Typing tool
|
Complete norovirus genomes
OR536464 | GII.14 | ||
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GII.P7 |
ORF1: 1..5026 ORF2: 5007..6617 ORF3: 6617..7411LOCUS OR536464 7431 bp RNA linear VRL 04-MAR-2024 DEFINITION Norovirus GII isolate Hu/NL/2021/GII.14/Rotterdam/I129S34_P18-d1815 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION OR536464 VERSION OR536464.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7431) 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multi-lineage evolution of human Norovirus in immunocompromised individuals: Implications for treatment JOURNAL Unpublished REFERENCE 2 (bases 1 to 7431) AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A., Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,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..7431 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/NL/2021/GII.14/Rotterdam/I129S34_P18-d1815" /isolation_source="feaces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Netherlands: Rotterdam" /collection_date="26-Nov-2021" /note="genotype: GII.14" gene <1..5026 /gene="ORF1" CDS <1..5026 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="WMX17770.1" /translation="AAPSNKEEVGAFSNFKVGFKKMLGAVPKSTKAPSNDQQCPTVKI GPRTLVVPPEPPNGEDIVQFDAKSETVSGLPDLTTVQNEHENTPYTVPPLSEREHRPA AEPLPGTILEMWDGEFYHYSIYVGGGKTLGVHKPPAAISLATIELTPISLYWRPVYTP NYLICPDTLKGLAGERFPYTAFSNNCYNFCCWVLELNDTWLSRKSISRTTGFFKPYQT WNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLHLLASCDWTFAG IVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVPVVMGGIGMVLGF TAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIEDAVL DMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKARKLSTKSSSPDIVGTINAILARIA AARSLLHRAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIAGTMSGDQRVGLVPR NGVDHWDAYRGERVVLWDDYGMASPVKDALTLQELADTCPVTLNCDRIENKGKMFDSD VIIITTNLANPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPGQPDMWKDHFKPD HSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERRDEFQLQGNDLQ VYNFDTNKVSAFRKLAADNKYGIMETMKVGAALKNVKTLEDLKAALRDVKFNECEIIY RSSKYRVSSNGKGSVSVDKVEDHASQTANEVCSALLRLRQARARYYISCFQDLVYTLI QVAGASFVVNRISKRFCWERWVKPTEAQETFEPEKETAQSRWEIEPKDAEPEGKKGKN KKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAVARATE EDFCEEEEAKIRQRVFRPTRKQRKEERGVLGLVTGSDIRKRKPDDFQPKGNLWADDTR GVDYNERIDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPRGLKELFGVEVKQI QIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGEMIPLAVRMGTHA SMRIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIIVAGVHTAAARG GNTVICATQGQDGEAVLEGNESLGTYCGAPILGPGKAPKLSTKTKFWRSSPDALPPGT YEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAILEEAKKTVMNVLEQTI DPAKPWTYSQACASLDKTTSSGSPHHVRKNDYWNGESFTGPLADQASKANLMYEQAKH VQPMYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLMDSMKASCIALP CRVGMNMNEDGPIIFDKHSKYRFHYDADYSRWDSTQQRSILTAAMEVMVRFSAEPELA QVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQWNSIAHWILTLSAMAEVSGLSPD VVQAHSCFSFYGDDEIVSTDINIDPAKLTQKLREYGLVPTRPDKTEGPLVITENLAGL TFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQRATQLMALLGE ASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRNLAPEGV NEDGVE" mat_peptide <1..934 /gene="ORF1" /product="p48" mat_peptide 935..2032 /gene="ORF1" /product="NTPase" mat_peptide 2033..2551 /gene="ORF1" /product="p22" mat_peptide 2552..2950 /gene="ORF1" /product="VPg" mat_peptide 