This locus encodes a subunit of ATP-dependent chromatin-remodeling complexes. The encoded protein has been identified as in integral component of complexes necessary for ligand-dependent transcriptional activation by nuclear hormone receptors. Mutations at this locus have been associated with primary clear cell renal cell carcinoma. [provided by RefSeq, Feb 2012]
Transcription factors with Perturb-seq knockdown data for PBRM1. 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 = PBRM1 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 PBRM1, 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 |
|---|---|---|---|---|
| chr3:52,409,430–52,411,187 | 275.6 kb | Distal (>10kb) Multiome | 813 | |
| chr3:52,444,941–52,445,411 | 240.8 kb | Distal (>10kb) Multiome | 426 | |
| chr3:52,455,213–52,455,878 | 230.4 kb | Distal (>10kb) Multiome | 630 | |
| chr3:52,518,607–52,519,389 | 166.9 kb | Distal (>10kb) Multiome | 176 | |
| chr3:52,533,486–52,535,316 | 152.0 kb | Distal (>10kb) Multiome | 648 | |
| chr3:52,536,232–52,537,450 | 149.4 kb | Distal (>10kb) Multiome | 901 | |
| chr3:52,685,427–52,686,463 | 108 bp | At TSS Multiome | 933 | |
| chr3:52,705,495–52,706,415 | 20.1 kb | Distal (>10kb) Multiome | 862 | |
| chr3:52,714,354–52,715,301 | 28.8 kb | Distal (>10kb) Multiome | 224 | |
| chr3:52,770,467–52,771,332 | 85.0 kb | Distal (>10kb) Multiome | 788 | |
| chr3:52,897,094–52,897,995 | 211.7 kb | Distal (>10kb) Multiome | 474 |
Genomic view of the PBRM1 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.