This gene belongs to the splicing factor SR family of genes. U2 auxiliary factor, comprising a large and a small subunit, is a non-snRNP protein required for the binding of U2 snRNP to the pre-mRNA branch site. This gene encodes the small subunit which plays a critical role in both constitutive and enhancer-dependent RNA splicing by directly mediating interactions between the large subunit and proteins bound to the enhancers. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for U2AF1. 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 = U2AF1 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 U2AF1, 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 |
|---|---|---|---|---|
| chr21:41,878,502–41,879,847 | 1228.3 kb | Distal (>10kb) Multiome HiCAR | 630 | |
| chr21:42,878,621–42,880,078 | 228.1 kb | Distal (>10kb) Multiome HiCAR | 989 | |
| chr21:42,892,360–42,893,974 | 214.4 kb | Distal (>10kb) Multiome HiCAR | 992 | |
| chr21:42,923,670–42,924,528 | 183.5 kb | Distal (>10kb) Multiome | 542 | |
| chr21:42,925,494–42,925,953 | 181.8 kb | Distal (>10kb) Multiome | 42 | |
| chr21:42,936,514–42,937,904 | 170.0 kb | Distal (>10kb) Multiome | 182 | |
| chr21:42,955,489–42,956,014 | 151.8 kb | Distal (>10kb) Multiome HiCAR | 345 | |
| chr21:42,956,807–42,957,632 | 150.3 kb | Distal (>10kb) Multiome HiCAR | 172 | |
| chr21:42,972,793–42,975,770 | 133.2 kb | Distal (>10kb) Multiome | 945 | |
| chr21:43,659,125–43,659,916 | 552.0 kb | Distal (>10kb) Multiome HiCAR | 989 | |
| chr21:43,728,503–43,729,213 | 621.3 kb | Distal (>10kb) Multiome HiCAR | 905 |
Genomic view of the U2AF1 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.