2951..3493 /gene="ORF1" /product="Pro" mat_peptide 3494..5023 /gene="ORF1" /product="RdRp" gene 5007..6617 /gene="ORF2" CDS 5007..6617 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WMX17771.1" /translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ QNVIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLSHLSRMYNGHAGG MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP TVESKTKNFTLPVLRVSEMTNSRFPAVLDQMYTSRSENIIVQPQNGRCTLDGELLGTT TLQSVSICSFRGTMQAKLNGQPRYQLQITNLDGSPIDPTDDMPAPLGTPDFRAMLYGV ASQRSPADNATRAHEAQIDTAGDTFAPKIGQVRFESGSDDFDLRDPTKFTPIGIKVDD QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFTDGAMDCLLP QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN GYFRFEAWVNPFYTLAPVGTGSGRRRIQ" gene 6617..7411 /gene="ORF3" CDS 6617..7411 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WMX17772.1" /translation="MAGAFLAGLAGDVAASSLSSLVGAGANAINQKVEYDFNRQLQEA SFKHDKDMLRAQVAATTGLQQAMIDIKREALTAGGFSPADAARGSVKAPMTTLLDWNG SRHWAPNSMRTTGYSGTFTSQGIRSSPHLSNQTPGAVKPTKTLPSISSSSSVYSSPST APSQSTQSTTLSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNQMIGPFMNGALQTAYVT PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHMRRRGESQT" ORIGIN 1 cgccgcccct tccaataaag aagaggttgg tgcattctcc aactttaaag ttggatttaa 61 gaaaatgctg ggtgccgtgc ccaagagcac caaagcgccc agcaatgacc aacaatgccc 121 cacagtcaag attggaccta gaacattagt ggtcccgcct gaaccaccaa atggagaaga 181 tatcgtgcag tttgatgcaa agtcagaaac tgtgagtggg ctaccagacc tgacaacggt 241 gcaaaatgaa catgaaaaca ccccatatac ggtccctcca ctgagtgaga gggaacacag 301 accagccgct gagccactcc ctggcacaat attagagatg tgggacggtg agttctacca 361 ctactccatc tatgtcggtg gtggtaagac cctgggggtc cacaaacccc ctgcggctat 421 aagccttgca acaatcgagc taacccccat atctctgtac tggcggcctg tctacacccc 481 taattacttg atttgtccag acacattgaa gggtcttgct ggtgagagat tcccctacac 541 ggctttcagt aacaactgtt acaacttctg ctgctgggtg ctggagctca atgacacgtg 601 gcttagcaga aagtccatat ctagaaccac tggcttcttt aaaccgtacc agacttggaa 661 cagaaagcct ctcccaactg tcgatgatgg aaagattaag aaggtggcca atgcaatcct 721 ctgtgcgctt ggttcgctgt tttcaaaacc aatcaaagac ttattaggta agctcaaacc 781 actgaatctg ctgcacttgc tcgcttcgtg tgattggacg tttgcgggta tagtggagac 841 ggtcatctta atggcggagc tcttcaacgt cttttggacc ccgcctgacg tctccaattt 901 catagcctcc ctgataggtg actttgagtt acaagggcct gaggatttgg ctgtggaact 961 agtccctgtg gttatgggtg gcataggcat ggttcttggc ttcacggctg agaagatagg 1021 ccgcatgttg tcatctgctg catcaactct ccgggcgtgc aaagatctgg gaaactacgc 1081 ccttgacata ctcaaactgg tcatgaaatg gttcttcccc aagaaagagg aaaaagctga 1141 gatggaaacc ttaagagcga ttgaggatgc tgtcttggac atggaggcta taggaaacaa 1201 tcacctcaca actcttctta aagataagga tagcctcgca gccttcatga agactctgga 1261 tctagaagag gaaaaagcga ggaagctgtc gaccaaatca tcgtcacctg acatcgtcgg 1321 caccatcaac gccatactgg ctagaatcgc cgctgccagg tccctcctac acagggccaa 1381 agaggagatg ttcagcagaa tcagaccagt ggttgttatg atctcaggca ggcctggcat 1441 tggcaagacc cacatggcaa gacacctggc caagagcatc gctggcacca tgagtggtga 1501 ccagagagtc ggactcgttc cgcggaacgg agtggaccac tgggacgcat acagagggga 1561 gagagtggtc ttgtgggacg actatggcat ggccagtcct gtcaaagatg ctttaaccct 1621 gcaagaattg gccgacactt gcccagtcac cttaaattgt gacaggattg aaaacaaagg 1681 aaaaatgttt gacagtgatg tcatcataat cacaaccaac ttggccaacc ccgcacccct 1741 cgactatgtg aactttgagg cgtgctccag aagagttgat ttcctggtct atgcagaatc 1801 accagaaatt gaaaaggtca agagggattt