This gene encodes a C2H2 type zinc-finger protein by its similarity to the mouse Bcl11a/Evi9 protein. The corresponding mouse gene is a common site of retroviral integration in myeloid leukemia, and may function as a leukemia disease gene, in part, through its interaction with BCL6. During hematopoietic cell differentiation, this gene is down-regulated. It is possibly involved in lymphoma pathogenesis since translocations associated with B-cell malignancies also deregulates its expression. Multiple transcript variants encoding several different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for BCL11A. 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 = BCL11A 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 BCL11A, 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 |
|---|---|---|---|---|
| chr2:60,297,346–60,298,229 | 255.8 kb | Distal (>10kb) Multiome | 165 | |
| chr2:60,419,121–60,419,661 | 134.3 kb | Distal (>10kb) Multiome | 73 | |
| chr2:60,422,939–60,423,480 | 130.5 kb | Distal (>10kb) Multiome | 105 | |
| chr2:60,476,691–60,477,254 | 7.2 kb | Proximal (<10kb) | 51 | |
| chr2:60,548,952–60,549,140 | 1.8 kb | Proximal (<10kb) | 53 | |
| chr2:60,549,283–60,552,067 | 3.0 kb | Proximal (<10kb) Multiome | 616 | |
| chr2:60,552,117–60,552,866 | 1.2 kb | Proximal (<10kb) | 267 | |
| chr2:60,553,204–60,556,128 | 170 bp | At TSS Multiome | 623 | |
| chr2:60,557,169–60,557,784 | 6.2 kb | Proximal (<10kb) | 220 | |
| chr2:60,560,860–60,561,249 | 9.9 kb | Proximal (<10kb) | 188 | |
| chr2:60,581,429–60,582,120 | 28.2 kb | Distal (>10kb) Multiome | 468 | |
| chr2:60,674,358–60,675,116 | 121.1 kb | Distal (>10kb) Multiome | 335 | |
| chr2:60,735,617–60,736,154 | 182.2 kb | Distal (>10kb) Multiome | 172 | |
| chr2:60,756,026–60,757,043 | 202.6 kb | Distal (>10kb) Multiome | 703 | |
| chr2:60,853,117–60,853,733 | 299.7 kb | Distal (>10kb) Multiome | 48 |
Genomic view of the BCL11A 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.