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. [provided by RefSeq, Jul 2008]
Modules significantly affected by knockdown. ↑ Up = module upregulated upon KD; ↓ Down = module downregulated upon KD.
| Module | Dir | NES | #gRNA | padj | Bind | OR | padj (bind) |
|---|
| Submodule | Module | Dir | NES | #gRNA | Bind | OR | padj (bind) |
|---|
Genes likely regulated by PRDM5 through linked binding evidence in open chromatin. The chart ranks TF-linked genes by their mean Perturb-seq response to PRDM5 knockdown, with negative coefficients indicating downregulation and positive coefficients indicating upregulation upon knockdown.
Open chromatin elements (ATAC-seq) where PRDM5 has ChIP-seq or motif footprint binding evidence and which are linked to at least one target gene region.
| Element | Size | Linked genes |
|---|
Transcription factors with Perturb-seq knockdown data for PRDM5. 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 = PRDM5 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 PRDM5, 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 |
|---|---|---|---|---|
| chr4:120,066,153–120,067,563 | 855.8 kb | Distal (>10kb) Multiome HiCAR | 906 | |
| chr4:120,913,913–120,914,092 | 8.6 kb | Proximal (<10kb) | 1 | |
| chr4:120,916,600–120,917,394 | 5.8 kb | Proximal (<10kb) Multiome | 126 | |
| chr4:120,918,201–120,918,485 | 4.2 kb | Proximal (<10kb) | 30 | |
| chr4:120,918,643–120,919,166 | 3.6 kb | Proximal (<10kb) | 36 | |
| chr4:120,921,437–120,923,278 | 109 bp | At TSS Multiome | 557 | |
| chr4:121,070,302–121,071,684 | 148.6 kb | Distal (>10kb) Multiome | 351 | |
| chr4:121,071,843–121,073,376 | 149.9 kb | Distal (>10kb) Multiome | 441 |
Genomic view of the PRDM5 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.