Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Nucleosomes consist of approximately 146 bp of DNA wrapped around a histone octamer composed of pairs of each of the four core histones (H2A, H2B, H3, and H4). The chromatin fiber is further compacted through the interaction of a linker histone, H1, with the DNA between the nucleosomes to form higher order chromatin structures. This gene is intronless and encodes a replication-dependent histone that is a member of the histone H2A family. Transcripts from this gene contain a palindromic termination element. [provided by RefSeq, Aug 2015]
Transcription factors with Perturb-seq knockdown data for H2AC25. 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 = H2AC25 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 H2AC25, 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 |
|---|---|---|---|---|
| chr1:228,164,898–228,166,840 | 292.1 kb | Distal (>10kb) Multiome | 1011 | |
| chr1:228,174,477–228,174,893 | 283.2 kb | Distal (>10kb) Multiome | 254 | |
| chr1:228,212,247–228,214,390 | 244.2 kb | Distal (>10kb) Multiome | 604 | |
| chr1:228,275,524–228,276,595 | 181.8 kb | Distal (>10kb) Multiome | 428 | |
| chr1:228,378,133–228,379,597 | 79.2 kb | Distal (>10kb) Multiome HiCAR | 515 | |
| chr1:228,406,106–228,407,568 | 50.9 kb | Distal (>10kb) Multiome HiCAR | 753 | |
| chr1:228,416,050–228,416,929 | 41.4 kb | Distal (>10kb) Multiome HiCAR | 279 | |
| chr1:228,457,070–228,458,723 | at TSS | At TSS Multiome | 800 | |
| chr1:228,458,870–228,459,670 | 1.5 kb | Proximal (<10kb) Multiome | 503 | |
| chr1:228,463,669–228,464,137 | 5.8 kb | Proximal (<10kb) | 374 | |
| chr1:228,464,228–228,465,055 | 6.9 kb | Proximal (<10kb) Multiome | 204 | |
| chr1:228,486,589–228,487,963 | 29.4 kb | Distal (>10kb) Multiome | 1041 | |
| chr1:228,647,259–228,648,459 | 190.2 kb | Distal (>10kb) Multiome | 684 | |
| chr1:228,735,011–228,736,739 | 277.5 kb | Distal (>10kb) Multiome | 664 |
Genomic view of the H2AC25 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.