ccctggacaa cctgacatgt ggaaagacca 1861 cttcaagcca gaccactccc atataaaact gaccctagcc ccccagggtg ggtttgataa 1921 aaatggtaac actccgcatg gcaagggcac catgcgatct ctaacccaag gttctttaac 1981 tgcaagggtt gcagggttag tccatgagag gagagatgag ttccagctcc aaggaaatga 2041 cctccaagta tacaattttg acaccaacaa ggtctctgcg tttaggaaac tggctgcaga 2101 caacaagtat ggaatcatgg agacaatgaa ggtgggcgct gcgctcaaga atgtcaagac 2161 cttggaagat ctaaaggctg ctttgaggga tgtgaaattc aatgagtgtg agatcattta 2221 caggagctct aaatacagag tctcttccaa tggcaagggc tcagtttctg ttgataaggt 2281 tgaggaccac gcatcccaga ccgcaaatga agtgtgctca gcactcctga ggctcaggca 2341 agcgagggcc agatattata tcagctgctt ccaggacctt gtctacacgc tcatacaagt 2401 cgccggggca tcatttgttg tcaacagaat ctccaagagg ttttgctggg aaagatgggt 2461 taaaccaacc gaggctcagg agacatttga gcccgagaag gagaccgcgc aaagcaggtg 2521 ggagattgaa cccaaagatg cagaaccaga aggcaagaag ggtaaaaaca agaagggaag 2581 aggcaagaag cacacagcct tctccagcaa gggtctgagt gatgaagaat atgatgagta 2641 caagagaatc agggaggaaa ggaatggaaa gtactctatt gaggagtacc tacaagaccg 2701 ggaccgatac tacgaagaag tggcagttgc ccgagcaaca gaggaagact tctgtgaaga 2761 ggaggaggcc aagatcagac agagggtttt ccgcccaaca aggaaacaaa ggaaagagga 2821 gagaggagtg ctcggcctgg tcaccggctc agacattaga aagaggaaac cagatgactt 2881 tcaaccaaaa ggcaacttgt gggcagatga caccagaggt gtggactata atgagagaat 2941 tgactttgaa gctcccccaa gtgtttggtc tagaatagtc ccattgggaa ctggttgggg 3001 attctgggtc tcatccaatc ttctgatcac tacaacacat gtcctgccta ggggactcaa 3061 agaactcttc ggagttgagg ttaaacaaat tcagatccac aaatctggcg agttttgtag 3121 gttcagattc ccaagaccaa tcaggccaga tgtcacaggg ttggtgctag aagagggtgc 3181 tccagaaggc actgtttgct ccatacttgt aaagagacct acaggagaga tgatccccct 3241 ggcggtgagg atgggcactc atgcatccat gagaatccag ggcaggaccg tcggcggcca 3301 aatgggaatg cttctcacag gagcgaacgc caagaacatg gaccttggca ccggccctgg 3361 tgactgcggt tgcccctaca tctacaaacg cggcaatgac ataatcgttg caggcgtcca 3421 taccgcagca gcccggggag gtaacactgt catctgtgct acccaaggac aagatgggga 3481 ggcagtgctt gaagggaacg aaagtcttgg cacttactgt ggtgccccaa tcttaggccc 3541 tggcaaggca cccaagctca gcacaaagac caaattctgg cgctcatcgc cagacgcctt 3601 accacctggc acatatgaac ctgcttacct aggaggcaag gaccctagag tggagaaagg 3661 gccctccctg cagcaggtca tgagagacca gctaaaaccc ttcacggagc ctaggggcaa 3721 accaccgaga cctgcaatcc tagaagaggc taagaagaca gtgatgaatg tcctggagca 3781 gaccatcgac cctgctaaac cttggaccta ctctcaagca tgtgcatcac tagataaaac 3841 cacctccagt ggcagccctc accatgtcag gaagaatgac tactggaatg gagagtcttt 3901 cacaggtccc cttgcagacc aagcatctaa agctaacctc atgtatgagc aggccaaaca 3961 tgtgcagccc atgtacacgg ccgccctcaa ggatgaactt gttaagactg ataaaatcta 4021 caaaaagata aagaagagac tcctgtgggg atcagacctt ggcacgatga tcaggtgcgc 4081 cagggctttt ggtggcctca tggacagcat gaaggcgagc tgcatagctc ttccttgtag 4141 ggtggggatg aacatgaatg aggatggtcc aatcatcttt gacaagcact ccaagtacag 4201 attccattat gatgctgact attcaaggtg ggactcaacc caacaaagga gtatcctaac 4261 tgccgctatg gaggtgatgg ttcggttctc tgcagaacca gagttagcac aagtagtagc 4321 agaggatctc ttggcaccta gtcaactgga tgttggtgat tttgttgtct cagtccagga 4381 gggtttgcca tcgggtgttc catgcacatc acaatggaac tcgatagcgc actggattct 4441 aaccttaagt gcaatggcag aggtgtcagg cctttcacca gatgttgtcc aggctcattc 4501 ctgtttctcc ttctatggcg atgatgagat tgtcagcacc gatatcaaca ttgaccctgc 4561 aaaattgaca cagaaactca gggaatatgg ccttgtcccc acccggcctg acaagactga 4621 gggtcccctc