This gene encodes a nuclear protein expressed in a variety of tissues. Expression of this gene has been shown to be repressed by B-cell CLL/lymphoma 6 (BCL6), a transcriptional repressor required for lymph node germinal center development, suggesting that BCL6 regulates apoptosis by its effects on this protein. Alternative splicing results in multiple transcript variants and pseudogenes have been identified on chromosomes 9 and 12. [provided by RefSeq, Dec 2010]
Transcription factors with Perturb-seq knockdown data for PDCD2. 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 = PDCD2 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 PDCD2, 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 |
|---|---|---|---|---|
| chr6:170,289,086–170,292,550 | 293.7 kb | Distal (>10kb) Multiome | 490 | |
| chr6:170,295,396–170,297,381 | 288.6 kb | Distal (>10kb) Multiome | 655 | |
| chr6:170,306,110–170,307,169 | 278.0 kb | Distal (>10kb) Multiome | 935 | |
| chr6:170,552,943–170,554,837 | 30.3 kb | Distal (>10kb) Multiome | 1097 | |
| chr6:170,584,110–170,585,439 | 49 bp | At TSS Multiome | 965 | |
| chr6:170,586,394–170,586,723 | 1.8 kb | Proximal (<10kb) | 11 |
Genomic view of the PDCD2 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.