The protein encoded by this gene belongs to the CDC2-like protein kinase (CLK) family. This protein kinase can interact with and phosphorylate the serine- and arginine-rich (SR) proteins, which are known to play an important role in the formation of spliceosomes, and thus may be involved in the regulation of alternative splicing. Studies in the Israeli sand rat Psammomys obesus suggested that the ubiquitin-like 5 (UBL5/BEACON), a highly conserved ubiquitin-like protein, may interact with and regulate the activity of this kinase. Multiple alternatively spliced transcript variants have been observed, but the full-length natures of which have not yet been determined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for CLK4. 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 = CLK4 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 CLK4, 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 |
|---|---|---|---|---|
| chr5:178,470,038–178,470,701 | 156.5 kb | Distal (>10kb) Multiome | 49 | |
| chr5:178,563,529–178,564,357 | 63.0 kb | Distal (>10kb) Multiome | 28 | |
| chr5:178,565,213–178,565,920 | 61.5 kb | Distal (>10kb) Multiome | 25 | |
| chr5:178,589,202–178,590,958 | 36.5 kb | Distal (>10kb) Multiome | 378 | |
| chr5:178,626,153–178,627,627 | 61 bp | At TSS Multiome | 927 | |
| chr5:178,730,157–178,730,973 | 103.7 kb | Distal (>10kb) Multiome | 717 | |
| chr5:178,778,843–178,779,399 | 152.0 kb | Distal (>10kb) Multiome | 165 | |
| chr5:178,859,723–178,860,476 | 232.9 kb | Distal (>10kb) Multiome | 813 | |
| chr5:178,895,613–178,896,587 | 269.0 kb | Distal (>10kb) Multiome | 509 |
Genomic view of the CLK4 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.