This gene encodes a protein that acts as a repressor of beta-interferon gene expression. The protein binds specifically to the PRDI (positive regulatory domain I element) of the beta-IFN gene promoter. Transcription of this gene increases upon virus induction. Two alternatively spliced transcript variants that encode different isoforms have been reported. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for PRDM1. 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 = PRDM1 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 PRDM1, 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 |
|---|---|---|---|---|
| chr6:105,813,832–105,814,551 | 272.3 kb | Distal (>10kb) Multiome HiCAR | 69 | |
| chr6:105,952,376–105,953,762 | 133.2 kb | Distal (>10kb) Multiome | 229 | |
| chr6:105,985,669–105,986,371 | 7.1 kb | Proximal (<10kb) | 105 | |
| chr6:105,986,477–105,986,790 | 6.7 kb | Proximal (<10kb) | 56 | |
| chr6:105,990,155–105,990,516 | 2.9 kb | Proximal (<10kb) | 68 | |
| chr6:105,991,619–105,993,125 | 93.8 kb | Distal (>10kb) Multiome HiCAR | 667 | |
| chr6:105,993,289–105,993,887 | 92.7 kb | Distal (>10kb) Multiome HiCAR | 110 | |
| chr6:105,994,086–105,995,308 | 624 bp | At TSS | 351 | |
| chr6:106,039,823–106,040,588 | 46.1 kb | Distal (>10kb) Multiome | 109 | |
| chr6:106,080,045–106,081,482 | 5.4 kb | Proximal (<10kb) Multiome | 121 | |
| chr6:106,084,492–106,084,991 | 1.3 kb | Proximal (<10kb) | 348 | |
| chr6:106,085,814–106,086,566 | 66 bp | At TSS Multiome | 502 | |
| chr6:106,088,082–106,088,440 | 1.8 kb | Proximal (<10kb) | 62 | |
| chr6:106,102,889–106,103,993 | 16.8 kb | Distal (>10kb) Multiome | 277 | |
| chr6:106,154,774–106,155,732 | 69.0 kb | Distal (>10kb) Multiome | 203 | |
| chr6:106,325,124–106,326,565 | 239.3 kb | Distal (>10kb) Multiome | 957 | |
| chr6:106,360,205–106,361,449 | 274.3 kb | Distal (>10kb) Multiome | 616 |
Genomic view of the PRDM1 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.