Typing tool
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Typing tool
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Complete norovirus genomes
| OR536499 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS OR536499 7507 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2021/GII.3[P21]/Rotterdam/I129S31_P20-d987 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION OR536499
VERSION OR536499.1
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JOURNAL Unpublished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/2021/GII.3[P21]/Rotterdam/I129S31_P20-
d987"
/isolation_source="feaces swap"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="05-Aug-2021"
/note="genotype: GII.3[P21]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17875.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPKDKPPKPPRPPTPELVKSIPPPPPNGEDEPTISYNVKKGVSGLPELSTVTQPE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPETLKKLHGETFPYIAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVILCALASLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATFMRTLDMEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHKAKEELSSRPRPVVVMISGRPGIGKTHLAREV
AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAESPEVEK
AKRDFPGQPDMWKDAFKSDCSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISIKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
SARIRYYVKCVQEALYSIVQIAGAAFITTRIARRMNIQNLWSKPQVEDLEETDNVEGC
PKPKSDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFRISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
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="WMX17876.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPFLAHLSRMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPHFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD
IRNSFFHYNQDPTSRMRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP
TVESKTKPFSLPVLTISEMSNSRFPVPIDSLHTSPTDNIVVQCQNGRVTLDGELMGTT
QLQPSQICASRGVLIRPVGRASDQADTATPRSFNNHWHIQLDNLNGTPYDPTEDIPGP
LGTPDFRGKIFGVASQRNPDATTRAHEAKIDTASPRFAPKLGSLVISTESDDFDQNQP
TRFTPVGIGVDQETDFQQWTLPNYAGELTHNMHLAPAVAPNFPGEQLLFFRSQLPSSG
GRSDGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
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="WMX17877.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANVINQTVDFENNKHLQNA
SFNHDKEMLKAQIEATKNLQASMISIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSLSGGFTNQTVHRPTPNFKVNQAPKSAPSGGSSVRSNSTQITSLSS
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 tggagacctg tgtacacccc
541 acagtacctc atttcccctg aaactctcaa aaagttgcat ggggagacgt tcccttatat
601 agcctttgac aacaactgtt atgccttctg ctgttgggtg cttgacttga acgattcttg
661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa
721 taggaagccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttatcct
781 ctgtgctctc gcatcattgt ttacaagacc aattaaggac attattggaa agttaaaacc
841 cctaaacatc cttaacatcc tagccacatg tgattggact tttgcgggca tagtagaatc
901 cctgatcctc ttggctgaac tgtttggagt cttctggaca cccccagatg tgtctgcaat
961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggaact
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 atatcgtggg
1381 tacgataaac tccctactgg caaggattgc agctgcccgg tctctagtgc acaaggctaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atctcaggga gaccaggcat
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 aaccaccaat ctggcaaacc cagcgccact
1801 ggactacgtc aactttgaag cttgctcaag acgcatagac ttcctcgttt atgctgaatc
1861 ccctgaagtt gagaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagatgc
1921 cttcaaatct gactgctcac acataaaatt gacattggcc ccacaaggtg gttttgacaa
1981 aaatggtaac actccttatg ggaagggtgt catgaagacc ctcactgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccatgagag gctagacgaa 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 gctctccgga gctttgcacc acctcaggag
2401 tgccagaatc aggtattatg ttaagtgtgt ccaggaggcc ctctactcca tcgtgcaaat
2461 tgccggggct gcattcatca ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg
2521 gtccaaacca caagtagaag 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 agaatattta gaccaacaag
2881 gaaacagcgc aaagaagaaa gggcctctct cggtttggtt acaggttctg agattaggaa
2941 gagaaaccca gacgacttca aacccaaagg gaaactgtgg gccgatgatg acaggagtgt
3001 tgactacaat gagagactta gtttcgaagc tccaccaagc atttggtcac gaatcgtcaa
3061 ctttggctcg gggtggggtt tttgggtctc gcctagcctc ttcataacat caacccatgt
3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aaacaaattc aaattcataa
