This gene encodes a member of the ephrin family. The protein is composed of a signal sequence, a receptor-binding region, a spacer region, and a hydrophobic region. 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. 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. Posttranslational modifications determine whether this protein localizes to the nucleus or the cytoplasm. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for EFNA2. 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 = EFNA2 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 EFNA2, 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 |
|---|---|---|---|---|
| chr19:1,000,142–1,000,881 | 285.5 kb | Distal (>10kb) Multiome | 399 | |
| chr19:1,020,611–1,022,069 | 264.5 kb | Distal (>10kb) Multiome | 1017 | |
| chr19:1,026,155–1,026,856 | 259.4 kb | Distal (>10kb) Multiome | 598 | |
| chr19:1,027,770–1,028,926 | 257.3 kb | Distal (>10kb) Multiome | 584 | |
| chr19:1,039,648–1,040,400 | 245.9 kb | Distal (>10kb) Multiome | 684 | |
| chr19:1,040,481–1,041,402 | 244.7 kb | Distal (>10kb) Multiome | 556 | |
| chr19:1,044,758–1,045,598 | 240.6 kb | Distal (>10kb) Multiome | 402 | |
| chr19:1,061,840–1,062,923 | 223.3 kb | Distal (>10kb) Multiome | 204 | |
| chr19:1,063,045–1,065,722 | 221.0 kb | Distal (>10kb) Multiome | 681 | |
| chr19:1,066,682–1,067,587 | 218.6 kb | Distal (>10kb) Multiome | 489 | |
| chr19:1,071,107–1,071,721 | 214.7 kb | Distal (>10kb) Multiome | 178 | |
| chr19:1,081,317–1,083,172 | 203.4 kb | Distal (>10kb) Multiome | 484 | |
| chr19:1,094,985–1,095,654 | 190.4 kb | Distal (>10kb) Multiome | 671 | |
| chr19:1,103,487–1,105,654 | 181.9 kb | Distal (>10kb) Multiome | 849 | |
| chr19:1,112,029–1,112,884 | 173.6 kb | Distal (>10kb) Multiome | 294 | |
| chr19:1,113,014–1,114,139 | 172.3 kb | Distal (>10kb) Multiome | 690 | |
| chr19:1,122,934–1,123,720 | 162.6 kb | Distal (>10kb) Multiome | 231 | |
| chr19:1,173,441–1,174,438 | 111.6 kb | Distal (>10kb) Multiome | 682 | |
| chr19:1,194,370–1,194,985 | 91.2 kb | Distal (>10kb) Multiome | 531 | |
| chr19:1,205,175–1,206,374 | 80.3 kb | Distal (>10kb) Multiome | 746 | |
| chr19:1,237,080–1,238,434 | 47.8 kb | Distal (>10kb) Multiome | 430 | |
| chr19:1,239,513–1,242,539 | 44.1 kb | Distal (>10kb) Multiome | 889 | |
| chr19:1,244,253–1,244,857 | 41.3 kb | Distal (>10kb) Multiome | 590 | |
| chr19:1,247,981–1,252,501 | 34.8 kb | Distal (>10kb) Multiome | 1136 | |
| chr19:1,259,185–1,262,955 | 26.5 kb | Distal (>10kb) Multiome | 1070 | |
| chr19:1,265,280–1,270,235 | 16.6 kb | Distal (>10kb) Multiome | 1171 | |
| chr19:1,274,423–1,276,502 | 10.1 kb | Distal (>10kb) Multiome | 967 | |
| chr19:1,279,769–1,280,008 | 5.9 kb | Proximal (<10kb) | 378 | |
| chr19:1,285,317–1,286,108 | 95 bp | At TSS Multiome | 277 | |
| chr19:1,354,303–1,355,411 | 69.0 kb | Distal (>10kb) Multiome | 688 | |
| chr19:1,383,122–1,384,333 | 97.8 kb | Distal (>10kb) Multiome HiCAR | 1228 | |
| chr19:1,401,101–1,401,839 | 115.7 kb | Distal (>10kb) Multiome | 540 | |
| chr19:1,406,589–1,408,783 | 121.6 kb | Distal (>10kb) Multiome | 911 | |
| chr19:1,415,008–1,415,721 | 129.6 kb | Distal (>10kb) Multiome | 597 | |
| chr19:1,437,988–1,438,998 | 152.5 kb | Distal (>10kb) Multiome | 1076 | |
| chr19:1,444,785–1,447,383 | 159.4 kb | Distal (>10kb) Multiome | 797 | |
| chr19:1,455,191–1,456,421 | 169.9 kb | Distal (>10kb) Multiome | 491 | |
| chr19:1,468,941–1,469,903 | 183.4 kb | Distal (>10kb) Multiome | 242 | |
| chr19:1,470,088–1,471,597 | 184.9 kb | Distal (>10kb) Multiome | 544 | |
| chr19:1,478,772–1,479,848 | 193.5 kb | Distal (>10kb) Multiome | 857 | |
| chr19:1,489,566–1,491,829 | 205.0 kb | Distal (>10kb) Multiome | 836 | |
| chr19:1,507,230–1,508,699 | 222.3 kb | Distal (>10kb) Multiome | 596 | |
| chr19:1,512,960–1,513,686 | 227.3 kb | Distal (>10kb) Multiome | 541 | |
| chr19:1,523,798–1,524,624 | 238.2 kb | Distal (>10kb) Multiome | 263 | |
| chr19:1,566,277–1,568,916 | 280.9 kb | Distal (>10kb) Multiome | 748 |
Genomic view of the EFNA2 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.