Involved in negative regulation of lipid metabolic process; negative regulation of tumor necrosis factor-mediated signaling pathway; and signal transduction. Located in endoplasmic reticulum and extracellular region. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for CCDC3. 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 = CCDC3 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 CCDC3, 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 |
|---|---|---|---|---|
| chr10:12,720,207–12,720,881 | 281.1 kb | Distal (>10kb) Multiome | 449 | |
| chr10:13,000,971–13,001,949 | 341 bp | At TSS Multiome | 227 | |
| chr10:13,099,052–13,100,750 | 97.5 kb | Distal (>10kb) Multiome | 675 | |
| chr10:13,120,751–13,121,780 | 119.5 kb | Distal (>10kb) Multiome | 155 | |
| chr10:13,161,059–13,162,040 | 159.8 kb | Distal (>10kb) Multiome | 746 | |
| chr10:13,299,293–13,300,384 | 298.3 kb | Distal (>10kb) Multiome | 850 |
Genomic view of the CCDC3 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.