Typing tool
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Typing tool
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Complete norovirus genomes
| OR536495 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS OR536495 7507 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2019/GII.3[P21]/Rotterdam/I129S11_P20-d181 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION OR536495
VERSION OR536495.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7507)
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JOURNAL Unpublished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 7507)
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..7507
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2019/GII.3[P21]/Rotterdam/I129S11_P20-
d181"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="22-May-2019"
/note="genotype: GII.3[P21]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17863.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPKDKPPKPPRPPTPELVKSIPPPPPNGEDEPTISYNVKKGVSGLPELSTVTQPE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLIPPETLKKLHGETFPYIAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVILCALASLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATFMRTLDMEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHKAKEELSSRPRPVVVMISGRPGIGKTHLAREV
AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAESPEVEK
AKRDFPGQPDMWKDAFKSDCSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISIKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
SARIRYYVKCIQEALYSIVQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETDNVEGC
PKPKSDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGSDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFRISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6731
/gene="ORF2"
CDS 5085..6731
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WMX17864.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLSLELGPEINPYLAHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD
IRNNFFHYNQRSESRVRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP
TVESRTKPFTLPVLTISEMSNSRFPVPIDSLHTSPTDAVVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVIAGSTSRASDQADTATPRSFNNRWHIQLDNLNGTPYDPSEDIPGP
LGTPDFRGRVFGVASQRNPDATTRAHEAKIDTSSPRFTPKLGSLEILTESDDFDQNQP
TRFTPVGIGVDQETDFQQWTLPNYAGQVTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYINPDTGRVLFEAKLHKLGFLTVA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6731..7495
/gene="ORF3"
CDS 6731..7495
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17865.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKHLQNA
SFNHDKEMLNAQIEATKRLQASMIAIKEGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSLSGGFTNQTVHRPTPNFKTNQTPRLAPSNGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtact atctaatatg gccgtcactt tcaaacgagc
121 cctcggggcg cggcctaaac agccgccccc gaaggataaa ccaccaaaac ccccaagacc
181 ccccacacca gaattggtta aatcaatccc ccctccccca cccaacgggg aggacgaacc
241 aaccatttct tacaacgtca aaaagggtgt ttctggtttg cctgagctct caaccgtcac
301 ccaaccggaa gagaactcta cagcatttag cgttccccct cttagtcaga gggagaacag
361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca
421 ttatggctta tatgtggaac gggggttagt actaggtgtg cacaaaccac cagcagccat
481 cagccttgcc aaggttgagc tgaccccctt gtccttgtat tggagaccag tgtacacccc
541 acagtacctc attccccctg aaactctcaa aaagttgcat ggggagacgt tcccttatat
601 agcctttgac aacaactgtt atgccttctg ctgttgggtg cttgacttga acgattcatg
661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa
721 taggaagccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttatcct
781 ctgtgctctc gcatcattgt ttacaagacc aattaaggac attattggaa agttgaaacc
841 cctaaacatc cttaacatcc tagccacatg tgattggact tttgcgggca tagtagaatc
