This gene encodes a cytokine receptor-like factor that may negatively regulate cell cycle progression at the G0/G1 phase. Studies of the related rat protein suggest that it may regulate neuronal morphology and synaptic vesicle biogenesis. This gene is one of several genes located in the neurofibromatosis type I tumor suppressor region on the q arm of chromosome 17, a region that is subject to microdeletions, duplications, chromosomal breaks and rearrangements. Alternative splicing of this gene results in multiple transcript variants. Related pseudogenes have been identified on chromosomes 2 and 5. [provided by RefSeq, Aug 2012]
Transcription factors with Perturb-seq knockdown data for CRLF3. 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 = CRLF3 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 CRLF3, 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 |
|---|---|---|---|---|
| chr17:30,599,655–30,601,277 | 224.3 kb | Distal (>10kb) Multiome | 793 | |
| chr17:30,707,918–30,709,425 | 116.1 kb | Distal (>10kb) Multiome | 471 | |
| chr17:30,731,337–30,732,077 | 93.1 kb | Distal (>10kb) Multiome | 352 | |
| chr17:30,824,074–30,825,310 | 41 bp | At TSS Multiome | 868 | |
| chr17:30,825,798–30,826,217 | 1.1 kb | Proximal (<10kb) | 303 | |
| chr17:30,831,761–30,832,403 | 7.3 kb | Proximal (<10kb) Multiome | 803 | |
| chr17:30,906,142–30,906,858 | 81.7 kb | Distal (>10kb) Multiome | 1033 | |
| chr17:30,921,825–30,922,307 | 97.4 kb | Distal (>10kb) Multiome | 262 | |
| chr17:30,970,780–30,971,531 | 146.4 kb | Distal (>10kb) Multiome | 537 | |
| chr17:31,008,384–31,008,968 | 184.0 kb | Distal (>10kb) Multiome | 415 | |
| chr17:31,094,330–31,095,946 | 270.2 kb | Distal (>10kb) Multiome | 759 |
Genomic view of the CRLF3 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.