The protein encoded by this gene is part of a complex that relieves repressive chromatin structures, allowing the transcriptional machinery to access its targets more effectively. The encoded nuclear protein may also bind to and enhance the DNA joining activity of HIV-1 integrase. This gene has been found to be a tumor suppressor, and mutations in it have been associated with malignant rhabdoid tumors. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Dec 2015]
Transcription factors with Perturb-seq knockdown data for SMARCB1. 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 = SMARCB1 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 SMARCB1, 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 |
|---|---|---|---|---|
| chr22:23,521,254–23,522,503 | 265.1 kb | Distal (>10kb) Multiome | 794 | |
| chr22:23,537,973–23,538,579 | 248.8 kb | Distal (>10kb) Multiome | 90 | |
| chr22:23,716,825–23,717,722 | 69.6 kb | Distal (>10kb) Multiome | 846 | |
| chr22:23,750,563–23,751,795 | 35.9 kb | Distal (>10kb) Multiome | 687 | |
| chr22:23,767,199–23,768,799 | 18.8 kb | Distal (>10kb) Multiome | 812 | |
| chr22:23,772,486–23,773,491 | 14.1 kb | Distal (>10kb) Multiome | 415 | |
| chr22:23,786,359–23,787,793 | 284 bp | At TSS Multiome | 723 | |
| chr22:23,789,208–23,789,944 | 2.4 kb | Proximal (<10kb) Multiome | 146 | |
| chr22:23,804,750–23,805,326 | 18.0 kb | Distal (>10kb) Multiome | 44 | |
| chr22:23,838,611–23,839,672 | 52.2 kb | Distal (>10kb) Multiome | 472 | |
| chr22:23,849,291–23,849,993 | 62.7 kb | Distal (>10kb) Multiome | 577 | |
| chr22:23,856,822–23,858,514 | 70.8 kb | Distal (>10kb) Multiome | 735 | |
| chr22:23,893,788–23,895,770 | 108.6 kb | Distal (>10kb) Multiome | 932 | |
| chr22:23,913,645–23,914,284 | 127.1 kb | Distal (>10kb) Multiome | 787 | |
| chr22:23,956,273–23,956,867 | 169.6 kb | Distal (>10kb) Multiome | 182 | |
| chr22:24,010,924–24,011,936 | 224.3 kb | Distal (>10kb) Multiome | 796 |
Genomic view of the SMARCB1 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.