The protein encoded by this gene is a subunit of the CCR4-NOT complex, a global transcriptional regulator. The encoded protein interacts with CNOT1 and has E3 ubiquitin ligase activity. Several transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jul 2010]
Transcription factors with Perturb-seq knockdown data for CNOT4. 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 = CNOT4 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 CNOT4, 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 |
|---|---|---|---|---|
| chr7:135,210,700–135,212,153 | 298.5 kb | Distal (>10kb) Multiome | 729 | |
| chr7:135,335,404–135,336,080 | 174.2 kb | Distal (>10kb) Multiome | 567 | |
| chr7:135,509,171–135,510,811 | 80 bp | At TSS Multiome | 903 | |
| chr7:135,512,221–135,512,424 | 2.1 kb | Proximal (<10kb) | 177 | |
| chr7:135,516,984–135,517,435 | 6.9 kb | Proximal (<10kb) | 130 | |
| chr7:135,557,472–135,558,749 | 47.8 kb | Distal (>10kb) Multiome | 957 | |
| chr7:135,562,644–135,563,104 | 52.9 kb | Distal (>10kb) Multiome HiCAR | 115 | |
| chr7:135,661,395–135,663,087 | 152.3 kb | Distal (>10kb) Multiome | 1079 | |
| chr7:135,727,964–135,728,827 | 218.2 kb | Distal (>10kb) Multiome | 212 |
Genomic view of the CNOT4 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.