TNFRSF25
TNF receptor superfamily member 25 | APO-3, DDR3, DR3, LARD, TR3, TRAMP, WSL-1, WSL-LR, TNFRSF12

The protein encoded by this gene is a member of the TNF-receptor superfamily. This receptor is expressed preferentially in the tissues enriched in lymphocytes, and it may play a role in regulating lymphocyte homeostasis. This receptor has been shown to stimulate NF-kappa B activity and regulate cell apoptosis. The signal transduction of this receptor is mediated by various death domain containing adaptor proteins. Knockout studies in mice suggested the role of this gene in the removal of self-reactive T cells in the thymus. Multiple alternatively spliced transcript variants of this gene encoding distinct isoforms have been reported, most of which are potentially secreted molecules. The alternative splicing of this gene in B and T cells encounters a programmed change upon T-cell activation, which predominantly produces full-length, membrane bound isoforms, and is thought to be involved in controlling lymphocyte proliferation induced by T-cell activation. [provided by RefSeq, Jul 2008]

Developmental clusters: GC6
Biological processes 16 terms
Expression (TPM)
TNFRSF25 — as a Regulated Gene

TFs regulating TNFRSF25 0 TFs

Transcription factors with Perturb-seq knockdown data for TNFRSF25. 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 = TNFRSF25 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to TNFRSF25

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of TNFRSF25, 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.

Accessibility Element Dist. to TSS Link type TFs
chr1:6,199,148–6,200,364 266.5 kb Distal (>10kb) Multiome 992
chr1:6,204,893–6,206,690 260.9 kb Distal (>10kb) Multiome 913
chr1:6,208,737–6,209,635 256.8 kb Distal (>10kb) Multiome 362
chr1:6,235,160–6,236,710 230.2 kb Distal (>10kb) Multiome 673
chr1:6,241,773–6,242,771 223.9 kb Distal (>10kb) Multiome 241
chr1:6,244,532–6,247,144 220.1 kb Distal (>10kb) Multiome 1073
chr1:6,248,779–6,250,153 216.7 kb Distal (>10kb) Multiome 287
chr1:6,259,688–6,261,954 206.0 kb Distal (>10kb) Multiome 550
chr1:6,392,724–6,394,325 72.6 kb Distal (>10kb) Multiome 819
chr1:6,418,998–6,420,339 46.4 kb Distal (>10kb) Multiome 335
chr1:6,440,165–6,441,114 25.6 kb Distal (>10kb) Multiome 215
chr1:6,446,981–6,449,427 19.0 kb Distal (>10kb) Multiome 665
chr1:6,455,053–6,455,773 10.8 kb Distal (>10kb) Multiome HiCAR 105
chr1:6,466,065–6,466,457 at TSS At TSS 116
chr1:6,470,716–6,471,189 4.7 kb Proximal (<10kb) Multiome HiCAR 148
chr1:6,471,308–6,471,972 5.4 kb Proximal (<10kb) Multiome 192
chr1:6,475,592–6,475,800 9.4 kb Proximal (<10kb) 288
chr1:6,486,194–6,486,953 20.5 kb Distal (>10kb) Multiome 416
chr1:6,489,772–6,491,050 23.9 kb Distal (>10kb) Multiome 676
chr1:6,497,162–6,497,841 31.3 kb Distal (>10kb) Multiome 324
chr1:6,554,053–6,554,774 88.4 kb Distal (>10kb) Multiome 897
chr1:6,579,406–6,580,453 113.8 kb Distal (>10kb) Multiome 684
chr1:6,601,460–6,604,144 136.7 kb Distal (>10kb) Multiome 1062
chr1:6,612,539–6,615,225 147.4 kb Distal (>10kb) Multiome 806
chr1:6,624,591–6,625,845 159.0 kb Distal (>10kb) Multiome 730
chr1:6,701,304–6,702,223 235.7 kb Distal (>10kb) Multiome 1025

Genome Browser

Genomic view of the TNFRSF25 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.

chr1:6,189,148 – 6,712,223
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq