This gene encodes a member of the RNA-binding FOX protein family which is involved in the regulation of alternative splicing of pre-mRNA. The protein has an N-terminal proline-rich region, an RNA recognition motif (RRM) domain, and a C-terminal alanine-rich region. This gene produces the neuronal nuclei (NeuN) antigen that has been widely used as a marker for post-mitotic neurons. This gene has its highest expression in the central nervous system and plays a prominent role in neural tissue development and regulation of adult brain function. Mutations in this gene have been associated with numerous neurological disorders. Alternative splicing of this gene results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, May 2017]
Transcription factors with Perturb-seq knockdown data for RBFOX3. 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 = RBFOX3 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 RBFOX3, 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 |
|---|---|---|---|---|
| chr17:78,924,768–78,925,859 | 258.0 kb | Distal (>10kb) Multiome | 498 | |
| chr17:79,009,356–79,010,250 | 173.6 kb | Distal (>10kb) Multiome | 703 | |
| chr17:79,023,888–79,024,662 | 159.0 kb | Distal (>10kb) Multiome | 348 | |
| chr17:79,074,462–79,075,529 | 108.7 kb | Distal (>10kb) Multiome | 657 | |
| chr17:79,182,908–79,183,922 | 81 bp | At TSS Multiome | 257 | |
| chr17:79,192,612–79,192,777 | 9.1 kb | Proximal (<10kb) | 353 |
Genomic view of the RBFOX3 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.