This gene encodes a member of the cyclin family. Cyclins are important regulators of cell cycle transitions through their ability to bind and activate cyclin-dependent protein kinases. This member also belongs to the F-box protein family which is characterized by an approximately 40 amino acid motif, the F-box. The F-box proteins constitute one of the four subunits of the ubiquitin protein ligase complex called SCFs (SKP1-cullin-F-box), which function in phosphorylation-dependent ubiquitination. The F-box proteins are divided into 3 classes: Fbws containing WD-40 domains, Fbls containing leucine-rich repeats, and Fbxs containing either different protein-protein interaction modules or no recognizable motifs. The protein encoded by this gene belongs to the Fbxs class and it was one of the first proteins in which the F-box motif was identified. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for CCNF. 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 = CCNF 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 CCNF, 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 |
|---|---|---|---|---|
| chr16:2,135,536–2,136,505 | 293.3 kb | Distal (>10kb) Multiome | 263 | |
| chr16:2,147,864–2,149,260 | 281.0 kb | Distal (>10kb) Multiome | 679 | |
| chr16:2,149,550–2,152,180 | 278.4 kb | Distal (>10kb) Multiome | 618 | |
| chr16:2,152,861–2,153,999 | 275.8 kb | Distal (>10kb) Multiome | 734 | |
| chr16:2,154,834–2,156,329 | 273.9 kb | Distal (>10kb) Multiome | 932 | |
| chr16:2,178,140–2,179,722 | 250.6 kb | Distal (>10kb) Multiome | 318 | |
| chr16:2,205,129–2,206,297 | 223.9 kb | Distal (>10kb) Multiome HiCAR | 887 | |
| chr16:2,214,212–2,215,803 | 214.4 kb | Distal (>10kb) Multiome | 953 | |
| chr16:2,223,095–2,224,285 | 206.0 kb | Distal (>10kb) Multiome | 918 | |
| chr16:2,251,044–2,252,460 | 177.8 kb | Distal (>10kb) Multiome | 996 | |
| chr16:2,267,625–2,269,111 | 161.2 kb | Distal (>10kb) Multiome HiCAR | 1044 | |
| chr16:2,339,631–2,342,283 | 88.6 kb | Distal (>10kb) Multiome HiCAR | 1129 | |
| chr16:2,423,201–2,423,393 | 6.1 kb | Proximal (<10kb) | 238 | |
| chr16:2,428,282–2,429,948 | 169 bp | At TSS Multiome | 827 | |
| chr16:2,459,524–2,460,612 | 30.6 kb | Distal (>10kb) Multiome | 670 | |
| chr16:2,467,565–2,468,324 | 38.4 kb | Distal (>10kb) Multiome | 450 | |
| chr16:2,470,913–2,472,223 | 41.9 kb | Distal (>10kb) Multiome | 427 | |
| chr16:2,473,455–2,476,127 | 45.7 kb | Distal (>10kb) Multiome | 719 | |
| chr16:2,501,124–2,501,877 | 72.0 kb | Distal (>10kb) Multiome | 471 | |
| chr16:2,513,006–2,514,809 | 84.3 kb | Distal (>10kb) Multiome | 818 | |
| chr16:2,520,064–2,520,618 | 90.9 kb | Distal (>10kb) Multiome | 624 | |
| chr16:2,531,456–2,533,080 | 102.7 kb | Distal (>10kb) Multiome | 883 | |
| chr16:2,537,433–2,538,433 | 108.4 kb | Distal (>10kb) Multiome | 498 | |
| chr16:2,603,176–2,603,939 | 174.0 kb | Distal (>10kb) Multiome | 1066 | |
| chr16:2,673,059–2,673,910 | 244.1 kb | Distal (>10kb) Multiome | 471 | |
| chr16:2,682,205–2,683,006 | 253.0 kb | Distal (>10kb) Multiome | 1003 | |
| chr16:2,720,741–2,721,896 | 291.8 kb | Distal (>10kb) Multiome | 758 |
Genomic view of the CCNF 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.