Cleavage and polyadenylation specificity factor (CPSF) is a multisubunit complex that plays a central role in 3-prime processing of pre-mRNAs. CPSF recognizes the AAUAAA signal in the pre-mRNA and interacts with other proteins to facilitate both RNA cleavage and poly(A) synthesis. CPSF1 is the largest subunit of the CPSF complex (Murthy and Manley, 1995 [PubMed 7590244]).[supplied by OMIM, Mar 2008]
Transcription factors with Perturb-seq knockdown data for CPSF1. 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 = CPSF1 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 CPSF1, 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 |
|---|---|---|---|---|
| chr8:144,137,565–144,138,500 | 271.6 kb | Distal (>10kb) Multiome | 817 | |
| chr8:144,146,820–144,149,073 | 261.4 kb | Distal (>10kb) Multiome | 790 | |
| chr8:144,266,293–144,267,098 | 142.8 kb | Distal (>10kb) Multiome | 162 | |
| chr8:144,290,981–144,292,410 | 117.8 kb | Distal (>10kb) Multiome | 716 | |
| chr8:144,315,833–144,316,450 | 93.2 kb | Distal (>10kb) Multiome | 396 | |
| chr8:144,325,768–144,327,719 | 82.4 kb | Distal (>10kb) Multiome | 1016 | |
| chr8:144,331,281–144,333,847 | 77.3 kb | Distal (>10kb) Multiome | 406 | |
| chr8:144,336,102–144,339,119 | 72.4 kb | Distal (>10kb) Multiome | 922 | |
| chr8:144,353,907–144,355,227 | 54.8 kb | Distal (>10kb) Multiome | 280 | |
| chr8:144,358,142–144,359,070 | 50.8 kb | Distal (>10kb) Multiome | 719 | |
| chr8:144,369,349–144,369,916 | 39.6 kb | Distal (>10kb) Multiome HiCAR | 204 | |
| chr8:144,372,497–144,372,883 | 36.6 kb | Distal (>10kb) Multiome | 160 | |
| chr8:144,372,993–144,375,084 | 35.4 kb | Distal (>10kb) Multiome HiCAR | 903 | |
| chr8:144,408,968–144,410,189 | 113 bp | At TSS Multiome | 920 | |
| chr8:144,410,465–144,410,876 | 1.1 kb | Proximal (<10kb) | 19 | |
| chr8:144,412,934–144,413,261 | 3.6 kb | Proximal (<10kb) | 260 | |
| chr8:144,413,377–144,413,795 | 4.0 kb | Proximal (<10kb) | 374 | |
| chr8:144,427,691–144,429,571 | 19.3 kb | Distal (>10kb) Multiome | 1000 | |
| chr8:144,443,691–144,445,047 | 35.0 kb | Distal (>10kb) Multiome | 743 | |
| chr8:144,462,568–144,463,422 | 53.6 kb | Distal (>10kb) Multiome | 548 | |
| chr8:144,463,885–144,468,178 | 56.4 kb | Distal (>10kb) Multiome | 910 | |
| chr8:144,471,960–144,474,391 | 63.2 kb | Distal (>10kb) Multiome | 482 | |
| chr8:144,474,517–144,476,543 | 66.5 kb | Distal (>10kb) Multiome | 321 | |
| chr8:144,477,277–144,478,749 | 68.7 kb | Distal (>10kb) Multiome | 679 | |
| chr8:144,478,851–144,479,509 | 70.0 kb | Distal (>10kb) Multiome | 392 | |
| chr8:144,483,979–144,484,843 | 75.0 kb | Distal (>10kb) Multiome | 125 | |
| chr8:144,495,748–144,496,431 | 86.8 kb | Distal (>10kb) Multiome | 131 | |
| chr8:144,500,182–144,501,505 | 91.7 kb | Distal (>10kb) Multiome | 484 | |
| chr8:144,507,995–144,510,268 | 99.5 kb | Distal (>10kb) Multiome | 1067 | |
| chr8:144,517,168–144,518,442 | 108.6 kb | Distal (>10kb) Multiome | 637 | |
| chr8:144,521,935–144,523,450 | 113.2 kb | Distal (>10kb) Multiome | 663 | |
| chr8:144,524,105–144,525,099 | 115.3 kb | Distal (>10kb) Multiome | 264 | |
| chr8:144,526,399–144,529,305 | 117.7 kb | Distal (>10kb) Multiome | 934 | |
| chr8:144,529,455–144,530,630 | 120.8 kb | Distal (>10kb) Multiome | 284 | |
| chr8:144,580,290–144,581,657 | 171.4 kb | Distal (>10kb) Multiome | 271 | |
| chr8:144,672,507–144,672,989 | 263.5 kb | Distal (>10kb) Multiome | 150 | |
| chr8:144,684,108–144,686,340 | 275.1 kb | Distal (>10kb) Multiome | 862 |
Genomic view of the CPSF1 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.