901 cctgatcctc ttggctgaac tgtttggagt cttctggaca cccccagatg tgtctgcaat
961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggagct
1021 cgtacccgta gtaatgggag ggataggtct ggtgctggga ttcaccaaag agaaaatcgg
1081 caaaatgctt tcatctgctg cttcaacctt gagagcatgc aaagatctcg gtgcatatgg
1141 gttggagatc ctcaaattgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga
1201 attggaaatg gtgagagcca tcgaggatgc agtgctagat cttgaggcca ttgagaacaa
1261 ccatatgaca actctactca aggatagaga cagccttgca accttcatga gaactcttga
1321 catggaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg atattgtagg
1381 cacgataaac tccctactgg caaggattgc agctgcccgg tctctagtgc acaaggctaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atctcaggga gaccaggtat
1501 agggaaaacc catctagcta gagaggtggc aaagaagatc gcctccacac tcacaggtga
1561 tcagagggtg ggtcttatcc cacgcaatgg ggtcgatcac tgggattcat acagaggtga
1621 aagaatcgtt ctctgggacg actatggaat gagcaacccc atccacgacg ccctcagact
1681 ccaggagctc gctgacacct gtcctctcac actcaactgc gacaggattg agaacaaagg
1741 caaggttttt gacagtgacg tcataatgat aaccaccaac ctggcaaacc cagcgccact
1801 ggactacgtc aactttgaag cgtgctcaag acgcatagac ttcctcgttt atgctgaatc
1861 ccctgaagtt gagaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagatgc
1921 cttcaaatct gactgctcac acataaaatt aacattggcc ccacaagggg gttttgacaa
1981 aaatggtaac actccttatg ggaagggtgt catgaagacc ctcactgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccatgagag gttagacgaa tatgagctgc aggggccaac
2101 tcccacgaca ttcaacttcg accgcaacaa ggttctcgct tttaggcagc ttgctgctga
2161 aaacaagtac ggccttgttg acacaatgag ggtcggatca cagctcaaga atgtcaaaac
2221 catgacagaa ctcaaacagg ctctcaagaa catctcaatc aagaaatgcc agcttgtata
2281 tggtgggagc acgtacacac ttgaatctga tggtaaaggt aatgtgcatg tcgagaaggt
2341 gaacaacacc agtgtgcaaa ctaacaatga gctctccggg gctttgcacc acctcaggag
2401 tgccagaatc aggtattatg ttaagtgtat ccaggaagct ctctactcca tcgtgcaaat
2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg
2521 gtccaaacca caagcagaag atttggaaga gactgacaat gtggagggtt gtccaaaacc
2581 taaaagtgat gaagaatttg tcatctcctc tgacgacatc aaagccgagg gcaagaaagg
2641 taagaacaag actggccgtg gcaagaagca cacagccttt tccagcaaag ggcttagtga
2701 tgaggagtac gatgagttca aaaggatcag ggaagagaga aatggcaaat actctataga
2761 ggaataccta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga
2821 ggaagacttc tgtgaagaag aagaggcaaa aatccggcaa aggatattta gaccaacaag
2881 gaaacagcgc aaagaagaaa gggcctctct cggtttggtt acaggttctg agattaggaa
2941 gagaaaccca gacgacttca aacccaaagg gaaactgtgg gccgatgatg acaggagtgt
3001 tgactacaat gagaaactta gtttcgaagc tccaccaagc atttggtcac gaatcgtcaa
3061 ctttggctcg gggtggggtt tttgggtctc gcctagcctc ttcataacat caacccatgt
3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aaacaaattc aaattcataa
3181 gtcgggtgag ttctgccggc ttagattccc aaaaccaatc aggacagatg tcacaggcat
3241 gattttggag gaaggtgctc cagaaggcac tgttgccact cttctcatca agaggccaac
3301 tggggaactc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg
3361 acgcactgtt ggtgggcaga tgggcatgct actcacaggg tctaacgcta agagcatgga
3421 cttgggcaca actcctggcg attgtggttg tccctacatc tacaagagag ggaacgacta
3481 cgttgtcatt ggggttcaca cagccgccgc tcgtggagga aacaccgtca tctgtgcaac
3541 ccaaggaagc gagggtgagg ctgtgctaga aggtagtgac aacaagggaa cttattgtgg
3601 agcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccccctgc cacctggaac ctatgaacca gcctatctgg gtggcaagga
3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggatcagc taaaaccgtt
3781 cactgagccc agaggcaagc caccaaaacc aagtgtgcta gaagctgcca aaaagactat
3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaggcgtg
3901 tgcatcatta gataagacca cctccagcgg ccaccctcac cacatgcgga agaacgactg
3961 ctggaatggg gagaccttca caggaaaact ggcagaccaa gcatcaaagg ctaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt gtacacaggg gctctaaaag atgagctagt
