LIM domain only 6 is a three LIM domain-containing protein. The LIM domain is a cysteine-rich sequence motif that binds zinc atoms to form a specific protein-binding interface for protein-protein interactions. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for PRICKLE3. 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 = PRICKLE3 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 PRICKLE3, 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 |
|---|---|---|---|---|
| chrX:48,891,080–48,891,988 | 294.6 kb | Distal (>10kb) Multiome | 525 | |
| chrX:48,897,163–48,898,345 | 288.5 kb | Distal (>10kb) Multiome | 672 | |
| chrX:48,911,574–48,912,414 | 274.5 kb | Distal (>10kb) Multiome | 671 | |
| chrX:48,917,179–48,917,999 | 268.9 kb | Distal (>10kb) Multiome | 468 | |
| chrX:48,918,412–48,919,792 | 267.2 kb | Distal (>10kb) Multiome | 693 | |
| chrX:48,957,469–48,959,105 | 228.0 kb | Distal (>10kb) Multiome | 722 | |
| chrX:49,001,538–49,002,676 | 184.0 kb | Distal (>10kb) Multiome | 540 | |
| chrX:49,039,840–49,040,493 | 146.2 kb | Distal (>10kb) Multiome | 436 | |
| chrX:49,042,954–49,044,182 | 142.7 kb | Distal (>10kb) Multiome | 664 | |
| chrX:49,053,328–49,054,050 | 132.7 kb | Distal (>10kb) Multiome | 403 | |
| chrX:49,071,863–49,072,612 | 114.3 kb | Distal (>10kb) Multiome | 107 | |
| chrX:49,073,903–49,074,451 | 112.3 kb | Distal (>10kb) Multiome | 464 | |
| chrX:49,100,885–49,101,855 | 85.1 kb | Distal (>10kb) Multiome | 562 | |
| chrX:49,155,633–49,156,658 | 30.3 kb | Distal (>10kb) Multiome | 524 | |
| chrX:49,163,555–49,164,377 | 22.3 kb | Distal (>10kb) Multiome | 485 | |
| chrX:49,166,140–49,166,713 | 19.9 kb | Distal (>10kb) Multiome | 416 | |
| chrX:49,184,219–49,185,254 | 1.8 kb | Proximal (<10kb) Multiome | 389 | |
| chrX:49,186,113–49,186,660 | 1.2 kb | Proximal (<10kb) | 589 | |
| chrX:49,190,730–49,191,899 | 4.8 kb | Proximal (<10kb) Multiome | 636 | |
| chrX:49,199,793–49,200,448 | 13.8 kb | Distal (>10kb) Multiome | 806 | |
| chrX:49,230,792–49,231,268 | 44.6 kb | Distal (>10kb) Multiome | 221 | |
| chrX:49,268,786–49,270,236 | 83.0 kb | Distal (>10kb) Multiome | 603 |
Genomic view of the PRICKLE3 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.