This gene encodes a cytoskeleton-associated protein that inhibits actin filament depolymerization and cross-links filaments in bundles. It is downregulated in some cancer cell lines. Alternatively spliced transcript variants encoding different isoforms have been described for this gene, and expression of some of the variants maybe independently regulated. [provided by RefSeq, Aug 2011]
Transcription factors with Perturb-seq knockdown data for LIMA1. 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 = LIMA1 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 LIMA1, 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 |
|---|---|---|---|---|
| chr12:49,945,408–49,945,886 | 337.8 kb | Distal (>10kb) Multiome | 520 | |
| chr12:49,961,271–49,962,190 | 321.8 kb | Distal (>10kb) Multiome | 164 | |
| chr12:49,966,854–49,967,924 | 316.1 kb | Distal (>10kb) Multiome | 698 | |
| chr12:50,024,956–50,025,990 | 257.9 kb | Distal (>10kb) Multiome | 829 | |
| chr12:50,050,458–50,051,443 | 232.6 kb | Distal (>10kb) Multiome | 412 | |
| chr12:50,057,263–50,058,231 | 225.8 kb | Distal (>10kb) Multiome | 437 | |
| chr12:50,084,798–50,085,859 | 198.2 kb | Distal (>10kb) Multiome | 715 | |
| chr12:50,110,765–50,112,744 | 171.5 kb | Distal (>10kb) Multiome | 967 | |
| chr12:50,166,692–50,167,931 | 116.0 kb | Distal (>10kb) Multiome | 812 | |
| chr12:50,222,571–50,222,760 | at TSS | At TSS | 274 | |
| chr12:50,224,425–50,224,593 | 1.7 kb | Proximal (<10kb) | 246 | |
| chr12:50,232,842–50,233,291 | 50.4 kb | Distal (>10kb) Multiome HiCAR | 105 | |
| chr12:50,283,141–50,284,081 | 56 bp | At TSS Multiome HiCAR | 750 | |
| chr12:50,400,518–50,401,658 | 117.4 kb | Distal (>10kb) Multiome | 948 | |
| chr12:50,504,583–50,505,803 | 221.5 kb | Distal (>10kb) Multiome | 806 |
Genomic view of the LIMA1 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.