This gene is a member of the Roundabout (ROBO) gene family that controls neurite outgrowth, growth cone guidance, and axon fasciculation. ROBO proteins are a subfamily of the immunoglobulin transmembrane receptor superfamily. SLIT proteins 1-3, a family of secreted chemorepellants, are ligands for ROBO proteins and SLIT/ROBO interactions regulate myogenesis, leukocyte migration, kidney morphogenesis, angiogenesis, and vasculogenesis in addition to neurogenesis. This gene, ROBO3, has a putative extracellular domain with five immunoglobulin (Ig)-like loops and three fibronectin (Fn) type III motifs, a transmembrane segment, and a cytoplasmic tail with three conserved signaling motifs: CC0, CC2, and CC3 (CC for conserved cytoplasmic). Unlike other ROBO family members, ROBO3 lacks motif CC1. The ROBO3 gene regulates axonal navigation at the ventral midline of the neural tube. In mouse, loss of Robo3 results in a complete failure of commissural axons to cross the midline throughout the spinal cord and the hindbrain. Mutations ROBO3 result in horizontal gaze palsy with progressive scoliosis (HGPPS); an autosomal recessive disorder characterized by congenital absence of horizontal gaze, progressive scoliosis, and failure of the corticospinal and somatosensory axon tracts to cross the midline in the medulla. [provided by RefSeq, May 2019]
Transcription factors with Perturb-seq knockdown data for ROBO3. 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 = ROBO3 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 ROBO3, 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 |
|---|---|---|---|---|
| chr11:122,976,845–122,977,850 | 1899.5 kb | Distal (>10kb) Multiome HiCAR | 198 | |
| chr11:124,622,373–124,623,302 | 254.0 kb | Distal (>10kb) Multiome | 828 | |
| chr11:124,673,250–124,674,391 | 203.0 kb | Distal (>10kb) Multiome | 715 | |
| chr11:124,739,482–124,740,822 | 136.9 kb | Distal (>10kb) Multiome | 498 | |
| chr11:124,745,504–124,747,699 | 129.9 kb | Distal (>10kb) Multiome | 676 | |
| chr11:124,758,225–124,760,203 | 118.3 kb | Distal (>10kb) Multiome | 594 | |
| chr11:124,799,320–124,800,957 | 76.3 kb | Distal (>10kb) Multiome | 893 | |
| chr11:124,839,093–124,840,110 | 37.1 kb | Distal (>10kb) Multiome | 246 | |
| chr11:124,842,870–124,844,108 | 33.5 kb | Distal (>10kb) Multiome | 219 | |
| chr11:124,866,077–124,866,547 | 9.6 kb | Proximal (<10kb) | 367 | |
| chr11:124,867,789–124,867,989 | 8.1 kb | Proximal (<10kb) | 60 | |
| chr11:124,868,932–124,869,199 | 6.9 kb | Proximal (<10kb) | 83 | |
| chr11:124,872,806–124,873,026 | 3.1 kb | Proximal (<10kb) | 28 | |
| chr11:124,875,886–124,877,815 | 346 bp | At TSS Multiome | 769 | |
| chr11:124,920,725–124,921,671 | 44.3 kb | Distal (>10kb) Multiome | 329 | |
| chr11:124,953,809–124,954,493 | 77.3 kb | Distal (>10kb) Multiome | 818 | |
| chr11:125,062,600–125,064,019 | 186.4 kb | Distal (>10kb) Multiome | 640 | |
| chr11:125,111,022–125,112,225 | 234.9 kb | Distal (>10kb) Multiome | 651 | |
| chr11:125,163,468–125,165,998 | 287.9 kb | Distal (>10kb) Multiome | 417 |
Genomic view of the ROBO3 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.