3181 atcgggtgag ttctgccggc ttagattccc aaaaccaatc aggacagatg tcacaggcat
3241 gattttggag gaaggtgctc cagaaggtac 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 aggtggtgac aacaagggaa cttattgtgg
3601 agcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccccctgc cgcctggaac ctatgaacca gcctatctgg gtggcaggga
3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggaccagc taaaaccgtt
3781 cactgagccc agaggcaagc caccaaaacc aagtgtgcta gaagctgcca aaaagaccat
3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaggcgtg
3901 tgcatcatta gataagacca cctccagcgg ccaccctcac cacatgcgga agaacgactg
3961 ctggaatggg gagactttca caggaaaact ggcagaccaa gcatcaaagg ctaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt gtacacaggg gctctaaaag atgagctagt
4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggct cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tggattgatg gacgaactca aggcccactg
4201 tgtcacacta ccagtcagag ttggcatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat accattatga 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 gtcacaaacc tgtcccctga
4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 cattaaattg gacccagaga aattaacaac aaaattgaag gaatacggac taaagccaac
4681 ccgccctgac aaaacagaag gacccttgat tatctctgaa gatttggatg gcctaacatt
4741 tttacggaga acggtgaccc gtgatccggc cgggtggttt ggcaaactgg atcaaagctc
4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta ctgggtgaag ctgcattgca
4921 tggtccgtca ttttacagta aaatcagcaa attagtcatc tcagaattga aagagggtgg
4981 aatggatttt tacgtgccca ggcaagaacc aatgttcaga tggatgagat tttcagactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaac gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agaaccagtg gcaggtgcag cgttagcagc accccttact ggtcagcaaa
5221 atataattga tccctggatt atgaataact ttgtacaagc acctggtggt gagttcacag
5281 tgtcccctag aaattcccct ggtgaagttc ttctcaattt ggaattaggt ccagaaataa
5341 atcccttttt ggcccatctt tctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aagtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctatccccc
5461 cccattttcc aattgacaac ctaagcgcag cacagatcac aatgtgtcca catgtgatcg
5521 tggatgtcag acagctggaa ccagtcaacc tcccgttgcc tgatattcgc aacagtttct
5581 ttcattataa tcaagacccc acatcaagaa tgcgcttaat tgcaatgtta tacacacctc
5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgtagagtg ttaactagac
5701 ctagtcctga ctttgcattt aatttccttg tgccacccac tgtggagtca aagacaaaac
5761 ccttttccct ccctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtaccaa
5821 ttgattccct gcacaccagc cctactgata atattgttgt ccagtgtcag aatgggcgcg
5881 tcacccttga cggtgagctg atgggcacca cccagctcca acctagtcaa atctgtgctt
5941 ccaggggcgt gctcatcaga ccagtaggca gggccagtga ccaggccgac acagcaaccc
6001 ccagatcgtt caataatcat tggcacatac aattggataa tctaaatgga actccttatg
6061 atcctacaga agatatacca ggccccttgg gaacaccaga ttttcggggc aaaatctttg
6121 gcgtggccag ccagagaaat cctgatgcta caactagggc acatgaagca aagatagata
6181 cagcatctcc ccgtttcgcc ccgaaattag gttcattagt aatttccact gaatctgatg
6241 actttgacca aaatcaacca acaagattca ccccagttgg cattggggtc gaccaggaga
6301 cagactttca acaatggact cttcccaact atgctggcga gctcacccac aacatgcact
6361 tggccccagc tgttgctccc aacttccctg gtgaacaact ccttttcttc cgctcacagt
6421 taccatcttc tggtgggcgg tccgatggaa ttctggattg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagaa tcagccccct cccaatctca ggtagccctg gttaggtatg
6541 tcaatcctga cactggtaga gtgttatttg aggccaaact gcacaaattg ggtttcatga
6601 ctatagccaa aaatggtgac tctccaataa cagttcctcc caatggatac ttcagatttg
6661 aatcttgggt gaaccccttt tatacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgtgggatcc ttagttaatg caggggctaa tgtcattaat caaacagttg attttgaaaa
6841 taataaacat ttgcaaaatg cttcttttaa tcatgataag gaaatgttga aagcacaaat
6901 tgaggcaaca aagaatttac aggccagcat gatttctatc aaacaagggg ttttgaccgc
6961 tggcggcttt tcccctactg atgcggcccg cggggcaatc aacgccccca tgacaaaagt
7021 cttagattgg aatggcacga gacactgggc accaggtgcc acctccacaa cctcgttgtc
7081 gggtggcttt acaaatcaaa ctgtgcacag acctacacca aattttaaag tgaaccaggc
7141 ccccaaatcc gcacccagtg gtgggtcttc agtaaggtca aattcaaccc aaatcactag
7201 cttgagctca cactcgtccg ggtcgtctcg gtccagcggg tctacagttg tcagctcaat
7261 accatcctct aacaggacta gggattgggt cacccaacaa aactttaatt tggaaccaca
7321 catgcctggg tctcttagaa cagcttttgt cactccacca tctagtacag cctctagctc
7381 aggcacagtc tcaactgtac ctaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa
7501 agattat
//