Typing tool
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Typing tool
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Complete norovirus genomes
| OR536492 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS OR536492 7540 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2021/GII.3[P21]/Rotterdam/I129S30_P19-d2086, complete genome.
ACCESSION OR536492
VERSION OR536492.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7540)
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JOURNAL Unpublished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 7540)
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..7540
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2021/GII.3[P21]/Rotterdam/I129S30_P19-
d2086"
/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="WMX17854.1"
/translation="MKMASNDASAAAAANSINDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPRDKPPKPPRPPTPELVKSIPPPPPNGEDEPIISYNVKQGISGLPELSTVTQPE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANIILCALASLFTRPIKDIIGK
LKPLNILNILATCDWTFSGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV
AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKPDCSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKILAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
NARIRYYVKCVQEALYSIIQIAGAAFITTRIARRMNIQNLWSKPQVEDLEETNNVEGC
PKPKSDEEFVISSDDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
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="WMX17855.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPFLAHLSRMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPHFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD
IRNSFFHYNQRSTSRMRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP
TVESKTKPFSLPVLTISEMSNSRFPVPIDSLHTSPTDNIVVQCQNGRVTLDGELMGTT
QLQPSQICAFRGVLARPVNRDSDQTDTATPRSFNNHWYIQLDNLNGTPYDPSEDIPGP
LGTPDFRGKIFGVASQRNPDATTRAHEAKINTAAPRFTPKLGSLLISTESGDFDQNQP
TRFTPVGIGVDQEEDFQQWTLPNYAGPLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
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="WMX17856.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANVINQTVDFENNKQLQNA
SFNHDKEMLKAQIEATKNLQASMISIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSLSGGFTNQTVHRSTPNFKVNQAPKSAPSGGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRGRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcatcaacga
61 caacgcaaaa tcttcaagtg acggagtatt atctaatatg gccgtcacct tcaaacgagc
121 cctcggggcg cggcctaaac agccgccccc gagggacaaa ccaccaaagc ccccaagacc
181 tcccacacca gaattggtta aatcaatccc ccctccccca cccaacggag aggacgaacc
241 aatcatttct tacaacgtca aacagggtat ttctggtctg cctgagctct caactgtcac
301 ccagccggaa gagaactcta cagcatttag cgttccccct ctcagtcaga gggagaacag
361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca
421 ttatggctta tatgtggaac gagggttagt actaggcgtg cacaaaccac cagcagccat
481 cagccttgcc aaggttgagc tgaccccctt gtccttgtat tggaggccag tgtacacccc
541 acagtacctc atttcccctg atactctcag aaagttgcat ggggaaacgt tcccttatat
601 agcctttgac aacaattgtt atgccttctg ctgttgggtg cttgatttga acgattcatg
661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa
721 taggaagccc ctccccacaa tggatgactc caaagtgaaa aaggtggcca acattatcct
781 ctgtgctctc gcatcattgt tcacaagacc aattaaggac attattggga agctgaagcc
841 cctaaacatc ctcaacatcc tagccacgtg tgattggact ttctcgggca tagtagaatc
901 cctgatcctc ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat
961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggagct
1021 cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caaaatgctt tcatctgctg cttcaacctt gagggcatgc aaagatctcg gtgcatatgg
