This gene encodes a member of the ephrin (EPH) family. The ephrins and EPH-related receptors comprise the largest subfamily of receptor protein-tyrosine kinases and have been implicated in mediating developmental events, especially in the nervous system and in erythropoiesis. 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. This gene encodes an EFNA class ephrin that has been implicated in proliferation and metastasis of several types of cancers. [provided by RefSeq, May 2022]
Transcription factors with Perturb-seq knockdown data for EFNA4. 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 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, 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 |
|---|---|---|---|---|
| chr1:154,813,354–154,814,052 | 250.1 kb | Distal (>10kb) Multiome | 189 | |
| chr1:154,870,031–154,870,680 | 193.4 kb | Distal (>10kb) Multiome | 300 | |
| chr1:154,936,148–154,937,752 | 126.8 kb | Distal (>10kb) Multiome | 1149 | |
| chr1:154,955,571–154,956,925 | 107.5 kb | Distal (>10kb) Multiome | 504 | |
| chr1:154,961,269–154,962,529 | 102.0 kb | Distal (>10kb) Multiome | 985 | |
| chr1:154,970,161–154,971,641 | 92.8 kb | Distal (>10kb) Multiome | 535 | |
| chr1:154,972,362–154,975,914 | 89.1 kb | Distal (>10kb) Multiome | 1085 | |
| chr1:154,982,968–154,983,632 | 80.5 kb | Distal (>10kb) Multiome | 693 | |
| chr1:154,998,961–155,004,423 | 64.4 kb | Distal (>10kb) Multiome | 1210 | |
| chr1:155,017,084–155,017,941 | 46.2 kb | Distal (>10kb) Multiome | 1003 | |
| chr1:155,050,292–155,052,078 | 12.5 kb | Distal (>10kb) Multiome | 948 | |
| chr1:155,061,415–155,064,552 | 183 bp | At TSS Multiome | 860 | |
| chr1:155,069,748–155,070,373 | 6.0 kb | Proximal (<10kb) | 147 | |
| chr1:155,070,748–155,071,423 | 7.4 kb | Proximal (<10kb) Multiome | 542 | |
| chr1:155,071,790–155,072,067 | 8.1 kb | Proximal (<10kb) | 109 | |
| chr1:155,078,524–155,079,535 | 15.1 kb | Distal (>10kb) Multiome | 397 | |
| chr1:155,079,852–155,081,529 | 17.2 kb | Distal (>10kb) Multiome | 539 | |
| chr1:155,084,373–155,086,501 | 21.3 kb | Distal (>10kb) Multiome | 865 | |
| chr1:155,091,315–155,091,900 | 27.8 kb | Distal (>10kb) Multiome | 594 | |
| chr1:155,126,247–155,126,903 | 62.7 kb | Distal (>10kb) Multiome | 776 | |
| chr1:155,127,607–155,128,120 | 64.1 kb | Distal (>10kb) Multiome | 578 | |
| chr1:155,135,100–155,136,750 | 72.1 kb | Distal (>10kb) Multiome | 938 | |
| chr1:155,166,847–155,168,170 | 104.1 kb | Distal (>10kb) Multiome | 622 | |
| chr1:155,172,629–155,174,979 | 109.6 kb | Distal (>10kb) Multiome | 903 | |
| chr1:155,192,921–155,194,099 | 129.9 kb | Distal (>10kb) Multiome | 755 | |
| chr1:155,194,230–155,195,403 | 131.2 kb | Distal (>10kb) Multiome | 753 | |
| chr1:155,196,127–155,196,592 | 132.7 kb | Distal (>10kb) Multiome | 97 | |
| chr1:155,207,822–155,209,789 | 145.2 kb | Distal (>10kb) Multiome | 826 | |
| chr1:155,226,522–155,227,197 | 162.8 kb | Distal (>10kb) Multiome | 600 | |
| chr1:155,227,312–155,228,116 | 163.9 kb | Distal (>10kb) Multiome | 688 | |
| chr1:155,244,103–155,245,349 | 181.0 kb | Distal (>10kb) Multiome | 900 | |
| chr1:155,250,356–155,251,199 | 187.1 kb | Distal (>10kb) Multiome | 605 | |
| chr1:155,255,032–155,255,921 | 191.8 kb | Distal (>10kb) Multiome | 661 | |
| chr1:155,261,679–155,262,788 | 198.6 kb | Distal (>10kb) Multiome | 921 | |
| chr1:155,272,928–155,274,098 | 209.8 kb | Distal (>10kb) Multiome | 768 | |
| chr1:155,276,933–155,278,884 | 214.8 kb | Distal (>10kb) Multiome | 749 | |
| chr1:155,308,291–155,309,348 | 245.0 kb | Distal (>10kb) Multiome | 934 | |
| chr1:155,320,564–155,321,470 | 257.2 kb | Distal (>10kb) Multiome | 341 | |
| chr1:155,322,680–155,325,643 | 260.6 kb | Distal (>10kb) Multiome | 979 |
Genomic view of the EFNA4 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.