This gene encodes an aldehyde dehydrogenase enzyme that uses retinal as a substrate. Mutations in this gene have been associated with microphthalmia, isolated 8, and expression changes have also been detected in tumor cells. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jun 2014]
Transcription factors with Perturb-seq knockdown data for ALDH1A3. 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 = ALDH1A3 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 ALDH1A3, 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 |
|---|---|---|---|---|
| chr15:100,340,630–100,342,607 | 537.7 kb | Distal (>10kb) Multiome HiCAR | 629 | |
| chr15:100,349,411–100,350,616 | 529.7 kb | Distal (>10kb) Multiome HiCAR | 588 | |
| chr15:100,601,704–100,603,366 | 277.4 kb | Distal (>10kb) Multiome | 808 | |
| chr15:100,703,026–100,703,737 | 176.5 kb | Distal (>10kb) Multiome HiCAR | 232 | |
| chr15:100,759,705–100,760,315 | 119.9 kb | Distal (>10kb) Multiome | 302 | |
| chr15:100,869,654–100,869,820 | 10.0 kb | Proximal (<10kb) | 106 | |
| chr15:100,873,152–100,873,355 | 6.5 kb | Proximal (<10kb) | 176 | |
| chr15:100,878,673–100,880,993 | 224 bp | At TSS Multiome | 455 | |
| chr15:100,917,841–100,918,691 | 38.3 kb | Distal (>10kb) Multiome | 405 | |
| chr15:100,918,843–100,920,172 | 39.7 kb | Distal (>10kb) Multiome | 364 | |
| chr15:101,008,268–101,008,757 | 128.8 kb | Distal (>10kb) Multiome | 571 | |
| chr15:101,088,678–101,089,262 | 209.2 kb | Distal (>10kb) Multiome | 541 |
Genomic view of the ALDH1A3 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.