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Center for Computational Systems Medicine
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Gene summary

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Gene structures and expression levels

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Exon skipping events with PSIs in TCGA

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Exon skipping events with PSIs in GTEx

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Open reading frame (ORF) annotation in the exon skipping event

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Exon skipping events in the canonical protein sequence

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SNVs in the skipped exons with depth of coverage

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Splicing Quantitative Trait Loci (sQTLs) in the skipped exons

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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon

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Related drugs with this gene

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Related diseases with this gene

Gene summary for PRMT7

check button Gene summary
Gene informationGene symbol

PRMT7

Gene ID

54496

Gene nameprotein arginine methyltransferase 7
SynonymsSBIDDS
Cytomap

16q22.1

Type of geneprotein-coding
Descriptionprotein arginine N-methyltransferase 7[Myelin basic protein]-arginine N-methyltransferase PRMT7histone-arginine N-methyltransferase PRMT7
Modification date20180523
UniProtAcc

Q9NVM4

ContextPubMed: PRMT7 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract]
- Title (PMID)

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
PRMT7

GO:0016571

histone methylation

15494416

PRMT7

GO:0018216

peptidyl-arginine methylation

15044439


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Exon skipping events across known transcript of Ensembl for PRMT7 from UCSC genome browser

check buttonSkipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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Gene isoform structures and expression levels for PRMT7

check button Expression levels of gene isoforms across TCGA.
gencode gene structure

check button Expression levels of gene isoforms across GTEx.
gencode gene structure


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Exon skipping events with PSIs in TCGA for PRMT7

check button Information of exkip skipping event in TCGA.
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_1380101668344972:68345002:68349799:68349977:68355328:6835536568349799:68349977ENSG00000132600.12ENST00000565356.1,ENST00000449359.3,ENST00000562381.3
exon_skip_1380151668344965:68345014:68345944:68346079:68355328:6835536568345944:68346079ENSG00000132600.12ENST00000564441.1
exon_skip_1380161668344965:68345014:68349799:68349977:68355328:6835536568349799:68349977ENSG00000132600.12ENST00000569047.3
exon_skip_1380181668345036:68345648:68345944:68346079:68349799:6834986068345944:68346079ENSG00000132600.12ENST00000339507.5,ENST00000441236.1,ENST00000348497.4
exon_skip_1380221668345944:68346079:68349799:68349977:68355328:6835536568349799:68349977ENSG00000132600.12ENST00000566657.1,ENST00000339507.5,ENST00000441236.1,ENST00000348497.4
exon_skip_1380241668345944:68346079:68355328:68355365:68358585:6835866968355328:68355365ENSG00000132600.12ENST00000564441.1
exon_skip_1380251668349881:68349977:68355328:68355365:68358585:6835866968355328:68355365ENSG00000132600.12ENST00000566657.1,ENST00000565745.1,ENST00000339507.5,ENST00000568975.1,ENST00000569047.3,ENST00000561806.1,ENST00000563562.1,ENST00000569571.1,ENST00000565356.1,ENST00000348497.4,ENST00000562381.3,ENST00000562456.1
exon_skip_1380271668349881:68349977:68358585:68358735:68362968:6836306268358585:68358735ENSG00000132600.12ENST00000562050.1,ENST00000566341.1
exon_skip_1380301668355328:68355365:68358585:68358735:68362968:6836306268358585:68358735ENSG00000132600.12ENST00000339507.5,ENST00000568975.1,ENST00000569047.3,ENST00000561806.1,ENST00000569571.1,ENST00000563520.1,ENST00000565356.1,ENST00000562381.3,ENST00000564441.1
exon_skip_1380321668358709:68358735:68362968:68363077:68371361:6837142468362968:68363077ENSG00000132600.12ENST00000339507.5,ENST00000568975.1,ENST00000569047.3,ENST00000562050.1,ENST00000569571.1,ENST00000563520.1,ENST00000565356.1,ENST00000566341.1,ENST00000562381.3,ENST00000564441.1
exon_skip_1380341668380047:68380183:68381113:68381197:68381533:6838158168381113:68381197ENSG00000132600.12ENST00000339507.5,ENST00000568975.1,ENST00000441236.1,ENST00000566687.1,ENST00000449359.3
exon_skip_1380431668381113:68381197:68381533:68381581:68382244:6838233468381533:68381581ENSG00000132600.12ENST00000339507.5,ENST00000568975.1,ENST00000441236.1,ENST00000566687.1,ENST00000449359.3
exon_skip_1380461668381533:68381581:68382244:68382334:68386150:6838621868382244:68382334ENSG00000132600.12ENST00000339507.5,ENST00000568975.1,ENST00000441236.1,ENST00000449359.3
exon_skip_1380591668389733:68389786:68390603:68390700:68390956:6839110568390603:68390700ENSG00000132600.12ENST00000339507.5,ENST00000568975.1,ENST00000441236.1,ENST00000348497.4,ENST00000449359.3,ENST00000567542.1,ENST00000568463.1

