Mammalian sodium-dicarboxylate cotransporters transport succinate and other Krebs cycle intermediates. They fall into 2 categories based on their substrate affinity: low affinity and high affinity. Both the low- and high-affinity transporters play an important role in the handling of citrate by the kidneys. The protein encoded by this gene represents the high-affinity form. Alternatively spliced transcript variants encoding different isoforms have been found for this gene, although the full-length nature of some of them have not been characterized yet. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SLC13A3. 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 = SLC13A3 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 SLC13A3, 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 |
|---|---|---|---|---|
| chr20:46,363,898–46,364,657 | 287.1 kb | Distal (>10kb) Multiome | 983 | |
| chr20:46,405,903–46,407,320 | 244.9 kb | Distal (>10kb) Multiome | 946 | |
| chr20:46,459,001–46,459,476 | 192.2 kb | Distal (>10kb) Multiome | 157 | |
| chr20:46,513,244–46,513,752 | 137.9 kb | Distal (>10kb) Multiome | 458 | |
| chr20:46,562,567–46,563,148 | 88.6 kb | Distal (>10kb) Multiome | 483 | |
| chr20:46,583,359–46,584,278 | 67.7 kb | Distal (>10kb) Multiome | 196 | |
| chr20:46,648,981–46,649,761 | 2.2 kb | Proximal (<10kb) Multiome | 275 | |
| chr20:46,651,152–46,651,711 | 31 bp | At TSS Multiome | 558 | |
| chr20:46,688,904–46,689,939 | 38.1 kb | Distal (>10kb) Multiome | 940 | |
| chr20:46,709,122–46,710,092 | 58.2 kb | Distal (>10kb) Multiome | 652 | |
| chr20:46,814,576–46,815,121 | 163.4 kb | Distal (>10kb) Multiome | 272 | |
| chr20:46,894,554–46,895,109 | 243.3 kb | Distal (>10kb) Multiome | 179 | |
| chr20:46,898,312–46,898,778 | 247.0 kb | Distal (>10kb) Multiome | 55 |
Genomic view of the SLC13A3 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.