This gene encodes a protein belonging to a large protein family, members of which carry the LIM domain, a unique cysteine-rich zinc-binding domain. The encoded protein may function as a transcriptional regulator and be involved in the control of differentiation and development of the forebrain. In mice, this protein is essential for the regulation of precursor cell proliferation and the control of neuronal differentiation and migration during hippocampal development. This protein is involved in learning and motor functions in adult mice. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for LHX5. 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 = LHX5 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 LHX5, 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 |
|---|---|---|---|---|
| chr12:113,184,669–113,186,034 | 286.4 kb | Distal (>10kb) Multiome | 1020 | |
| chr12:113,220,621–113,222,139 | 250.6 kb | Distal (>10kb) Multiome | 818 | |
| chr12:113,245,518–113,246,307 | 225.9 kb | Distal (>10kb) Multiome | 649 | |
| chr12:113,334,690–113,335,505 | 136.7 kb | Distal (>10kb) Multiome | 685 | |
| chr12:113,358,144–113,359,258 | 113.3 kb | Distal (>10kb) Multiome | 774 | |
| chr12:113,461,803–113,461,997 | 9.9 kb | Proximal (<10kb) | 78 | |
| chr12:113,462,443–113,462,661 | 9.2 kb | Proximal (<10kb) | 295 | |
| chr12:113,468,422–113,468,712 | 3.2 kb | Proximal (<10kb) | 96 | |
| chr12:113,471,448–113,471,998 | 112 bp | At TSS Multiome | 98 | |
| chr12:113,477,415–113,477,998 | 5.7 kb | Proximal (<10kb) Multiome | 71 | |
| chr12:113,478,379–113,478,918 | 6.5 kb | Proximal (<10kb) | 73 | |
| chr12:113,479,942–113,480,362 | 8.1 kb | Proximal (<10kb) | 394 | |
| chr12:113,514,969–113,515,472 | 43.4 kb | Distal (>10kb) Multiome | 83 | |
| chr12:113,587,617–113,588,195 | 116.0 kb | Distal (>10kb) Multiome | 140 | |
| chr12:113,609,843–113,610,459 | 138.3 kb | Distal (>10kb) Multiome | 80 | |
| chr12:114,403,029–114,403,452 | 931.3 kb | Distal (>10kb) Multiome HiCAR | 112 | |
| chr12:114,405,110–114,405,841 | 933.6 kb | Distal (>10kb) Multiome HiCAR | 90 | |
| chr12:114,408,869–114,409,379 | 937.3 kb | Distal (>10kb) Multiome HiCAR | 79 | |
| chr12:114,668,005–114,669,236 | 1196.6 kb | Distal (>10kb) Multiome HiCAR | 557 | |
| chr12:114,683,478–114,686,174 | 1212.5 kb | Distal (>10kb) Multiome HiCAR | 920 |
Genomic view of the LHX5 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.