check button PSI values of skipped exons in TCGA.
psi tcga

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Exon skipping events with PSIs in GTEx for PRMT7

check button Information of exkip skipping event in GTEx
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_1380101668344972:68345002:68349799:68349977:68355328:6835536568349799:68349977ENSG00000132600.12ENST00000562381.3,ENST00000449359.3,ENST00000565356.1
exon_skip_1380151668344965:68345014:68345944:68346079:68355328:6835536568345944:68346079ENSG00000132600.12ENST00000564441.1
exon_skip_1380161668344965:68345014:68349799:68349977:68355328:6835536568349799:68349977ENSG00000132600.12ENST00000569047.3
exon_skip_1380181668345036:68345648:68345944:68346079:68349799:6834986068345944:68346079ENSG00000132600.12ENST00000441236.1,ENST00000348497.4,ENST00000339507.5
exon_skip_1380221668345944:68346079:68349799:68349977:68355328:6835536568349799:68349977ENSG00000132600.12ENST00000566657.1,ENST00000441236.1,ENST00000348497.4,ENST00000339507.5
exon_skip_1380241668345944:68346079:68355328:68355365:68358585:6835866968355328:68355365ENSG00000132600.12ENST00000564441.1
exon_skip_1380251668349881:68349977:68355328:68355365:68358585:6835866968355328:68355365ENSG00000132600.12ENST00000566657.1,ENST00000562381.3,ENST00000565745.1,ENST00000569571.1,ENST00000569047.3,ENST00000565356.1,ENST00000348497.4,ENST00000339507.5,ENST00000568975.1,ENST00000563562.1,ENST00000561806.1,ENST00000562456.1
exon_skip_1380261668349881:68349977:68355328:68355365:68362968:6836306268355328:68355365ENSG00000132600.12ENST00000449359.3,ENST00000441236.1
exon_skip_1380271668349881:68349977:68358585:68358735:68362968:6836306268358585:68358735ENSG00000132600.12ENST00000566341.1,ENST00000562050.1
exon_skip_1380301668355328:68355365:68358585:68358735:68362968:6836306268358585:68358735ENSG00000132600.12ENST00000562381.3,ENST00000569571.1,ENST00000569047.3,ENST00000564441.1,ENST00000565356.1,ENST00000563520.1,ENST00000339507.5,ENST00000568975.1,ENST00000561806.1
exon_skip_1380321668358709:68358735:68362968:68363077:68371361:6837142468362968:68363077ENSG00000132600.12ENST00000562381.3,ENST00000569571.1,ENST00000566341.1,ENST00000569047.3,ENST00000564441.1,ENST00000565356.1,ENST00000562050.1,ENST00000563520.1,ENST00000339507.5,ENST00000568975.1
exon_skip_1380341668380047:68380183:68381113:68381197:68381533:6838158168381113:68381197ENSG00000132600.12ENST00000449359.3,ENST00000441236.1,ENST00000339507.5,ENST00000568975.1,ENST00000566687.1
exon_skip_1380431668381113:68381197:68381533:68381581:68382244:6838233468381533:68381581ENSG00000132600.12ENST00000449359.3,ENST00000441236.1,ENST00000339507.5,ENST00000568975.1,ENST00000566687.1
exon_skip_1380461668381533:68381581:68382244:68382334:68386150:6838621868382244:68382334ENSG00000132600.12ENST00000449359.3,ENST00000441236.1,ENST00000339507.5,ENST00000568975.1
exon_skip_1380591668389733:68389786:68390603:68390700:68390956:6839110568390603:68390700ENSG00000132600.12ENST00000449359.3,ENST00000441236.1,ENST00000348497.4,ENST00000339507.5,ENST00000568975.1,ENST00000567542.1,ENST00000568463.1

