This locus represents naturally occurring readthrough transcription between the neighboring EFNA4 (ephrin A4) and EFNA3 (ephrin A3) genes on chromosome 1. The readthrough transcript encodes a fusion protein that shares sequence identity with each individual gene product. [provided by RefSeq, Jun 2022]
Transcription factors with Perturb-seq knockdown data for EFNA4-EFNA3. 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 = EFNA4-EFNA3 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 EFNA4-EFNA3, 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 |
|---|---|---|---|---|
| chr1:155,061,415–155,064,552 | at TSS | At TSS | 860 | |
| chr1:155,069,748–155,070,373 | 6.0 kb | Proximal (<10kb) | 147 | |
| chr1:155,070,748–155,071,423 | 7.0 kb | Proximal (<10kb) | 542 | |
| chr1:155,071,790–155,072,067 | 8.0 kb | Proximal (<10kb) | 109 |
Genomic view of the EFNA4-EFNA3 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.