ADP-ribosylation factor 3 (ARF3) is a member of the human ARF gene family. These genes encode small guanine nucleotide-binding proteins that stimulate the ADP-ribosyltransferase activity of cholera toxin and play a role in vesicular trafficking and as activators of phospholipase D. The gene products include 6 ARF proteins and 11 ARF-like proteins and constitute one family of the RAS superfamily. The ARF proteins are categorized as class I (ARF1, ARF2,and ARF3), class II (ARF4 and ARF5) and class III (ARF6) and members of each class share a common gene organization. [provided by RefSeq, Oct 2022]
Transcription factors with Perturb-seq knockdown data for ARF3. 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 = ARF3 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 ARF3, 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 |
|---|---|---|---|---|
| chr12:48,681,532–48,682,844 | 275.2 kb | Distal (>10kb) Multiome | 933 | |
| chr12:48,716,299–48,717,435 | 240.6 kb | Distal (>10kb) Multiome | 1077 | |
| chr12:48,788,600–48,789,901 | 168.2 kb | Distal (>10kb) Multiome | 478 | |
| chr12:48,795,703–48,796,330 | 161.5 kb | Distal (>10kb) Multiome | 333 | |
| chr12:48,814,087–48,815,981 | 142.7 kb | Distal (>10kb) Multiome | 815 | |
| chr12:48,817,927–48,819,273 | 138.9 kb | Distal (>10kb) Multiome | 459 | |
| chr12:48,851,862–48,852,825 | 105.3 kb | Distal (>10kb) Multiome | 900 | |
| chr12:48,864,974–48,866,292 | 91.6 kb | Distal (>10kb) Multiome | 649 | |
| chr12:48,883,231–48,884,168 | 73.7 kb | Distal (>10kb) Multiome | 433 | |
| chr12:48,890,671–48,891,380 | 66.5 kb | Distal (>10kb) Multiome | 517 | |
| chr12:48,924,659–48,925,688 | 32.6 kb | Distal (>10kb) Multiome | 413 | |
| chr12:48,956,252–48,957,974 | 968 bp | At TSS Multiome | 831 | |
| chr12:48,978,055–48,978,819 | 20.8 kb | Distal (>10kb) Multiome | 360 | |
| chr12:48,980,647–48,981,153 | 23.4 kb | Distal (>10kb) Multiome | 259 | |
| chr12:48,997,612–48,998,829 | 40.8 kb | Distal (>10kb) Multiome | 620 | |
| chr12:49,018,007–49,019,184 | 61.2 kb | Distal (>10kb) Multiome | 899 | |
| chr12:49,059,883–49,061,347 | 103.3 kb | Distal (>10kb) Multiome | 1060 | |
| chr12:49,069,381–49,070,589 | 112.5 kb | Distal (>10kb) Multiome | 804 | |
| chr12:49,088,153–49,088,744 | 131.0 kb | Distal (>10kb) Multiome | 473 | |
| chr12:49,109,990–49,111,248 | 153.4 kb | Distal (>10kb) Multiome | 693 | |
| chr12:49,129,851–49,132,062 | 172.9 kb | Distal (>10kb) Multiome | 1233 | |
| chr12:49,188,266–49,189,371 | 231.6 kb | Distal (>10kb) Multiome | 676 | |
| chr12:49,228,702–49,229,259 | 271.4 kb | Distal (>10kb) Multiome | 64 | |
| chr12:49,234,459–49,235,140 | 277.2 kb | Distal (>10kb) Multiome | 786 |
Genomic view of the ARF3 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.