This gene encodes a protein with a coiled-coil motif and a RING-H2 motif (C3H2C2) at its carboxy-terminus. The RING motif is a zinc-binding domain found in a large set of proteins playing roles in diverse cellular processes including oncogenesis, development, signal transduction, and apoptosis. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2008]
Transcription factors with Perturb-seq knockdown data for RNF38. 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 = RNF38 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 RNF38, 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 |
|---|---|---|---|---|
| chr9:36,118,241–36,119,014 | 369.1 kb | Distal (>10kb) Multiome | 47 | |
| chr9:36,135,958–36,137,395 | 350.9 kb | Distal (>10kb) Multiome | 462 | |
| chr9:36,163,065–36,163,901 | 324.1 kb | Distal (>10kb) Multiome | 343 | |
| chr9:36,166,123–36,166,839 | 320.9 kb | Distal (>10kb) Multiome | 515 | |
| chr9:36,188,047–36,188,562 | 299.2 kb | Distal (>10kb) Multiome | 13 | |
| chr9:36,190,463–36,191,342 | 296.7 kb | Distal (>10kb) Multiome | 863 | |
| chr9:36,257,896–36,258,893 | 229.2 kb | Distal (>10kb) Multiome | 891 | |
| chr9:36,400,210–36,402,094 | 86.5 kb | Distal (>10kb) Multiome | 864 | |
| chr9:36,407,166–36,407,362 | 6.9 kb | Proximal (<10kb) | 208 | |
| chr9:36,415,916–36,416,528 | 71.3 kb | Distal (>10kb) Multiome | 55 | |
| chr9:36,486,561–36,488,558 | 286 bp | At TSS Multiome | 733 | |
| chr9:36,572,530–36,573,276 | 85.3 kb | Distal (>10kb) Multiome HiCAR | 736 | |
| chr9:36,765,822–36,766,468 | 278.6 kb | Distal (>10kb) Multiome | 470 |
Genomic view of the RNF38 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.