The protein encoded by this gene is a nuclear RING-domain containing E3 ubiquitin ligase. This protein interacts with the transforming growth factor (TGF) -beta/NODAL signaling pathway by promoting the ubiquitination and proteosomal degradation of negative regulators, like SMAD proteins, and thereby enhances TGF-beta target-gene transcription. As a modulator of the nodal signaling cascade, this gene plays a critical role in the induction of mesoderm during embryonic development. Alternative splicing of this gene results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Jul 2012]
Transcription factors with Perturb-seq knockdown data for RNF111. 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 = RNF111 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 RNF111, 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 |
|---|---|---|---|---|
| chr15:58,252,606–58,253,772 | 612.0 kb | Distal (>10kb) Multiome HiCAR | 116 | |
| chr15:58,748,777–58,750,495 | 115.3 kb | Distal (>10kb) Multiome | 819 | |
| chr15:58,770,593–58,772,279 | 94.0 kb | Distal (>10kb) Multiome | 996 | |
| chr15:58,833,690–58,834,207 | 31.2 kb | Distal (>10kb) Multiome | 126 | |
| chr15:58,864,709–58,865,675 | 49 bp | At TSS Multiome | 533 | |
| chr15:58,866,236–58,866,553 | 1.1 kb | Proximal (<10kb) | 349 | |
| chr15:58,932,998–58,934,288 | 68.5 kb | Distal (>10kb) Multiome | 943 | |
| chr15:58,987,470–58,988,521 | 122.7 kb | Distal (>10kb) Multiome | 812 | |
| chr15:59,104,922–59,105,729 | 240.0 kb | Distal (>10kb) Multiome | 716 |
Genomic view of the RNF111 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.