This gene encodes a protein with a C-terminal Sprouty-like cysteine-rich domain (SRY) and an N-terminal Ena/Vasodilator-stimulated phosphoprotein (VASP) homology-1 (EVH-1) domain. The encoded protein is a member of a family of proteins that negatively regulates mitogen-activated protein (MAP) kinase signaling, particularly during organogenesis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2012]
Transcription factors with Perturb-seq knockdown data for SPRED3. 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 = SPRED3 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 SPRED3, 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 |
|---|---|---|---|---|
| chr19:38,183,265–38,183,970 | 204.8 kb | Distal (>10kb) Multiome | 156 | |
| chr19:38,223,967–38,224,571 | 164.1 kb | Distal (>10kb) Multiome | 677 | |
| chr19:38,229,570–38,230,021 | 158.6 kb | Distal (>10kb) Multiome HiCAR | 354 | |
| chr19:38,255,918–38,256,778 | 131.9 kb | Distal (>10kb) Multiome | 371 | |
| chr19:38,263,873–38,265,423 | 123.9 kb | Distal (>10kb) Multiome | 590 | |
| chr19:38,304,071–38,305,583 | 83.2 kb | Distal (>10kb) Multiome | 531 | |
| chr19:38,315,514–38,316,642 | 72.4 kb | Distal (>10kb) Multiome | 747 | |
| chr19:38,319,279–38,320,342 | 68.5 kb | Distal (>10kb) Multiome | 359 | |
| chr19:38,335,358–38,337,514 | 52.7 kb | Distal (>10kb) Multiome | 898 | |
| chr19:38,361,454–38,362,809 | 26.2 kb | Distal (>10kb) Multiome | 604 | |
| chr19:38,374,176–38,375,269 | 13.8 kb | Distal (>10kb) Multiome | 1041 | |
| chr19:38,384,803–38,384,991 | 3.4 kb | Proximal (<10kb) | 89 | |
| chr19:38,385,485–38,386,937 | 2.4 kb | Proximal (<10kb) Multiome | 156 | |
| chr19:38,387,065–38,389,471 | 367 bp | At TSS Multiome | 591 | |
| chr19:38,394,369–38,395,035 | 6.3 kb | Proximal (<10kb) Multiome | 191 | |
| chr19:38,395,753–38,396,095 | 7.3 kb | Proximal (<10kb) | 84 | |
| chr19:38,402,504–38,403,738 | 14.7 kb | Distal (>10kb) Multiome | 940 | |
| chr19:38,417,766–38,418,568 | 29.7 kb | Distal (>10kb) Multiome | 407 | |
| chr19:38,434,539–38,435,128 | 46.4 kb | Distal (>10kb) Multiome | 238 | |
| chr19:38,452,620–38,453,510 | 64.8 kb | Distal (>10kb) Multiome | 355 | |
| chr19:38,506,710–38,507,745 | 118.8 kb | Distal (>10kb) Multiome | 369 | |
| chr19:38,514,956–38,515,568 | 126.8 kb | Distal (>10kb) Multiome | 404 | |
| chr19:38,565,090–38,565,701 | 177.0 kb | Distal (>10kb) Multiome | 164 | |
| chr19:38,595,857–38,597,322 | 208.0 kb | Distal (>10kb) Multiome | 478 | |
| chr19:38,617,752–38,619,569 | 230.6 kb | Distal (>10kb) Multiome | 835 | |
| chr19:38,647,137–38,648,653 | 259.1 kb | Distal (>10kb) Multiome | 856 | |
| chr19:38,666,103–38,666,668 | 277.8 kb | Distal (>10kb) Multiome | 317 | |
| chr19:38,683,677–38,684,144 | 295.3 kb | Distal (>10kb) Multiome | 678 |
Genomic view of the SPRED3 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.