MED25

mediator complex subunit 25 | ACID1, ARC92, DKFZp434K0512, TCBAP0758

This gene encodes a component of the transcriptional coactivator complex termed the Mediator complex. This complex is required for transcription of most RNA polymerase II-dependent genes. The encoded protein plays a role in chromatin modification and in preinitiation complex assembly. Mutations in this gene are associated with Charcot-Marie-Tooth disease type 2B2. [provided by RefSeq, Apr 2010]

Developmental clusters: GC6

Biological processes 19 terms

RNA polymerase II preinitiation complex assembly (GO:0051123)mediator complex (GO:0016592)negative regulation of fibroblast proliferation (GO:0048147)negative regulation of transcription by RNA polymerase II (GO:0000122)nuclear retinoic acid receptor binding (GO:0042974)nuclear retinoid X receptor binding (GO:0046965)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of chromatin binding (GO:0035563)positive regulation of mediator complex assembly (GO:2001178)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription elongation by RNA polymerase II (GO:0032968)positive regulation of transcription initiation by RNA polymerase II (GO:0060261)protein binding (GO:0005515)transcription coactivator binding (GO:0001223)transcription regulator complex (GO:0005667)

Expression (TPM)

TFs regulating MED25 0 TFs

Transcription factors with Perturb-seq knockdown data for MED25. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = MED25 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

TF	Mean coef	Binding	Outlier	TF→Gene link

Rows:

Elements linked to MED25

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of MED25, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Element	Dist. to TSS	Link type	TFs
chr19:49,527,651–49,528,221	290.4 kb	Distal (>10kb) Multiome	354
chr19:49,533,232–49,534,476	284.3 kb	Distal (>10kb) Multiome	534
chr19:49,555,629–49,557,180	262.2 kb	Distal (>10kb) Multiome	294
chr19:49,580,125–49,580,813	237.7 kb	Distal (>10kb) Multiome	848
chr19:49,589,601–49,594,008	224.8 kb	Distal (>10kb) Multiome	994
chr19:49,638,063–49,638,728	180.1 kb	Distal (>10kb) Multiome	237
chr19:49,639,671–49,642,787	177.9 kb	Distal (>10kb) Multiome	1067
chr19:49,664,165–49,665,096	153.8 kb	Distal (>10kb) Multiome	679
chr19:49,665,345–49,666,430	152.4 kb	Distal (>10kb) Multiome	721
chr19:49,672,105–49,672,787	145.9 kb	Distal (>10kb) Multiome	625
chr19:49,676,058–49,678,754	141.4 kb	Distal (>10kb) Multiome	1033
chr19:49,680,433–49,681,147	137.6 kb	Distal (>10kb) Multiome	435
chr19:49,690,485–49,691,761	127.2 kb	Distal (>10kb) Multiome	327
chr19:49,746,188–49,746,748	71.9 kb	Distal (>10kb) Multiome	283
chr19:49,766,231–49,767,440	51.6 kb	Distal (>10kb) Multiome	718
chr19:49,802,146–49,802,787	15.9 kb	Distal (>10kb) Multiome	200
chr19:49,805,226–49,805,871	12.8 kb	Distal (>10kb) Multiome	245
chr19:49,808,201–49,809,746	9.4 kb	Proximal (<10kb) Multiome	509
chr19:49,812,926–49,813,834	4.9 kb	Proximal (<10kb) Multiome	650
chr19:49,817,356–49,818,721	116 bp	At TSS Multiome	784
chr19:49,850,394–49,852,067	32.6 kb	Distal (>10kb) Multiome	862
chr19:49,866,817–49,868,124	49.0 kb	Distal (>10kb) Multiome	874
chr19:49,869,068–49,870,398	51.3 kb	Distal (>10kb) Multiome	832
chr19:49,875,842–49,878,576	59.4 kb	Distal (>10kb) Multiome	1153
chr19:49,889,853–49,891,381	72.1 kb	Distal (>10kb) Multiome	640
chr19:49,928,884–49,930,473	111.6 kb	Distal (>10kb) Multiome	1141
chr19:49,987,157–49,987,669	169.0 kb	Distal (>10kb) Multiome	1095
chr19:50,024,875–50,026,285	207.3 kb	Distal (>10kb) Multiome	1137

Genome Browser

Genomic view of the MED25 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.