This gene encodes a small, conserved protein of unknown function that is expressed in a variety of tissues. There are pseudogenes for this gene on chromosomes 6, 8, 16, and X. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2013]
Transcription factors with Perturb-seq knockdown data for C4orf46. 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 = C4orf46 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 C4orf46, 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 |
|---|---|---|---|---|
| chr4:158,571,551–158,572,520 | 99.9 kb | Distal (>10kb) Multiome | 128 | |
| chr4:158,667,559–158,668,106 | 3.8 kb | Proximal (<10kb) | 130 | |
| chr4:158,670,728–158,672,956 | 986 bp | At TSS Multiome | 1090 | |
| chr4:158,722,797–158,723,912 | 51.5 kb | Distal (>10kb) Multiome | 859 | |
| chr4:158,768,346–158,769,735 | 97.0 kb | Distal (>10kb) Multiome | 747 | |
| chr4:158,782,620–158,783,783 | 111.1 kb | Distal (>10kb) Multiome | 413 | |
| chr4:158,902,258–158,903,267 | 230.9 kb | Distal (>10kb) Multiome | 354 |
Genomic view of the C4orf46 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.