This gene encodes a member of the PDGF (platelet-derived growth factor)/VEGF (vascular endothelial growth factor) family. The VEGF family members regulate the formation of blood vessels and are involved in endothelial cell physiology. This member is a ligand for VEGFR-1 (vascular endothelial growth factor receptor 1) and NRP-1 (neuropilin-1). Studies in mice showed that this gene was co-expressed with nuclear-encoded mitochondrial genes and the encoded protein specifically controlled endothelial uptake of fatty acids. Alternatively spliced transcript variants encoding distinct isoforms have been identified. [provided by RefSeq, Sep 2011]
Transcription factors with Perturb-seq knockdown data for VEGFB. 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 = VEGFB 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 VEGFB, 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 |
|---|---|---|---|---|
| chr11:63,938,087–63,939,846 | 295.8 kb | Distal (>10kb) Multiome | 852 | |
| chr11:63,974,156–63,975,123 | 260.1 kb | Distal (>10kb) Multiome | 918 | |
| chr11:63,986,198–63,987,213 | 248.0 kb | Distal (>10kb) Multiome | 895 | |
| chr11:63,998,533–64,001,109 | 235.2 kb | Distal (>10kb) Multiome | 414 | |
| chr11:64,028,126–64,028,898 | 206.0 kb | Distal (>10kb) Multiome | 168 | |
| chr11:64,165,638–64,166,698 | 68.3 kb | Distal (>10kb) Multiome | 811 | |
| chr11:64,184,927–64,186,817 | 48.6 kb | Distal (>10kb) Multiome | 1091 | |
| chr11:64,225,548–64,226,862 | 8.4 kb | Proximal (<10kb) Multiome | 776 | |
| chr11:64,230,074–64,231,130 | 4.1 kb | Proximal (<10kb) Multiome | 715 | |
| chr11:64,233,950–64,235,296 | 98 bp | At TSS Multiome | 590 | |
| chr11:64,240,398–64,242,687 | 6.7 kb | Proximal (<10kb) Multiome | 982 | |
| chr11:64,246,274–64,248,065 | 12.5 kb | Distal (>10kb) Multiome | 802 | |
| chr11:64,250,699–64,251,842 | 16.9 kb | Distal (>10kb) Multiome | 498 | |
| chr11:64,268,509–64,270,920 | 35.5 kb | Distal (>10kb) Multiome | 1093 | |
| chr11:64,271,352–64,271,994 | 37.0 kb | Distal (>10kb) Multiome | 595 | |
| chr11:64,284,095–64,286,666 | 51.2 kb | Distal (>10kb) Multiome | 807 | |
| chr11:64,300,129–64,301,268 | 66.5 kb | Distal (>10kb) Multiome | 591 | |
| chr11:64,304,032–64,307,072 | 71.8 kb | Distal (>10kb) Multiome | 994 | |
| chr11:64,316,954–64,319,418 | 84.5 kb | Distal (>10kb) Multiome | 1039 | |
| chr11:64,340,711–64,341,211 | 106.4 kb | Distal (>10kb) Multiome | 212 | |
| chr11:64,342,083–64,343,227 | 108.1 kb | Distal (>10kb) Multiome | 543 | |
| chr11:64,358,792–64,359,751 | 124.6 kb | Distal (>10kb) Multiome | 577 | |
| chr11:64,448,870–64,449,995 | 214.4 kb | Distal (>10kb) Multiome | 490 |
Genomic view of the VEGFB 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.