H4C5
H4 clustered histone 5 | H4/j, H4FJ, HIST1H4E

Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and functions in the compaction of chromatin into higher order structures. This gene is intronless and encodes a replication-dependent histone that is a member of the histone H4 family. Transcripts from this gene lack polyA tails but instead contain a palindromic termination element. This gene is found in the large histone gene cluster on chromosome 6. [provided by RefSeq, Aug 2015]

Member of: DE-6
Biological processes 31 terms
DNA binding (GO:0003677)DNA binding (GO:0003677)RNA binding (GO:0003723)chromatin organization (GO:0006325)chromosome (GO:0005694)chromosome, telomeric region (GO:0000781)extracellular exosome (GO:0070062)extracellular exosome (GO:0070062)extracellular region (GO:0005576)membrane (GO:0016020)negative regulation of megakaryocyte differentiation (GO:0045653)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleosome (GO:0000786)nucleosome (GO:0000786)nucleosome (GO:0000786)nucleosome assembly (GO:0006334)nucleosome assembly (GO:0006334)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)protein heterodimerization activity (GO:0046982)protein localization to CENP-A containing chromatin (GO:0061644)protein-containing complex (GO:0032991)structural constituent of chromatin (GO:0030527)structural constituent of chromatin (GO:0030527)structural constituent of chromatin (GO:0030527)telomere organization (GO:0032200)
Expression (TPM)
H4C5 — as a Regulated Gene

TFs regulating H4C5 0 TFs

Transcription factors with Perturb-seq knockdown data for H4C5. 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 = H4C5 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to H4C5

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of H4C5, 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
chr6:25,992,391–25,993,479 211.9 kb Distal (>10kb) Multiome 1012
chr6:26,020,104–26,022,401 184.2 kb Distal (>10kb) Multiome 920
chr6:26,025,866–26,027,859 178.3 kb Distal (>10kb) Multiome 1194
chr6:26,031,341–26,032,990 172.4 kb Distal (>10kb) Multiome 1083
chr6:26,033,113–26,034,309 170.9 kb Distal (>10kb) Multiome 800
chr6:26,054,926–26,057,287 149.3 kb Distal (>10kb) Multiome 1174
chr6:26,103,452–26,105,109 100.7 kb Distal (>10kb) Multiome 1169
chr6:26,122,481–26,124,909 81.7 kb Distal (>10kb) Multiome 1216
chr6:26,125,788–26,126,592 78.4 kb Distal (>10kb) Multiome 670
chr6:26,156,184–26,158,744 46.5 kb Distal (>10kb) Multiome 1310
chr6:26,171,798–26,172,499 32.6 kb Distal (>10kb) Multiome 580
chr6:26,183,128–26,184,377 20.9 kb Distal (>10kb) Multiome 311
chr6:26,187,874–26,189,538 15.5 kb Distal (>10kb) Multiome 1053
chr6:26,195,372–26,195,821 8.8 kb Proximal (<10kb) 512
chr6:26,196,695–26,197,676 7.3 kb Proximal (<10kb) Multiome 842
chr6:26,198,203–26,200,197 5.2 kb Proximal (<10kb) Multiome 939
chr6:26,203,791–26,205,119 142 bp At TSS Multiome 1071
chr6:26,205,246–26,205,550 637 bp At TSS 612
chr6:26,205,668–26,206,349 1.1 kb Proximal (<10kb) 509
chr6:26,214,872–26,218,468 12.2 kb Distal (>10kb) Multiome 1096
chr6:26,223,716–26,224,480 19.4 kb Distal (>10kb) Multiome 507
chr6:26,224,856–26,226,566 20.6 kb Distal (>10kb) Multiome 451
chr6:26,239,944–26,240,920 35.7 kb Distal (>10kb) Multiome 375
chr6:26,249,682–26,251,138 45.7 kb Distal (>10kb) Multiome 731
chr6:26,251,339–26,252,079 47.1 kb Distal (>10kb) Multiome 445
chr6:26,270,815–26,273,967 68.3 kb Distal (>10kb) Multiome 742
chr6:26,285,011–26,286,121 81.0 kb Distal (>10kb) Multiome 1121
chr6:26,312,505–26,313,475 108.4 kb Distal (>10kb) Multiome 896
chr6:26,341,545–26,342,139 137.2 kb Distal (>10kb) Multiome 716
chr6:26,382,957–26,383,951 178.6 kb Distal (>10kb) Multiome 448
chr6:26,421,258–26,421,866 216.8 kb Distal (>10kb) Multiome 473
chr6:26,457,390–26,458,395 253.3 kb Distal (>10kb) Multiome 525
chr6:26,473,842–26,474,357 269.5 kb Distal (>10kb) Multiome 487
chr6:27,131,467–27,132,107 927.1 kb Distal (>10kb) Multiome HiCAR 580
chr6:27,132,200–27,134,276 928.3 kb Distal (>10kb) Multiome HiCAR 975
chr6:27,139,091–27,140,128 934.8 kb Distal (>10kb) Multiome HiCAR 662
chr6:27,145,480–27,148,111 942.4 kb Distal (>10kb) Multiome HiCAR 951
chr6:27,809,816–27,810,576 1605.5 kb Distal (>10kb) Multiome HiCAR 914
chr6:27,813,688–27,816,146 1610.3 kb Distal (>10kb) Multiome HiCAR 564
chr6:27,836,792–27,839,128 1633.9 kb Distal (>10kb) Multiome HiCAR 1131
chr6:27,865,093–27,868,152 1660.7 kb Distal (>10kb) Multiome HiCAR 744

Genome Browser

Genomic view of the H4C5 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.

chr6:25,982,391 – 27,878,152
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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