This gene encodes a DENN domain-containing protein that may function as a guanine nucleotide exchange factor that specifically activates ras-related protein Rab-10. This protein also contains a interferon stimulated response element-binding domain and may be involved in regulating the v-myc avian myelocytomatosis viral (MYC) oncogene. Alternate splicing results in multiple transcript variants. A pseudogene of this gene is found on chromosome 8. [provided by RefSeq, Mar 2016]
Transcription factors with Perturb-seq knockdown data for DENND4A. 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 = DENND4A 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 DENND4A, 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 |
|---|---|---|---|---|
| chr15:65,517,110–65,517,892 | 274.6 kb | Distal (>10kb) Multiome | 1031 | |
| chr15:65,521,411–65,521,886 | 270.7 kb | Distal (>10kb) Multiome | 35 | |
| chr15:65,530,109–65,531,265 | 261.8 kb | Distal (>10kb) Multiome | 922 | |
| chr15:65,610,849–65,611,766 | 181.0 kb | Distal (>10kb) Multiome | 1108 | |
| chr15:65,791,540–65,792,954 | 22 bp | At TSS Multiome | 949 | |
| chr15:65,832,500–65,833,207 | 40.6 kb | Distal (>10kb) Multiome | 923 | |
| chr15:65,868,825–65,870,066 | 77.1 kb | Distal (>10kb) Multiome | 1036 | |
| chr15:65,981,906–65,982,587 | 190.0 kb | Distal (>10kb) Multiome | 319 |
Genomic view of the DENND4A 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.