This gene encodes a member of the KH-domain protein subfamily. Proteins of this subfamily, also referred to as alpha-CPs, bind to RNA with a specificity for C-rich pyrimidine regions. Alpha-CPs play important roles in post-transcriptional activities and have different cellular distributions. This gene is induced by the p53 tumor suppressor, and the encoded protein can suppress cell proliferation by inducing apoptosis and cell cycle arrest in G(2)-M. This gene's protein is found in the cytoplasm, yet it lacks the nuclear localization signals found in other subfamily members. Multiple alternatively spliced transcript variants have been described, but the full-length nature for only some has been determined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for PCBP4. 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 = PCBP4 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 PCBP4, 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 |
|---|---|---|---|---|
| chr3:50,611,315–50,612,530 | 1355.5 kb | Distal (>10kb) Multiome HiCAR | 904 | |
| chr3:50,615,997–50,617,867 | 1350.3 kb | Distal (>10kb) Multiome HiCAR | 754 | |
| chr3:51,670,855–51,672,297 | 296.2 kb | Distal (>10kb) Multiome | 799 | |
| chr3:51,681,945–51,682,394 | 285.2 kb | Distal (>10kb) Multiome | 291 | |
| chr3:51,706,614–51,707,579 | 260.5 kb | Distal (>10kb) Multiome HiCAR | 506 | |
| chr3:51,798,234–51,798,899 | 168.8 kb | Distal (>10kb) Multiome | 120 | |
| chr3:51,800,441–51,801,024 | 166.9 kb | Distal (>10kb) Multiome | 20 | |
| chr3:51,801,591–51,802,872 | 165.1 kb | Distal (>10kb) Multiome | 223 | |
| chr3:51,868,646–51,869,606 | 98.4 kb | Distal (>10kb) Multiome | 50 | |
| chr3:51,941,340–51,942,909 | 25.4 kb | Distal (>10kb) Multiome HiCAR | 890 | |
| chr3:51,955,723–51,956,827 | 10.9 kb | Distal (>10kb) Multiome | 289 | |
| chr3:51,962,270–51,962,494 | 5.0 kb | Proximal (<10kb) | 17 | |
| chr3:51,967,071–51,968,598 | 90 bp | At TSS Multiome | 581 | |
| chr3:51,973,571–51,975,404 | 6.5 kb | Proximal (<10kb) Multiome | 886 | |
| chr3:51,982,506–51,983,633 | 15.8 kb | Distal (>10kb) Multiome | 933 | |
| chr3:51,990,597–51,991,772 | 23.5 kb | Distal (>10kb) Multiome | 145 | |
| chr3:51,995,468–51,996,121 | 28.5 kb | Distal (>10kb) Multiome | 938 | |
| chr3:52,001,516–52,001,992 | 34.2 kb | Distal (>10kb) Multiome | 448 | |
| chr3:52,055,881–52,058,048 | 90.0 kb | Distal (>10kb) Multiome | 937 | |
| chr3:52,128,194–52,128,700 | 160.9 kb | Distal (>10kb) Multiome | 376 | |
| chr3:52,153,766–52,155,196 | 187.2 kb | Distal (>10kb) Multiome | 896 | |
| chr3:52,197,554–52,198,856 | 230.6 kb | Distal (>10kb) Multiome | 731 | |
| chr3:52,238,767–52,239,716 | 271.8 kb | Distal (>10kb) Multiome | 763 | |
| chr3:52,245,446–52,246,450 | 278.5 kb | Distal (>10kb) Multiome | 553 |
Genomic view of the PCBP4 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.