This gene encodes a member of the ALP subfamily of PDZ-LIM domain proteins. The encoded protein suppresses anchorage-dependent growth and promotes cell migration and adhesion through interactions with the actin cytoskeleton via the PDZ domain. The encoded protein is also a putative tumor suppressor protein, and decreased expression of this gene is associated with several malignancies including breast cancer and adult T-cell leukemia. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Oct 2011]
Transcription factors with Perturb-seq knockdown data for PDLIM2. 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 = PDLIM2 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 PDLIM2, 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 |
|---|---|---|---|---|
| chr8:22,156,517–22,157,091 | 432.5 kb | Distal (>10kb) Multiome HiCAR | 215 | |
| chr8:22,244,388–22,245,751 | 344.1 kb | Distal (>10kb) Multiome HiCAR | 1013 | |
| chr8:22,365,087–22,366,071 | 223.7 kb | Distal (>10kb) Multiome | 444 | |
| chr8:22,366,837–22,368,383 | 222.0 kb | Distal (>10kb) Multiome | 859 | |
| chr8:22,440,466–22,441,769 | 148.2 kb | Distal (>10kb) Multiome HiCAR | 784 | |
| chr8:22,548,856–22,550,046 | 39.8 kb | Distal (>10kb) Multiome | 539 | |
| chr8:22,551,208–22,552,929 | 37.7 kb | Distal (>10kb) Multiome | 406 | |
| chr8:22,561,173–22,562,479 | 27.4 kb | Distal (>10kb) Multiome | 678 | |
| chr8:22,565,061–22,566,429 | 23.6 kb | Distal (>10kb) Multiome | 404 | |
| chr8:22,574,221–22,574,708 | 14.8 kb | Distal (>10kb) Multiome | 527 | |
| chr8:22,578,724–22,579,696 | 10.1 kb | Distal (>10kb) Multiome | 404 | |
| chr8:22,587,768–22,588,003 | 1.3 kb | Proximal (<10kb) | 142 | |
| chr8:22,588,723–22,589,902 | 46 bp | At TSS Multiome | 612 | |
| chr8:22,594,681–22,595,713 | 6.0 kb | Proximal (<10kb) Multiome | 402 | |
| chr8:22,597,003–22,600,290 | 8.2 kb | Proximal (<10kb) Multiome | 889 | |
| chr8:22,604,300–22,605,436 | 15.5 kb | Distal (>10kb) Multiome | 1053 | |
| chr8:22,622,764–22,623,329 | 33.8 kb | Distal (>10kb) Multiome | 431 | |
| chr8:22,658,639–22,659,248 | 69.6 kb | Distal (>10kb) Multiome | 290 | |
| chr8:22,668,686–22,669,459 | 79.8 kb | Distal (>10kb) Multiome | 637 | |
| chr8:22,691,357–22,691,921 | 102.3 kb | Distal (>10kb) Multiome | 153 | |
| chr8:22,692,857–22,693,984 | 104.2 kb | Distal (>10kb) Multiome | 490 | |
| chr8:22,694,125–22,696,129 | 106.3 kb | Distal (>10kb) Multiome | 662 | |
| chr8:22,864,299–22,865,847 | 275.8 kb | Distal (>10kb) Multiome | 507 |
Genomic view of the PDLIM2 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.