The protein encoded by this gene is a transcription factor of the PR-domain protein family. It contains a PR-domain and multiple zinc finger motifs. Transcription factors of the PR-domain family are known to be involved in cell differentiation and tumorigenesis. An elevated expression level of this gene has been observed in PC12 cells treated with nerve growth factor, beta polypeptide (NGF). This gene is located in a chromosomal region that is thought to contain tumor suppressor genes. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for PRDM4. 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 = PRDM4 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 PRDM4, 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 |
|---|---|---|---|---|
| chr12:107,580,999–107,581,602 | 180.0 kb | Distal (>10kb) Multiome | 125 | |
| chr12:107,609,968–107,610,492 | 151.1 kb | Distal (>10kb) Multiome | 91 | |
| chr12:107,634,992–107,635,543 | 126.0 kb | Distal (>10kb) Multiome | 94 | |
| chr12:107,645,427–107,646,365 | 115.3 kb | Distal (>10kb) Multiome | 246 | |
| chr12:107,685,428–107,686,240 | 75.5 kb | Distal (>10kb) Multiome | 930 | |
| chr12:107,760,460–107,761,864 | 73 bp | At TSS Multiome | 768 | |
| chr12:107,775,288–107,775,778 | 14.2 kb | Distal (>10kb) Multiome | 233 | |
| chr12:107,843,356–107,844,974 | 83.3 kb | Distal (>10kb) Multiome | 255 | |
| chr12:107,864,203–107,864,687 | 103.3 kb | Distal (>10kb) Multiome | 117 | |
| chr12:107,898,054–107,898,586 | 137.1 kb | Distal (>10kb) Multiome HiCAR | 13 | |
| chr12:107,903,668–107,904,167 | 142.6 kb | Distal (>10kb) Multiome | 469 | |
| chr12:107,912,390–107,913,032 | 151.4 kb | Distal (>10kb) Multiome | 361 |
Genomic view of the PRDM4 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.