This gene encodes a small nuclear protein that is characterized by an arginine and glycine rich region. This protein may have an important role in the regulation of fetal globin gene expression and in the activation of estrogen-responsive genes. A recent study reported that this protein binds 5-hydroxymethylcytosine (5hmC) and associates with an arginine methyltransferase complex (methylosome), which promotes methylation of arginine 3 of histone H4 (H4R3) and activation of genes involved in glioblastomagenesis. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Nov 2015]
Transcription factors with Perturb-seq knockdown data for CHTOP. 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 = CHTOP 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 CHTOP, 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 |
|---|---|---|---|---|
| chr1:153,494,904–153,495,543 | 139.0 kb | Distal (>10kb) Multiome | 290 | |
| chr1:153,532,833–153,533,594 | 100.9 kb | Distal (>10kb) Multiome | 493 | |
| chr1:153,538,198–153,538,657 | 95.6 kb | Distal (>10kb) Multiome | 338 | |
| chr1:153,544,844–153,545,543 | 88.9 kb | Distal (>10kb) Multiome | 575 | |
| chr1:153,568,278–153,569,058 | 65.3 kb | Distal (>10kb) Multiome HiCAR | 641 | |
| chr1:153,612,574–153,613,563 | 20.9 kb | Distal (>10kb) Multiome | 388 | |
| chr1:153,626,535–153,627,974 | 6.5 kb | Proximal (<10kb) Multiome | 697 | |
| chr1:153,633,575–153,634,639 | 68 bp | At TSS Multiome | 998 | |
| chr1:153,658,331–153,659,230 | 24.7 kb | Distal (>10kb) Multiome | 746 | |
| chr1:153,670,709–153,671,992 | 37.1 kb | Distal (>10kb) Multiome | 884 | |
| chr1:153,697,776–153,698,654 | 64.3 kb | Distal (>10kb) Multiome | 313 | |
| chr1:153,727,492–153,728,827 | 93.8 kb | Distal (>10kb) Multiome | 702 | |
| chr1:153,736,782–153,737,426 | 103.0 kb | Distal (>10kb) Multiome | 10 | |
| chr1:153,745,487–153,745,959 | 111.6 kb | Distal (>10kb) Multiome | 55 | |
| chr1:153,774,962–153,776,698 | 141.1 kb | Distal (>10kb) Multiome | 671 | |
| chr1:153,783,341–153,784,300 | 149.7 kb | Distal (>10kb) Multiome | 794 | |
| chr1:153,922,213–153,923,779 | 289.0 kb | Distal (>10kb) Multiome | 856 |
Genomic view of the CHTOP 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.