This gene encodes a member of the potassium-dependent sodium/calcium exchanger protein family. The encoded protein plays an important role in sodium/calcium exchange in retinal rod and cone photoreceptors by mediating the extrusion of one calcium ion and one potassium ion in exchange for four sodium ions. Mutations in this gene may play a role in congenital stationary night blindness. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Dec 2011]
Transcription factors with Perturb-seq knockdown data for SLC24A1. 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 = SLC24A1 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 SLC24A1, 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 |
|---|---|---|---|---|
| chr15:65,355,116–65,356,095 | 255.8 kb | Distal (>10kb) Multiome | 288 | |
| chr15:65,376,859–65,378,657 | 233.4 kb | Distal (>10kb) Multiome | 612 | |
| chr15:65,384,869–65,386,083 | 225.6 kb | Distal (>10kb) Multiome | 703 | |
| chr15:65,400,812–65,401,824 | 209.9 kb | Distal (>10kb) Multiome | 406 | |
| chr15:65,414,873–65,415,582 | 196.1 kb | Distal (>10kb) Multiome | 333 | |
| chr15:65,421,061–65,422,050 | 189.8 kb | Distal (>10kb) Multiome | 457 | |
| chr15:65,422,462–65,423,579 | 188.3 kb | Distal (>10kb) Multiome | 450 | |
| chr15:65,517,110–65,517,892 | 93.7 kb | Distal (>10kb) Multiome | 1031 | |
| chr15:65,521,411–65,521,886 | 89.8 kb | Distal (>10kb) Multiome | 35 | |
| chr15:65,530,109–65,531,265 | 80.9 kb | Distal (>10kb) Multiome | 922 | |
| chr15:65,610,849–65,611,766 | 97 bp | At TSS Multiome | 1108 | |
| chr15:65,612,004–65,612,360 | 639 bp | At TSS | 105 | |
| chr15:65,652,430–65,652,770 | at TSS | At TSS | 26 | |
| chr15:65,791,540–65,792,954 | 180.9 kb | Distal (>10kb) Multiome | 949 | |
| chr15:65,832,500–65,833,207 | 221.5 kb | Distal (>10kb) Multiome HiCAR | 923 | |
| chr15:65,868,825–65,870,066 | 258.0 kb | Distal (>10kb) Multiome HiCAR | 1036 |
Genomic view of the SLC24A1 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.