check button PSI values of skipped exons in GTEx.
psi gtex

* Skipped exon sequences.

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Open reading frame (ORF) annotation in the exon skipping event for PRMT7

check button Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST0000033950768349799683499775CDS-5UTR
ENST0000044123668349799683499775CDS-5UTR
ENST0000033950768345944683460795UTR-5UTR
ENST0000044123668345944683460795UTR-5UTR
ENST000003395076835532868355365Frame-shift
ENST000003395076836296868363077Frame-shift
ENST000003395076839060368390700Frame-shift
ENST000004412366839060368390700Frame-shift
ENST000003395076835858568358735In-frame
ENST000003395076838111368381197In-frame
ENST000004412366838111368381197In-frame
ENST000003395076838153368381581In-frame
ENST000004412366838153368381581In-frame
ENST000003395076838224468382334In-frame
ENST000004412366838224468382334In-frame

check button Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST0000033950768349799683499775CDS-5UTR
ENST0000044123668349799683499775CDS-5UTR
ENST0000033950768345944683460795UTR-5UTR
ENST0000044123668345944683460795UTR-5UTR
ENST000003395076835532868355365Frame-shift
ENST000004412366835532868355365Frame-shift
ENST000003395076836296868363077Frame-shift
ENST000003395076839060368390700Frame-shift
ENST000004412366839060368390700Frame-shift
ENST000003395076835858568358735In-frame
ENST000003395076838111368381197In-frame
ENST000004412366838111368381197In-frame
ENST000003395076838153368381581In-frame
ENST000004412366838153368381581In-frame
ENST000003395076838224468382334In-frame
ENST000004412366838224468382334In-frame

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Infer the effects of exon skipping event on protein functional features for PRMT7

check button Exon skipping at the protein sequence level and followed lost functional features.
* Click on the image to enlarge it in a new window.
prot feature distribution

check button Loci of skipped exons in TCGA across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST000003395074255692683585856835873596311124494
ENST000004412362813692683811136838119718741957347375
ENST000004412362813692683815336838158119582005375391
ENST000004412362813692683822446838233420062095391421
ENST000003395074255692683811136838119720222105397425
ENST000003395074255692683815336838158121062153425441
ENST000003395074255692683822446838233421542243441471

check button Loci of skipped exons in GTEx across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST000003395074255692683585856835873596311124494
ENST000004412362813692683811136838119718741957347375
ENST000004412362813692683815336838158119582005375391
ENST000004412362813692683822446838233420062095391421
ENST000003395074255692683811136838119720222105397425
ENST000003395074255692683815336838158121062153425441
ENST000003395074255692683822446838233421542243441471

check button Lost protein functional features of individual exon skipping events in TCGA.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature
Q9NVM444944594Alternative sequenceID=VSP_037253;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039
Q9NVM444941692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4449414345DomainNote=SAM-dependent MTase PRMT-type 1;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM43473751692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4347375358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM43753911692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4375391358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4375391387387Natural variantID=VAR_076330;Note=In SBIDDS. R->G;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:26437029;Dbxref=dbSNP:rs762515973,PMID:26437029
Q9NVM4391421399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM43914211692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4391421358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4397425399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM43974251692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4397425358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4425441399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM44254411692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4425441358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4441471399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM44414711692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4441471358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015


