Typing tool
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Typing tool
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Complete norovirus genomes
| OR536490 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS OR536490 7540 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2021/GII.3[P21]/Rotterdam/I129S28_P19-d1987, complete genome.
ACCESSION OR536490
VERSION OR536490.1
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JOURNAL Unpublished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/I129S28_P19-
d1987"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="28-Apr-2021"
/note="genotype: GII.3[P21]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17848.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPLRDKPPKPPRPPTPELVKSIPPPPPNGEDEPIISYNVKQGISGLPELSTVTQPE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANIILCALASLFTRPIKDIIGK
LKPLNILNILATCDWTFSGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKTELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATYMKTLDIEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV
AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAESPEVEK
AKRDFPGQPDMWKDAFKPDGSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPAPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGAQLKNVKTM
TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLR
SARIRYYVKCVQEALYSIIQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETNNVEGC
PKPKNDEEFIISSDDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTKKQRKEERASLGLV
TGAEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
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="WMX17849.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLRLELGPEINPYLAHLSRMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD
IRNNFFHYNQGSDSRMCLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP
TVESKTKPFSIPVLTISEMSNSRFPVPIDSLHTSPTDNVVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGMLTRPASRASDQTDTATPRSFNNHWYIQLDNLNGTPYDPSEDIPGP
LGTPDFRGKVFGVASQRNSDATTRAHEAKIDTTSARFTPKLGSLEISTESEDFDQNKP
TRFTPVGIGVDHEADFQQWTLPNYAGPLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSDGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFITIA
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="WMX17850.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANVINQTVDFENNKHLQNA
SFNHDKEMLKAQIEATKNLQASMISIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSLSGGFTNQTVHRSVPNFKVNQTPKSAPSGGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtact atctaatatg gccgtcacct tcaaacgagc
121 cctcggggcg cggcctaaac agccgcccct gagggacaaa ccaccaaagc ccccaagacc
181 tcccacacca gaattggtta aatcaatccc ccctccccca cccaacggag aggacgaacc
241 aatcatttct tataacgtca aacagggtat ttctggtttg cctgagctct caactgtcac
301 ccaaccggaa gagaactcta cagcatttag cgttccccct cttagtcaga gggagaacag
361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca
421 ttatggctta tatgtggaac gagggctagt actaggcgtg cacaaaccac cagcagccat
481 cagccttgcc aaggttgagc tgaccccctt gtccttgtat tggaggccag tgtacacccc
541 acagtacctc atttcccctg atactctcag aaagttgcat ggggaaacgt tcccttatat
601 agcctttgac aacaactgtt acgccttctg ctgttgggtg cttgacttga acgattcatg
661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa
721 taggaagccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atattatcct
781 ctgtgctctt gcatcattgt tcacaagacc aattaaggac attattggga agttgaaacc
841 cctaaacatc ctcaacatct tagccacatg tgattggact ttttcgggca tagtagaatc
901 cctgatcctc ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat
961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggagct
1021 cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caaaatgctt tcatctgccg cttcaacctt gagggcatgc aaagacctcg gtgcatatgg
1141 gttggagatc ctcaaattgg tcatgaaatg gttcttccca aagaaagaag agaaaaccga
1201 attggaaatg gtgagagcaa tcgaggatgc agtgctagat cttgaggcca ttgagaacaa
1261 ccatatgaca actctactca aggacagaga cagccttgca acctacatga agactcttga
1321 catagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg acattgtggg
1381 cacgataaac gccctactgg caaggattgc agctgcccgg tctctagtgc acagggctaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atctcaggga gaccaggtat
1501 aggaaaaacc catctagcta gagaggttgc aaagaagatc gcctccacac tcacaggtga
1561 tcagagggtg ggtctaatcc cacgcaacgg ggtcgatcac tgggattcgt acagaggtga
1621 aagaatcgtt ctctgggacg actatggaat gagcaatccc atccacgacg ccctcagact
1681 ccaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 caaggttttt gacagtgacg tcataatgat aaccaccaat ttggcaaacc cagcgccact
1801 ggactacgtc aactttgaag cgtgctcaag acgcatagac ttcctcgttt atgctgaatc
1861 ccctgaagtt gagaaggcta agcgggactt cccaggccaa ccagacatgt ggaaagatgc
1921 cttcaaacct gacggctcac atataaaatt gacattagcc ccacaagggg gttttgacaa
1981 aaatggcaac actccttatg ggaagggtgt catgaagacc ctcactgcca gctccctcgt
2041 tgcccgagca tcagggctcc tccatgagag gttagacgag tatgagctgc aggggccagc
2101 ccccacgaca ttcaacttcg accgcaacaa ggttctcgct tttaggcagc ttgctgctga
2161 aaacaagtac ggccttgttg acacaatgag ggtcggagca cagctcaaga acgtcaaaac
2221 catgacagaa ctcaagcagg ctctcaagaa catctcagtc aagaaatgcc agcttgtata
2281 tggtgggagc acgtacacac ttgaatctga tggcaaaggc aatgtgcatg tcgagaaggt
2341 gaacaacacc agtgtgcaaa ctaacaatga gctctccggg gttttgcacc acctcaggag
2401 tgccagaatc aggtactatg ttaagtgcgt ccaggaagct ctctattcca tcattcaaat
2461 tgccggggct gcattcatca ccactcgcat tgcaaggcgc atgaacatac aaaacctctg
2521 gtccaaacca caagcagaag atttggagga gactaacaac gtggagggtt gtccaaaacc
2581 taaaaatgat gaagaattca tcatctcctc cgacgacatc aaagccgagg gcaagaaagg
2641 taagaacaag tctggccgtg gcaagaagca cacagccttt tccagcaaag ggcttagtga
2701 tgaggagtac gatgagttca aaagaatcag ggaagagaga aatggcaaat actccataga
2761 ggaatatcta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga
2821 ggaagacttc tgtgaagaag aagaggcaaa aatccgacaa aggatattta gaccaacaaa
2881 gaaacagcgc aaagaagaaa gagcctctct cggtttggtc acaggtgctg agatcaggaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gccgatgatg acaggaatgt
3001 tgactataat gagaaactca gtttcgaggc cccaccaagc atttggtcac gaatagtcaa
3061 ctttggctcg ggatggggtt tctgggtctc gcccagcctc ttcataacat caacccatgt
3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aagcaaattc aaattcacaa
3181 gtcgggtgaa ttctgccggc ttagattccc aaagccaatc 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 actcccggcg attgtggttg tccctatatc tacaaaagag ggaacgacta
3481 cgttgtcatt ggggttcaca cagccgccgc tcgtggagga aacaccgtca tctgtgcaac
3541 ccaaggaagc gagggtgagg ctgtgctaga aggtggtgac aacaagggaa cttactgtgg
3601 ggcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccccctgc cacccggaac ctatgaacca gcttacctag gtggcaagga
3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggatcagc taaagccatt
3781 cactgagccc agaggcaagc caccaaaacc aagtgtgcta gaagctgcta aaaagactat
3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaagcgtg
3901 tgcatcatta gataagacca cctccagcgg ccaccctcac 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 tgggttgatg gacgaactca aggcccactg