1141 gttggagatc ctaaaattgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga
1201 attggaaatg gtgagagcca ttgaggatgc agtgctagat cttgaggcca ttgagaataa
1261 ccacatgaca actctactca aggatagaga cagccttgca acctacatga ggactcttga
1321 cctagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg atattgtggg
1381 cacaataaac tccctactgg caaggattgc agctgcccgg tctttagtgc acagggctaa
1441 ggaggagctg tcaagcagac cccgaccggt cgttgtgatg atttcaggga gaccaggcat
1501 agggaaaacc catctagcta gagaggtggc aaagaaaatc gcctccacac tcacaggtga
1561 tcagagggtg ggccttattc cacgcaacgg ggtcgaccac tgggattcat acagaggtga
1621 aagaatcgtt ctctgggacg actatggaat gagcaacccc atccacgacg ccctcagact
1681 ccaggagctc gctgacacct gtcctctcac gctcaactgt gacaggattg agaacaaagg
1741 caaagttttt gacagtgacg tcataatgat aaccaccaat ttggcaaacc cagcgccact
1801 ggactacgtc aactttgagg cgtgctcaag acgcatagac ttcctcgtct atgctgaagc
1861 ccctgaagtt gaaaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagatgc
1921 cttcaaacct gattgctcac acataaaatt gacattggct ccacaagggg gttttgacaa
1981 aaatggcaac actccttatg gaaagggtgt catgaagacc ctcactgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccatgagag gttggacgag tatgagctgc aggggccaac
2101 tcccacgaca ttcaacttcg accgcaacaa gattctcgct tttaggcaac ttgctgctga
2161 aaacaagtac ggccttgttg acacaatgag ggtcggatcg cagctcaaga atgtcaaaac
2221 catgacagaa ctcaagcagg ctctcaagaa catctcagtc aagaaatgcc agcttgtata
2281 tggtgggagc acgtacactc ttgaatctga tggtaagggt aatgtgcatg ttgagaaggt
2341 gaacaacacc agtgtgcaaa ctaacaatga gctctccggg gctttgcacc acctcaggaa
2401 tgccagaatc aggtactatg ttaagtgtgt ccaggaagct ctctactcca tcatccaaat
2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg
2521 gtccaaaccg caagtagaag atttggagga gaccaacaac gtggagggtt gtccaaaacc
2581 taaaagtgat gaagaatttg tcatctcttc tgacgacatc aaagccgagg gcaagaaagg
2641 caagaacaag tctggccgtg gcaagaagca cacagccttt tccagcaaag ggcttagtga
2701 tgaagagtac gatgagttca aaaggatcag ggaagagaga aatggcaaat actccataga
2761 ggaataccta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga
2821 ggaagacttc tgtgaagaag aagaggcaaa aatccgacaa aggatattta gaccaacaag
2881 gaaacagcgc aaagaagaaa gggcctctct cggtttggtc acaggttctg agattaggaa
2941 gagaaatcca gatgatttta agcccaaagg gaaactatgg gccgatgatg acaggaatgt
3001 tgactacaat gagaaactca gtttcgaggc tccaccaagc atttggtcac gaatagtcaa
3061 ctttggctcg gggtggggtt tctgggtctc gcccagcctc ttcataacat caacccatgt
3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aagcaaattc aaattcacaa
3181 gtcgggtgag ttttgccggc ttagattccc aaaaccgatc aggacagatg tcacaggcat
3241 gattttggag gaaggtgctc cagaaggcac cgttgccaca cttctcatca agaggccaac
3301 tggggagctc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg
3361 acgcactgtt ggtggacaga tgggcatgct gctcacaggg tctaacgcta agagcatgga
3421 cttgggcaca acccccggcg attgtggttg tccctatatc tacaaaagag ggaacgacta
3481 cgttgtcatt ggggttcaca cagccgccgc tcgcggagga aacaccgtca tctgtgcaac
3541 ccaaggaagc gagggtgagg ctgtgctaga aggtggtgac aacaagggaa cttactgtgg
3601 ggcaccaata ttgggacctg ggaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccccttgc cacccggaac ctatgaacca gcttacctag gtggcaagga
3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggaccagc taaagccatt
3781 cactgaaccc agaggcaagc caccaaagcc aagtgtgcta gaagctgcta aaaagactat
3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaagcgtg
3901 tgcatcatta gataagacca cctccagcgg ccatcctcac cacatgcgga agaacgactg
3961 ctggaatggg gagaccttca caggaaaact ggcagaccaa gcatcaaagg ctaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt atacacaggg gccctaaaag atgagctagt