check button Lost protein functional features of individual exon skipping events in GTEx.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature
Q9NVM444944594Alternative sequenceID=VSP_037253;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039
Q9NVM444941692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4449414345DomainNote=SAM-dependent MTase PRMT-type 1;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM43473751692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4347375358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM43753911692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4375391358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4375391387387Natural variantID=VAR_076330;Note=In SBIDDS. R->G;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:26437029;Dbxref=dbSNP:rs762515973,PMID:26437029
Q9NVM4391421399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM43914211692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4391421358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4397425399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM43974251692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4397425358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4425441399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM44254411692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4425441358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015
Q9NVM4441471399472Alternative sequenceID=VSP_005214;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11572484;Dbxref=PMID:11572484
Q9NVM44414711692ChainID=PRO_0000212335;Note=Protein arginine N-methyltransferase 7
Q9NVM4441471358684DomainNote=SAM-dependent MTase PRMT-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01015


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SNVs in the skipped exons for PRMT7

check button - Lollipop plot for presenting exon skipping associated SNVs.
* Click on the image to enlarge it in a new window.
lollipop

check button - Differential PSIs between mutated versus non-mutated samples.

check button - Non-synonymous mutations located in the skipped exons in TCGA.
Cancer typeSampleESIDSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
LIHCTCGA-G3-A3CJ-01exon_skip_138030
exon_skip_138027
68358586683587356835865668358656Frame_Shift_DelT-p.V68fs
LIHCTCGA-DD-A1EG-01exon_skip_138046
68382245683823346838229068382290Frame_Shift_DelA-p.K457fs
THYMTCGA-XM-A8R8-01exon_skip_138032
68362969683630776836300868363008Nonsense_MutationGTp.E108X
CHOLTCGA-3X-AAV9-01exon_skip_138025
exon_skip_138024
68355329683553656835532868355328Splice_SiteGT.
UCECTCGA-AX-A05Z-01exon_skip_138030
exon_skip_138027
68358586683587356835858568358585Splice_SiteGTe3-1
SKCMTCGA-D9-A6EC-06exon_skip_138046
68382245683823346838224368382243Splice_SiteAG.

check button - Depth of coverage in the three exons composing exon skipping event
Depth of coverage in three exonsMutation description

check button - Non-synonymous mutations located in the skipped exons in CCLE.
SampleSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE68358586683587356835870368358703Missense_MutationATp.T84S
LN443_CENTRAL_NERVOUS_SYSTEM68362969683630776836300468363004Missense_MutationTGp.I106M
CW2_LARGE_INTESTINE68362969683630776836302668363026Missense_MutationGAp.D114N
SKMEL2_SKIN68382245683823346838230068382300Missense_MutationATp.E460V
OE21_OESOPHAGUS68390604683907006839062068390620Missense_MutationGAp.A610T
JHH1_LIVER68390604683907006839069668390696Missense_MutationCTp.P635L
HCC2998_LARGE_INTESTINE68349800683499776834997668349976Splice_SiteACp.R32R
EFO27_OVARY68381534683815816838158068381583Splice_SiteAAGT-p.K441fs
J82_URINARY_TRACT68390604683907006839068868390730Splice_SiteTGCAGACCCCGAGGTAGTGCCTGCGCACCGGGCCCAGTGTGCG-p.PADPE632fs

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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for PRMT7

check button sQTL information located at the skipped exons.
Exon skip IDChromosomeThree exonsSkippped exonENSTCancer typeSNP idLocationDNA change (ref/var)P-value

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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for PRMT7


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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for PRMT7


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RelatedDrugs for PRMT7

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.0 2018-04-02)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for PRMT7

check button Diseases associated with this gene.
(DisGeNet 4.0)
GeneDisease IDDisease name# pubmedsSource