4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tggattgatg gacgaactca aggcccactg
4201 tgtcacacta ccagtcagag ttggcatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat atcattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtactggctg cagccctgga aataatggtc aaattctcac cagaacccca
4381 tctggctcag gtagttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt
4441 taggatatca attaacgagg gattgccctc tggtgttccc tgcacctcac aatggaactc
4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 cattaaattg gatccagaga aattaacaac aaaattgaag gaatacggac taaagccaac
4681 ccgtcctgac aaaacagaag gacccttgat tatctctgaa gatttggatg gcctaacatt
4741 cttacggaga acggtaaccc gtgatccggc cgggtggttt ggcaaactgg atcaaagctc
4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta ttgggtgaag ctgcattgca
4921 tggtccgtca ttttacagta aaatcagcaa attagtcatc tcagaattga aagagggtgg
4981 aatggatttt tacgtgccca ggcaagaacc aatgttcaga tggatgagat tttcagactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agaaccagtg gcgggtgcag cgttggcagc acccctcact ggccagcaaa
5221 atataattga tccctggatt atgaataatt ttgtacaagc acctggtggt gagtttacag
5281 tgtcccctag aaattctcct ggtgaagttc ttcttagttt ggaattgggt ccagaaataa
5341 acccctattt ggcccatctt gctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtgatcct agctgggaat gcgttcacag caggaaagat aatctttgca gctattcccc
5461 caaatttccc aattgacaat ctaagtgcag cacagatcac aatgtgtcca catgtgatcg
5521 tggatgtcag acagctggaa ccagtcaact taccgttgcc tgacattcgc aataatttct
5581 ttcattacaa tcaaaggtct gaatcgagag tgcgcttaat tgcaatgttg tatacacctc
5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgcagagtg ttaactagac
5701 ctagtcctga ttttgcattt aatttccttg tgccacctac tgtggagtca aggacaaaac
5761 cctttaccct ccctgttctg actatctctg aaatgtccaa ttcaaggttc ccagtaccaa
5821 ttgattccct gcacaccagc cctactgatg ctgttgttgt ccagtgtcag aatgggcgcg
5881 tcacccttga tggtgagttg atgggcacca cccaactctt acctagtcaa atctgtgctt
5941 tcaggggcgt gatcgccgga tcaacaagca gggccagtga ccaggccgac acagcaaccc
6001 ctaggtcgtt caataatcgt tggcacatac aattggataa tctaaatgga actccttatg
6061 acccttcaga agacatacca ggccccttgg ggacaccaga tttccggggc agagtctttg
6121 gcgtggccag ccagagaaac cctgatgcta caactagagc acatgaagca aagatagaca
6181 catcatctcc ccgtttcacc ccgaaattag gttcattaga aattctcact gaatccgatg
6241 attttgacca aaaccaacct acaagattca ccccagttgg cattggggtc gaccaggaga
6301 cagactttca acaatggact cttcccaact atgctggcca ggtcacccac aatatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgagcaact ccttttcttc cgctcacagt
6421 tgccatcttc tggtgggcga tccaacggga ttctagactg cctggtcccc caagaatggg
6481 tacaacactt ctaccaagaa tcagccccct cccaatctca agtagccctg gttaggtata
6541 tcaatcctga cactggtaga gtgttatttg aggccaaatt gcacaaattg ggtttcttaa
6601 ctgtagccaa aaatggtgac tctccaataa cagtccctcc caatggatac tttaggtttg
6661 aatcttgggt gaaccccttt tatacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgtagggtct ttagttaatg caggggctaa tgccattaat caaacaattg attttgaaaa
6841 taataaacat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat
6901 tgaggcaaca aagaggttac aggccagcat gattgctatc aaagaagggg ttttgaccgc
6961 tggcggcttc tcccctactg atgcggcccg cggggcaatc aatgccccca tgacaaaagt
7021 tctagattgg aatggcacga gacactgggc accaggtgcc acctccacaa cctcgttgtc
7081 gggtggcttt acaaatcaaa ctgtgcatag accaacacca aattttaaaa cgaatcagac
7141 ccccagactc gcacccagta atgggtcttc agtaaggtca aattcaaccc aaatcactag
7201 cttgagctca cactcgtccg ggtcgtctcg atccagcggg tctacagttg tcagctcaat
7261 accatcctct aacaggacta gggattgggt cacccaacaa aattttaatt tggaaccaca
7321 catgcctggg tctcttagga cagcttttgt cactccacca tctagcacag cctctagctc
7381 aggcacagtc tcaactgtac ctaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa
7501 agattat
//