This gene encodes a member of LIM-homeodomain family of proteins containing two N-terminal zinc-binding LIM domains, 1 homeodomain, and a C-terminal glutamine-rich domain. It functions as a transcription factor, and is essential for the normal development of dorsal limb structures, the glomerular basement membrane, the anterior segment of the eye, and dopaminergic and serotonergic neurons. Mutations in this gene are associated with nail-patella syndrome. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2010]
Transcription factors with Perturb-seq knockdown data for LMX1B. 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 = LMX1B 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 LMX1B, 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 |
|---|---|---|---|---|
| chr9:126,326,281–126,327,488 | 287.0 kb | Distal (>10kb) Multiome | 391 | |
| chr9:126,499,263–126,500,429 | 114.4 kb | Distal (>10kb) Multiome | 380 | |
| chr9:126,500,475–126,501,408 | 112.8 kb | Distal (>10kb) Multiome | 410 | |
| chr9:126,513,839–126,514,723 | 99.6 kb | Distal (>10kb) Multiome | 300 | |
| chr9:126,558,118–126,558,952 | 55.5 kb | Distal (>10kb) Multiome | 249 | |
| chr9:126,563,772–126,564,725 | 49.6 kb | Distal (>10kb) Multiome | 196 | |
| chr9:126,611,172–126,613,546 | 2.2 kb | Proximal (<10kb) Multiome | 435 | |
| chr9:126,613,728–126,614,227 | 11 bp | At TSS Multiome | 310 | |
| chr9:126,615,045–126,616,083 | 1.1 kb | Proximal (<10kb) | 172 | |
| chr9:126,618,749–126,619,087 | 4.8 kb | Proximal (<10kb) | 76 | |
| chr9:126,638,337–126,639,289 | 24.9 kb | Distal (>10kb) Multiome | 121 | |
| chr9:126,642,527–126,643,462 | 29.2 kb | Distal (>10kb) Multiome | 236 | |
| chr9:126,651,890–126,653,007 | 38.4 kb | Distal (>10kb) Multiome | 194 | |
| chr9:126,661,485–126,662,054 | 47.8 kb | Distal (>10kb) Multiome HiCAR | 301 | |
| chr9:126,664,997–126,665,774 | 51.4 kb | Distal (>10kb) Multiome HiCAR | 206 | |
| chr9:126,676,328–126,677,650 | 63.0 kb | Distal (>10kb) Multiome | 280 | |
| chr9:126,702,378–126,702,753 | 88.8 kb | Distal (>10kb) Multiome | 106 | |
| chr9:126,705,159–126,705,769 | 91.5 kb | Distal (>10kb) Multiome | 410 | |
| chr9:126,722,279–126,723,703 | 108.7 kb | Distal (>10kb) Multiome | 486 | |
| chr9:126,781,625–126,782,080 | 168.0 kb | Distal (>10kb) Multiome | 311 | |
| chr9:126,804,620–126,805,548 | 191.1 kb | Distal (>10kb) Multiome | 787 | |
| chr9:126,860,094–126,861,384 | 246.6 kb | Distal (>10kb) Multiome | 736 |
Genomic view of the LMX1B 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.