4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tgggttaatg gatgaactca aagcccactg
4201 tgtcacacta ccagtcagag ttggcatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat accattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtgctggctg cagccctgga aataatggtc aaattctcac cagaacccca
4381 tctggctcaa gtggttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt
4441 caagatatca atcaacgagg gattaccctc tggtgttccc tgtacctcac aatggaactc
4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 cattaaattg gatccagaga aattaacaac aaaattgaag gaatacggac tgaaaccaac
4681 ccgccctgac aaaacagaag gacccttgat tatctctgaa gatttgaatg gcctaacatt
4741 cttgcggaga acggtaaccc gtgatccagc cgggtggttt ggcaaactgg accaaagctc
4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta ttgggtgaag ctgcgttgca
4921 tggcccgtca ttttacagta aaatcagcaa actggtcatc tcagaattga aagagggcgg
4981 gatggatttt tacgtgccca ggcaagaacc aatgttcaga tggatgagat tttcagactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaac gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agaaccagtg gcgggtgcag cgctagcagc accccttact ggtcagcaaa
5221 atataattga tccctggatt atgaataatt ttgtacaagc acctggtggt gagttcacag
5281 tgtcccctag aaattcccct ggtgaagttc ttctcaattt ggaattaggt ccagaaataa
5341 atcccttttt ggcccatctt tctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctatccccc
5461 cccattttcc aattgacaac ctaagtgcag cacagatcac aatgtgtcca catgtgatcg
5521 tggatgtcag acagctggaa ccagtcaacc tcccgttgcc tgacattcgc aacagcttct
5581 ttcattataa tcaaagatcc acatcaagaa tgcgcttaat tgcaatgtta tatacacctc
5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgtagagtg ttaactagac
5701 ctagtcctga ctttgcattt aatttccttg tgccacccac tgtggaatca aagacaaaac
5761 ccttttccct tcctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtaccaa
5821 ttgattccct gcacaccagc cctactgata atattgttgt ccagtgtcaa aatgggcgcg
5881 tcacccttga cggtgagttg atgggcacta cccagctcca acctagtcaa atctgtgctt
5941 tcaggggcgt gctcgccaga ccagtaaaca gggacagtga ccagaccgat acagcaaccc
6001 ccagatcgtt caacaaccat tggtacatac aattggataa tctaaatgga actccttatg
6061 atccttcaga agatatacca ggccccttgg gaacaccaga ttttcggggc aaaatctttg
6121 gcgtggccag ccagagaaat cctgatgcta caactagggc acatgaagca aagataaaca
6181 cagcagctcc ccgtttcacc ccgaaattag gttcattatt aatttccact gaatctggag
6241 actttgacca aaatcaacca acaagattca ccccagttgg cattggggtc gaccaggagg
6301 aagactttca acaatggact cttcccaact atgctggccc gctcacccac aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgaacaact ccttttcttc cgctcacagt
6421 taccatcttc tggtgggcga tccgatggaa ttctggactg cctagtcccc caagaatggg
6481 tacagcactt ctaccaagaa tcagccccct cccaatctca ggtagccctg gttaggtatg
6541 tcaatcctga cactggtaga gtgttatttg aggccaaact gcacaaattg ggtttcatga
6601 ctatagccaa aaatggtgac tctccaataa cagttcctcc caatggatac tttagatttg
6661 aatcttgggt gaaccccttt tacacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgttggatct ttagttaatg caggggctaa tgtcattaat caaacagttg attttgaaaa
6841 caataaacaa ttgcaaaatg cttcttttaa tcatgataag gaaatgttga aagcacaaat
6901 tgaggcaaca aagaacttac aggccagcat gatttctatc aaacaagggg ttttgaccgc
6961 tggcggcttt tcccctactg atgcggcccg cggggcaatc aacgccccca tgacaaaagt
7021 cctagattgg aatggcacga gacactgggc accaggtgcc acctccacaa cctcgttgtc
7081 gggtggcttt acaaatcaaa ctgtgcacag atctacacca aattttaaag tgaatcaggc
7141 ccccaaatcc gcacccagtg gtgggtcttc agtaaggtca aattcaaccc aaatcactag
7201 cttgagctca cactcgtccg ggtcgtctcg gtccagcggg tccacagttg 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 cggaaggggg gagtcaaatg tttagtgaaa
7501 agattattat aaatttgatt taaattagat ttaatttgga
//