This gene encodes a member of the early B-cell factor (EBF) family of DNA binding transcription factors. EBF proteins are involved in B-cell differentiation, bone development and neurogenesis, and may also function as tumor suppressors. The encoded protein inhibits cell survival through the regulation of genes involved in cell cycle arrest and apoptosis, and aberrant methylation or deletion of this gene may play a role in multiple malignancies including glioblastoma multiforme and gastric carcinoma. [provided by RefSeq, Sep 2011]
Transcription factors with Perturb-seq knockdown data for EBF3. 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 = EBF3 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 EBF3, 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 |
|---|---|---|---|---|
| chr10:128,149,447–128,150,553 | 1809.6 kb | Distal (>10kb) Multiome HiCAR | 505 | |
| chr10:128,209,992–128,211,458 | 1749.4 kb | Distal (>10kb) Multiome HiCAR | 389 | |
| chr10:128,211,785–128,212,827 | 1747.6 kb | Distal (>10kb) Multiome HiCAR | 422 | |
| chr10:129,709,992–129,710,841 | 249.3 kb | Distal (>10kb) Multiome | 112 | |
| chr10:129,889,031–129,889,634 | 70.4 kb | Distal (>10kb) Multiome | 197 | |
| chr10:129,949,957–129,950,321 | 9.5 kb | Proximal (<10kb) | 93 | |
| chr10:129,958,664–129,960,120 | at TSS | At TSS | 209 | |
| chr10:129,962,882–129,965,582 | 4.6 kb | Proximal (<10kb) Multiome | 391 | |
| chr10:129,966,749–129,967,839 | 7.0 kb | Proximal (<10kb) | 84 | |
| chr10:129,967,889–129,969,505 | 9.3 kb | Proximal (<10kb) Multiome | 258 | |
| chr10:129,970,530–129,971,042 | 6.3 kb | Proximal (<10kb) | 122 | |
| chr10:129,971,147–129,971,990 | 12.0 kb | Distal (>10kb) Multiome | 290 | |
| chr10:129,972,339–129,973,393 | 8.1 kb | Proximal (<10kb) | 131 | |
| chr10:129,976,841–129,977,275 | 3.8 kb | Proximal (<10kb) | 9 | |
| chr10:129,985,548–129,985,944 | 26.0 kb | Distal (>10kb) Multiome | 16 | |
| chr10:130,109,641–130,111,870 | 151.1 kb | Distal (>10kb) Multiome | 1015 | |
| chr10:130,135,986–130,137,502 | 176.6 kb | Distal (>10kb) Multiome | 783 | |
| chr10:130,189,597–130,191,106 | 230.6 kb | Distal (>10kb) Multiome | 709 |
Genomic view of the EBF3 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.