gtcataactg agaacctggc tggcctgact ttcctccgca ggtcgatagc 4681 gcgggatcca gctgggtggt ttggaaaact ggaccaagac tcaattctca gacaactgta 4741 ctggacaaga gggcctaacc atgaaaaccc atacgaaagc atggtccccc attcccaacg 4801 agctacacag ctcatggccc tccttggtga ggcctcacta catgggcccc agttttacaa 4861 gaaggttagc aaaatggtca tcaatgagat caaaagtggt ggtctggaat tttacgtgcc 4921 cagacaagag gccatgttca ggtggatgag attctctgac ctcagcacgt gggagggcga 4981 tcgcaatctt gctcccgagg gtgtgaatga agatggcgtc gaatgacgct actccatctg 5041 atgatggtgc agccggcctc gtaccagaga tcaacaatga ggttatggct cttgaacccg 5101 ttgctggggc ctccattgca gcccccgtgg tcgggcaaca aaatgtaata gatccctgga 5161 ttagaaataa ctttgtacaa gcccctgctg gtgaattcac agtttcccct agaaactctc 5221 ctggagaact cttacttgat ttagaattgg gccctgaact gaatccctat ctttcacacc 5281 tgtccaggat gtacaatggg cacgcaggtg gaatggaagt gcagatagta ctggctggga 5341 atgcgttcac agctggtaag atcctatttg ctgccatccc acctagcttc ccctatgaaa 5401 atttgtcacc tgctcaattg actatgtgcc cccatgtaat agtggatgtg agacaactag 5461 aaccagtgct tctgccaatg ccagacataa gaaatgtttt ctatcactat aaccaaaaca 5521 atagtcccaa actcaggctt gtagctatgc tttacactcc tttgagagct aacaactcag 5581 gtgatgacgt gttcacggtg tcttgccgcg ttttgacacg cccctctcca gacttccagt 5641 tcacctttct ggtcccaccc acagttgaat ctaaaactaa gaactttacc cttcctgtcc 5701 ttagggtctc agagatgaca aactcaaggt tccccgctgt tttggaccaa atgtacacaa 5761 gcaggagtga aaacatcatt gtccaacccc aaaatggcag gtgcacgctt gacggtgagc 5821 tgctcggcac caccaccttg caatctgtgt ctatatgcag ttttagagga acaatgcagg 5881 caaagctgaa tggacaacca cgataccaat tacaaatcac caatttggat ggctcaccca 5941 tagacccaac agatgacatg cctgcccccc ttggcacacc agatttccgg gccatgttgt 6001 atggcgttgc aagtcaacgc tcccccgcag acaacgccac tagggcacat gaggcacaga 6061 ttgacactgc gggtgacact ttcgccccga aaattggcca ggtccgtttc gaatcaggct 6121 ctgatgattt tgacctacgt gaccctacaa agttcacacc cattggtatc aaagtggatg 6181 atcagcaccc ctttagacag tggtccctgc caaactatgg tggtcacctt gccctgaaca 6241 atcatttagc ccccgctgtg acaccactct tccccggcga gcagatcttg ttcttcaggt 6301 cacacattcc aagcgccgga ggttttacag acggtgctat ggactgcttg ctgccccaag 6361 agtggataga gcacttctac caggaggcag ctcctgccca gtctgacatc gcactggtga 6421 ggttcattaa ccccgataca ggaagagtgc tccttgaagc caagttgcac aaacagggct 6481 tccttacagt tgcagcatct ggagaccacc ccattgtgat gcccgctaat ggttacttta 6541 ggtttgaagc ttgggtcaac cccttctaca ctctcgcccc cgtgggaact gggtctgggc 6601 gcagaaggat tcagtaatgg caggagcttt ccttgcaggt ctagcaggtg acgttgcggc 6661 ttctagtttg agctcactcg tgggcgctgg agccaacgcc atcaatcaga aggtggagta 6721 cgacttcaac agacaactcc aggaggcttc cttcaaacat gacaaggata tgctcagagc 6781 ccaggttgca gcaacaacag gcctccaaca ggccatgata gatatcaagc gggaggcatt 6841 gaccgcaggc ggcttttccc ccgctgatgc tgcaagaggt tcagtcaagg cgcccatgac 6901 aacactcctt gattggaatg gctctaggca ttgggcaccc aactccatga ggacaactgg 6961 ttattcaggc acatttactt cccagggcat tagaagctct ccccacctgt ctaatcaaac 7021 tccaggtgct gtcaaaccca ctaaaacctt gccatctata tctagttctt ctagtgtgta 7081 tagctctcct tctactgccc cctcgcaatc aacacaatca actacgctgt ctgcaggaac 7141 agggtcgtcc aggcctaaca ccgtgtccac aaagacctcc acactgtcga ggacaagtga 7201 ctgggtcaga gatcaaaatc agatgattgg cccgttcatg aatggtgcac ttcaaactgc 7261 ttatgtcact ccaccatcga gcagggcctc atcacaaggg acggtctcga ccgtacccaa 7321 ggctgttttg gactcctgga ctcctatgtt caacacccac aggcagcctc tcttcgccca 7381 catgcgtagg cgaggggagt cacagactta gtgaaaagga tgattaggac t //