This gene encodes a protein that is upregulated during apoptosis where it translocates rapidly from the cytoplasm to the nucleus. The encoded protein may be an important regulator of K(lysine) acetyltransferase 5 (a protein involved in transcription, DNA damage response and cell cycle control) by inhibiting its proteasome-dependent degradation. Pseudogenes have been identified on chromosomes 5 and 12 [provided by RefSeq, Dec 2010]
Transcription factors with Perturb-seq knockdown data for PDCD5. 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 = PDCD5 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 |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of PDCD5, 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 |
|---|---|---|---|---|
| chr19:30,584,020–30,584,654 | 1996.8 kb | Distal (>10kb) Multiome HiCAR | 70 | |
| chr19:32,345,298–32,346,342 | 235.5 kb | Distal (>10kb) Multiome | 791 | |
| chr19:32,403,163–32,403,921 | 177.7 kb | Distal (>10kb) Multiome | 151 | |
| chr19:32,405,092–32,406,553 | 175.4 kb | Distal (>10kb) Multiome | 914 | |
| chr19:32,580,669–32,581,896 | 55 bp | At TSS Multiome | 774 | |
| chr19:32,674,338–32,676,683 | 94.1 kb | Distal (>10kb) Multiome | 792 | |
| chr19:32,691,659–32,692,482 | 110.8 kb | Distal (>10kb) Multiome | 839 | |
| chr19:32,701,845–32,702,627 | 121.1 kb | Distal (>10kb) Multiome | 257 | |
| chr19:32,706,824–32,707,422 | 125.9 kb | Distal (>10kb) Multiome | 106 |
Genomic view of the PDCD5 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.