This gene encodes retinoic acid receptor beta, a member of the thyroid-steroid hormone receptor superfamily of nuclear transcriptional regulators. This receptor localizes to the cytoplasm and to subnuclear compartments. It binds retinoic acid, the biologically active form of vitamin A which mediates cellular signalling in embryonic morphogenesis, cell growth and differentiation. It is thought that this protein limits growth of many cell types by regulating gene expression. The gene was first identified in a hepatocellular carcinoma where it flanks a hepatitis B virus integration site. Alternate promoter usage and differential splicing result in multiple transcript variants. [provided by RefSeq, Mar 2014]
Transcription factors with Perturb-seq knockdown data for RARB. 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 = RARB 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 RARB, 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 |
|---|---|---|---|---|
| chr3:24,828,669–24,830,825 | 81 bp | At TSS Multiome HiCAR | 433 | |
| chr3:25,086,493–25,087,302 | 257.5 kb | Distal (>10kb) Multiome HiCAR | 135 | |
| chr3:25,155,574–25,156,491 | 326.6 kb | Distal (>10kb) Multiome HiCAR | 216 | |
| chr3:25,280,870–25,282,386 | 452.2 kb | Distal (>10kb) Multiome HiCAR | 286 | |
| chr3:25,420,047–25,420,725 | 7.4 kb | Proximal (<10kb) | 92 | |
| chr3:25,426,101–25,426,887 | 1.2 kb | Proximal (<10kb) | 127 | |
| chr3:25,427,633–25,428,885 | at TSS | At TSS | 457 | |
| chr3:25,429,472–25,431,165 | 1.3 kb | Proximal (<10kb) | 188 | |
| chr3:25,433,582–25,434,176 | 5.4 kb | Proximal (<10kb) | 110 | |
| chr3:25,647,592–25,648,802 | 818.8 kb | Distal (>10kb) Multiome | 394 | |
| chr3:25,663,351–25,665,698 | 835.6 kb | Distal (>10kb) Multiome | 919 |
Genomic view of the RARB 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.