This gene encodes a membrane-bound protein from the major facilitator superfamily of transporters. Disruption of this gene by translocation has been associated with haplo-insufficiency and renal cell carcinomas. Alternatively spliced transcript variants have been described, but their biological validity has not yet been determined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SLC49A4. 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 = SLC49A4 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 SLC49A4, 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 |
|---|---|---|---|---|
| chr3:122,514,019–122,515,266 | 280.3 kb | Distal (>10kb) Multiome | 888 | |
| chr3:122,564,086–122,564,854 | 230.7 kb | Distal (>10kb) Multiome | 849 | |
| chr3:122,680,509–122,681,348 | 114.1 kb | Distal (>10kb) Multiome | 567 | |
| chr3:122,798,643–122,799,856 | 4.1 kb | Proximal (<10kb) Multiome | 131 | |
| chr3:122,890,181–122,890,667 | 95.3 kb | Distal (>10kb) Multiome | 154 | |
| chr3:122,942,761–122,943,436 | 148.0 kb | Distal (>10kb) Multiome | 336 | |
| chr3:122,975,104–122,975,992 | 180.5 kb | Distal (>10kb) Multiome | 338 | |
| chr3:123,026,031–123,028,771 | 232.8 kb | Distal (>10kb) Multiome | 478 | |
| chr3:123,066,643–123,067,789 | 272.0 kb | Distal (>10kb) Multiome | 865 | |
| chr3:123,080,786–123,081,476 | 285.9 kb | Distal (>10kb) Multiome | 291 | |
| chr3:123,081,598–123,082,265 | 287.0 kb | Distal (>10kb) Multiome | 186 |
Genomic view of the SLC49A4 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.