcccccagag acaacgccac tagggcacat gaagcacaga ttgacactgc 6121 gggtgacact ttcgccccga aaatcggcca ggtccgcttc gaatcaagct ctgatgattt 6181 tgacctacat gaccctacaa agttcacacc cattggtgtc aaagtggatg atcagcaccc 6241 ctttagacag tggtccctgc caaactatgg tggtcacctt gccctgaata atcatttagc 6301 ccccgctgtg acaccactct tccctggcga gcagattttg ttcttcagat cacacattcc 6361 aagcgccgga ggttttgcag acggtgctat ggactgcttg ctgccccaag agtggataga 6421 gcacttctac caggaggcag ctcctgccca gtctgacatc gcactggtga ggttcatcaa 6481 ccccgataca ggaagagtgc tccttgaagc taagttgcac aaacagggct tccttacagt 6541 tgcagcatct ggagaccacc ccattgtgat gcccgctaat ggttatttta ggtttgaagc 6601 ttgggtcaac cccttctaca ctctcgcccc cgtgggaact gggtctgggc gcagaaggat 6661 tcaataatgg caggagcttt ccttgcaggc ttggcaggtg acgttgcggc ttccagcttg 6721 ggctcacttg tgggcgccgg agccaacgcc atcaatcaga aggtggagta tgacttcaac 6781 agacaactcc aggaggcttc cttcaaacat gataaggata tgctcagagc ccaggttgca 6841 gcaacagcag gccttcaaca ggccatgata gacatcaagc gggaggcatt gaccgcaggc 6901 ggcttttccc ccgctgatgc tgcaagaggt tcagtcaggg cgcctatgac aaaaatcctt 6961 gattggaatg gctctaggca ttgggcaccc aactccatga agacaactgg ctattcaggc 7021 acatttactt cccagggcat caaaagttcc ccccacctgt ctaaccaaac tccaagtgct 7081 gttaaaccca ctaaaacctt gccatctata tctagttctt ctagtgtata tagctctcct 7141 tctactgccc cctcgcaatc aacacaatca acagcgctgt ctgcaggaac agggtcgtcc 7201 agacctaaca ccgtgtccac aaagacctcc acactgtcga ggacaagtga ctgggtcaga 7261 ggtcaaaatg agatacttgg cccgttcatg agtggtgcac ttcaaactgc ttatgttact 7321 ccaccatcga gcagggcctc atcacaaggg acggtctcga ccgtacccaa ggctgttttg 7381 gactcctgga ctcctatgtt caacaccct //