This gene encodes a riboflavin transporter protein that is strongly expressed in the intestine and likely plays a role in intestinal absorption of riboflavin. The protein is predicted to have eleven transmembrane domains and a cell surface localization signal in the C-terminus. Mutations at this locus have been associated with Brown-Vialetto-Van Laere syndrome and Fazio-Londe disease. [provided by RefSeq, Mar 2012]
Transcription factors with Perturb-seq knockdown data for SLC52A3. 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 = SLC52A3 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 SLC52A3, 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 |
|---|---|---|---|---|
| chr20:543,069–544,398 | 232.1 kb | Distal (>10kb) Multiome | 965 | |
| chr20:555,914–556,523 | 219.8 kb | Distal (>10kb) Multiome | 249 | |
| chr20:574,398–574,909 | 201.3 kb | Distal (>10kb) Multiome | 119 | |
| chr20:609,984–610,596 | 165.6 kb | Distal (>10kb) Multiome | 205 | |
| chr20:652,813–653,697 | 122.6 kb | Distal (>10kb) Multiome | 897 | |
| chr20:675,301–676,096 | 100.3 kb | Distal (>10kb) Multiome | 782 | |
| chr20:709,891–710,669 | 65.8 kb | Distal (>10kb) Multiome | 168 | |
| chr20:727,954–728,888 | 47.5 kb | Distal (>10kb) Multiome | 621 | |
| chr20:768,796–769,004 | 7.0 kb | Proximal (<10kb) | 168 | |
| chr20:775,602–776,151 | 26 bp | At TSS Multiome | 126 | |
| chr20:779,736–780,030 | 3.8 kb | Proximal (<10kb) | 12 | |
| chr20:790,861–791,409 | 15.2 kb | Distal (>10kb) Multiome | 25 | |
| chr20:833,367–834,334 | 57.7 kb | Distal (>10kb) Multiome | 839 | |
| chr20:841,821–842,567 | 66.4 kb | Distal (>10kb) Multiome | 248 | |
| chr20:844,437–845,353 | 68.6 kb | Distal (>10kb) Multiome | 299 | |
| chr20:884,981–885,530 | 109.2 kb | Distal (>10kb) Multiome | 183 | |
| chr20:955,007–955,547 | 179.3 kb | Distal (>10kb) Multiome | 24 | |
| chr20:1,001,978–1,002,815 | 226.5 kb | Distal (>10kb) Multiome | 124 | |
| chr20:1,061,388–1,061,918 | 285.7 kb | Distal (>10kb) Multiome | 105 |
Genomic view of the SLC52A3 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.