This gene encodes a member of a family of proteins that possess a 100-amino acid PDZ domain at the N terminus and one to three LIM domains at the C-terminus. This family member functions as a scaffold protein that tethers protein kinases to the Z-disk in striated muscles. It is thought to function in cardiomyocyte expansion and in restraining postsynaptic growth of excitatory synapses. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Jan 2012]
Transcription factors with Perturb-seq knockdown data for PDLIM5. 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 = PDLIM5 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 PDLIM5, 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 |
|---|---|---|---|---|
| chr4:94,151,964–94,152,994 | 299.3 kb | Distal (>10kb) Multiome | 139 | |
| chr4:94,175,187–94,176,204 | 276.3 kb | Distal (>10kb) Multiome | 127 | |
| chr4:94,207,175–94,208,309 | 244.2 kb | Distal (>10kb) Multiome | 973 | |
| chr4:94,333,062–94,333,557 | 118.5 kb | Distal (>10kb) Multiome | 142 | |
| chr4:94,382,686–94,383,584 | 68.7 kb | Distal (>10kb) Multiome | 56 | |
| chr4:94,448,860–94,449,518 | 2.4 kb | Proximal (<10kb) | 200 | |
| chr4:94,451,263–94,452,950 | 20 bp | At TSS Multiome | 858 |
Genomic view of the PDLIM5 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.