Ephrin-A5, a member of the ephrin gene family, prevents axon bundling in cocultures of cortical neurons with astrocytes, a model of late stage nervous system development and differentiation. The EPH and EPH-related receptors comprise the largest subfamily of receptor protein-tyrosine kinases and have been implicated in mediating developmental events, particularly in the nervous system. EPH receptors typically have a single kinase domain and an extracellular region containing a Cys-rich domain and 2 fibronectin type III repeats. The ephrin ligands and receptors have been named by the Eph Nomenclature Committee (1997). Based on their structures and sequence relationships, ephrins are divided into the ephrin-A (EFNA) class, which are anchored to the membrane by a glycosylphosphatidylinositol linkage, and the ephrin-B (EFNB) class, which are transmembrane proteins. The Eph family of receptors are similarly divided into 2 groups based on the similarity of their extracellular domain sequences and their affinities for binding ephrin-A and ephrin-B ligands. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for EFNA5. 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 = EFNA5 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 EFNA5, 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 |
|---|---|---|---|---|
| chr5:107,571,664–107,572,597 | 98.7 kb | Distal (>10kb) Multiome | 562 | |
| chr5:107,668,084–107,673,999 | 1.7 kb | Proximal (<10kb) Multiome | 927 | |
| chr5:107,744,459–107,745,811 | 73.9 kb | Distal (>10kb) Multiome | 209 | |
| chr5:107,765,931–107,767,243 | 95.6 kb | Distal (>10kb) Multiome | 124 | |
| chr5:107,808,347–107,810,074 | 138.0 kb | Distal (>10kb) Multiome | 347 | |
| chr5:107,814,361–107,815,529 | 143.8 kb | Distal (>10kb) Multiome | 185 | |
| chr5:107,839,823–107,841,068 | 169.4 kb | Distal (>10kb) Multiome | 157 |
Genomic view of the EFNA5 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.