This gene is specifically expressed in a subpopulation of neuroendocrine cells, and is upregulated by nerve growth factor. The structural organization of this gene is similar to that of the rat gene, and both the translated and the untranslated regions show a high degree of sequence similarity to the rat gene. The encoded secretory protein also shares similarities with the secretogranin/chromogranin family, however, its exact function is not known. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for VGF. 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 = VGF 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 VGF, 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 |
|---|---|---|---|---|
| chr7:100,874,652–100,875,664 | 290.5 kb | Distal (>10kb) Multiome | 1020 | |
| chr7:100,888,882–100,891,520 | 275.7 kb | Distal (>10kb) Multiome | 1077 | |
| chr7:100,894,188–100,896,392 | 270.6 kb | Distal (>10kb) Multiome | 609 | |
| chr7:101,085,076–101,085,958 | 80.1 kb | Distal (>10kb) Multiome | 732 | |
| chr7:101,153,861–101,155,183 | 11.2 kb | Distal (>10kb) Multiome | 670 | |
| chr7:101,162,599–101,164,796 | 2.5 kb | Proximal (<10kb) Multiome | 654 | |
| chr7:101,165,195–101,166,546 | 110 bp | At TSS Multiome | 980 | |
| chr7:101,169,871–101,170,091 | 4.3 kb | Proximal (<10kb) | 398 | |
| chr7:101,173,985–101,174,835 | 8.6 kb | Proximal (<10kb) Multiome | 323 | |
| chr7:101,216,957–101,218,626 | 52.2 kb | Distal (>10kb) Multiome | 918 | |
| chr7:101,232,007–101,233,160 | 67.0 kb | Distal (>10kb) Multiome | 304 | |
| chr7:101,244,041–101,245,521 | 79.4 kb | Distal (>10kb) Multiome | 989 | |
| chr7:101,251,898–101,252,786 | 86.8 kb | Distal (>10kb) Multiome | 751 | |
| chr7:101,294,017–101,295,035 | 128.8 kb | Distal (>10kb) Multiome | 188 | |
| chr7:101,302,606–101,303,724 | 137.2 kb | Distal (>10kb) Multiome | 167 | |
| chr7:101,308,000–101,309,265 | 142.7 kb | Distal (>10kb) Multiome | 357 | |
| chr7:101,321,440–101,322,377 | 156.3 kb | Distal (>10kb) Multiome | 537 | |
| chr7:101,362,703–101,363,475 | 197.3 kb | Distal (>10kb) Multiome | 258 | |
| chr7:101,363,545–101,364,217 | 198.4 kb | Distal (>10kb) Multiome | 584 | |
| chr7:101,411,116–101,411,868 | 245.8 kb | Distal (>10kb) Multiome | 307 | |
| chr7:101,420,273–101,420,839 | 255.1 kb | Distal (>10kb) Multiome | 54 |
Genomic view of the VGF 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.