The protein encoded by this gene is a type IV membrane protein found in plasma and intracellular vesicle membranes. The encoded protein is found as a homodimer and as a heterodimer with VAPA. This protein also can interact with VAMP1 and VAMP2 and may be involved in vesicle trafficking. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for VAPB. 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 = VAPB 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 VAPB, 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 |
|---|---|---|---|---|
| chr20:58,179,409–58,180,032 | 209.5 kb | Distal (>10kb) Multiome | 520 | |
| chr20:58,228,258–58,229,094 | 160.5 kb | Distal (>10kb) Multiome | 184 | |
| chr20:58,308,722–58,310,416 | 79.5 kb | Distal (>10kb) Multiome | 732 | |
| chr20:58,331,681–58,332,501 | 57.0 kb | Distal (>10kb) Multiome | 115 | |
| chr20:58,388,753–58,389,913 | 75 bp | At TSS Multiome | 887 | |
| chr20:58,482,394–58,483,281 | 93.4 kb | Distal (>10kb) Multiome | 155 | |
| chr20:58,514,461–58,515,572 | 125.9 kb | Distal (>10kb) Multiome | 173 | |
| chr20:58,523,004–58,524,066 | 134.2 kb | Distal (>10kb) Multiome | 197 | |
| chr20:58,546,673–58,547,327 | 157.8 kb | Distal (>10kb) Multiome | 69 | |
| chr20:58,649,950–58,652,788 | 261.9 kb | Distal (>10kb) Multiome | 1208 | |
| chr20:58,669,288–58,669,967 | 280.4 kb | Distal (>10kb) Multiome | 158 |
Genomic view of the VAPB 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.