4201 tgtcacacta ccagtcagag ttggcatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat accattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtactggctg cagccctgga aataatggtc aaattctcac cagaacccca
4381 tctggctcaa gtggttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt
4441 caagatatca atcaacgagg gattaccctc tggtgttccc tgcacctcac aatggaactc
4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 catcaaattg gatccagaga aattaacaac aaaattgaag gaatacggac taaaaccaac
4681 ccgccctgac aaaacagaag gacccttgat tatctctgaa gatttgaatg gcctaacatt
4741 cttacggaga acggtaaccc gtgatccggc cgggtggttt ggcaaactgg atcaaagctc
4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta ttgggtgaag ctgcgttgca
4921 tggcccgtca ttttacagta aaatcagcaa attggtcatc tcagaattga aagagggtgg
4981 aatggatttt tacgtgccca gacaagaacc aatgttcaga tggatgagat tctcagactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agaaccagtg gcgggtgcag cgttagcagc gcccctcact ggtcagcaaa
5221 atataattga tccctggatt atgaataatt ttgtacaagc acctggtggt gagttcacag
5281 tgtcccctag aaattcccct ggtgaagttc tccttaggtt ggaattaggt ccagaaataa
5341 atccctattt ggcccatctt tctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaattttcc aatcgacaac ctgagtgcag cacagatcac aatgtgtcca catgtgatcg
5521 tggacgtcag acagctggaa ccagtcaacc tcccgttgcc tgacattcgc aacaatttct
5581 ttcattataa tcaagggtct gactcaagaa tgtgcttagt tgcaatgttg tatacacctc
5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgcagagtg ttaactagac
5701 ctagtcctga cttcgcattt aatttccttg tgccacccac tgtggagtca aagacaaaac
5761 ccttttccat ccctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtgccaa
5821 ttgattccct gcacaccagc cctactgata atgttgttgt ccagtgtcaa aatgggcgcg
5881 tcacccttga cggtgagttg atgggcacca cccaactctt acctagtcaa atctgtgctt
5941 tcaggggcat gctcaccaga ccagcaagca gggccagtga ccagaccgat acagcaaccc
6001 ccagatcgtt caacaatcat tggtacatac aattggataa tctaaatgga actccttatg
6061 acccttcaga agatatacca ggccccttgg gaacaccaga ttttcggggc aaagtctttg
6121 gcgtggccag ccagagaaat tctgatgcta caactagggc acatgaagca aagatagaca
6181 caacatctgc ccgtttcacc ccaaaattag gttcattaga aatttccact gaatctgaag
6241 actttgacca aaataaacca acaagattca ccccagttgg cattggggtc gaccatgagg
6301 cagactttca acaatggact cttcccaact atgctggccc gctcacccac aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgagcaact ccttttcttc cgctcacagt
6421 tgccatcttc tggtgggcga tccgatggga tcctagactg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagaa tcagccccct cccaatctca agtggccctg gttaggtatg
6541 tcaaccctga cactggtaga gtgttatttg aggccaaatt gcacaaattg ggttttataa
6601 ccatagccaa aaatggtgat tctccaataa cagtcccccc aaatggatat tttaggtttg
6661 agtcttgggt gaaccccttt tacacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgtagggtct ttagttaatg caggggctaa tgtcattaat caaacagttg attttgaaaa
6841 caataaacat ttgcaaaatg cttcttttaa tcatgataag gaaatgttga aagcacaaat
6901 tgaggcaaca aagaatttac aggccagcat gatttctatc aaacaagggg ttttgaccgc
6961 tggcggcttt tcccctactg atgcggcccg cggggcaatc aacgccccca tgacaaaagt
7021 cctagactgg aatggcacga gacactgggc accaggtgcc acctccacaa cctcgttgtc
7081 gggtggcttt acaaatcaaa ctgtgcacag atctgtacca aattttaaag tgaaccagac
7141 ccccaaatcc gcacccagtg gtgggtcttc agtaaggtca aattcaaccc aaatcactag
7201 cttgagctca cactcgtccg ggtcgtctcg atccagcggg tctacagttg tcagctcaat
7261 accatcctct aacaggacta gggattgggt cacccaacaa aactttaatt tggaaccaca
7321 catgcctggg tctcttagga cagcttttgt cactccacca tctagtacag cctctagctc
7381 aggcacagtc tcaactgtac ctaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa
7501 agattattat aaatttgatt taaattagat ttaatttgga
//