Predicted to enable transcription corepressor activity. Involved in several processes, including negative regulation of hippo signaling; negative regulation of macromolecule biosynthetic process; and response to hypoxia. Acts upstream of or within P-body assembly and miRNA-mediated post-transcriptional gene silencing. Located in several cellular components, including P-body; adherens junction; and focal adhesion. Part of RISC complex. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for LIMD1. 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 = LIMD1 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 LIMD1, 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 |
|---|---|---|---|---|
| chr3:45,388,133–45,389,048 | 205.8 kb | Distal (>10kb) Multiome | 847 | |
| chr3:45,593,037–45,594,632 | 970 bp | At TSS Multiome | 938 | |
| chr3:45,673,142–45,673,693 | 79.1 kb | Distal (>10kb) Multiome | 31 | |
| chr3:45,684,209–45,684,875 | 90.3 kb | Distal (>10kb) Multiome | 109 | |
| chr3:45,685,643–45,686,405 | 91.7 kb | Distal (>10kb) Multiome | 42 | |
| chr3:45,688,221–45,689,801 | 94.9 kb | Distal (>10kb) Multiome | 1010 | |
| chr3:45,756,823–45,757,497 | 163.0 kb | Distal (>10kb) Multiome | 7 | |
| chr3:45,760,846–45,761,421 | 166.9 kb | Distal (>10kb) Multiome | 280 | |
| chr3:45,796,192–45,796,864 | 202.2 kb | Distal (>10kb) Multiome | 188 | |
| chr3:45,841,672–45,842,368 | 247.8 kb | Distal (>10kb) Multiome | 746 |
Genomic view of the LIMD1 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.