H1-4
H1.4 linker histone, cluster member | H1.4, H1e, H1s-4, H1F4, HIST1H1E

Histones are basic nuclear proteins responsible for 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 H1 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 DE-6.13
Biological processes 24 terms
DNA binding (GO:0003677)RNA binding (GO:0003723)chromatin (GO:0000785)chromatin DNA binding (GO:0031490)chromatin DNA binding (GO:0031490)chromosome (GO:0005694)chromosome condensation (GO:0030261)chromosome condensation (GO:0030261)double-stranded DNA binding (GO:0003690)euchromatin (GO:0000791)heterochromatin (GO:0000792)heterochromatin (GO:0000792)histone deacetylase binding (GO:0042826)negative regulation of DNA recombination (GO:0045910)nuclear speck (GO:0016607)nucleosomal DNA binding (GO:0031492)nucleosome (GO:0000786)nucleosome assembly (GO:0006334)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)structural constituent of chromatin (GO:0030527)structural constituent of chromatin (GO:0030527)
Expression (TPM)
H1-4 — as a Regulated Gene

TFs regulating H1-4 0 TFs

Transcription factors with Perturb-seq knockdown data for H1-4. 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 = H1-4 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 H1-4

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of H1-4, 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
chr6:25,882,032–25,882,516 274.0 kb Distal (>10kb) Multiome 165
chr6:25,992,391–25,993,479 163.6 kb Distal (>10kb) Multiome 1012
chr6:26,020,104–26,022,401 136.0 kb Distal (>10kb) Multiome 920
chr6:26,025,866–26,027,859 130.0 kb Distal (>10kb) Multiome 1194
chr6:26,031,341–26,032,990 124.2 kb Distal (>10kb) Multiome 1083
chr6:26,033,113–26,034,309 122.7 kb Distal (>10kb) Multiome 800
chr6:26,054,926–26,057,287 101.0 kb Distal (>10kb) Multiome 1174
chr6:26,087,383–26,088,017 68.7 kb Distal (>10kb) Multiome 572
chr6:26,103,452–26,105,109 52.4 kb Distal (>10kb) Multiome 1169
chr6:26,122,481–26,124,909 33.4 kb Distal (>10kb) Multiome HiCAR 1216
chr6:26,125,788–26,126,592 30.1 kb Distal (>10kb) Multiome HiCAR 670
chr6:26,155,789–26,155,897 430 bp At TSS 108
chr6:26,156,184–26,158,744 1.7 kb Proximal (<10kb) Multiome 1310
chr6:26,159,281–26,159,626 3.0 kb Proximal (<10kb) 245
chr6:26,171,798–26,172,499 15.7 kb Distal (>10kb) Multiome 580
chr6:26,183,128–26,184,377 27.4 kb Distal (>10kb) Multiome 311
chr6:26,187,874–26,189,538 32.8 kb Distal (>10kb) Multiome 1053
chr6:26,196,695–26,197,676 41.0 kb Distal (>10kb) Multiome 842
chr6:26,198,203–26,200,197 43.1 kb Distal (>10kb) Multiome 939
chr6:26,203,791–26,205,119 48.1 kb Distal (>10kb) Multiome 1071
chr6:26,214,872–26,218,468 60.5 kb Distal (>10kb) Multiome 1096
chr6:26,223,716–26,224,480 67.7 kb Distal (>10kb) Multiome 507
chr6:26,224,856–26,226,566 68.9 kb Distal (>10kb) Multiome 451
chr6:26,239,944–26,240,920 84.0 kb Distal (>10kb) Multiome 375
chr6:26,249,682–26,251,138 94.0 kb Distal (>10kb) Multiome 731
chr6:26,251,339–26,252,079 95.4 kb Distal (>10kb) Multiome 445
chr6:26,270,815–26,273,967 116.6 kb Distal (>10kb) Multiome 742
chr6:26,285,011–26,286,121 129.2 kb Distal (>10kb) Multiome 1121
chr6:26,304,972–26,305,585 149.1 kb Distal (>10kb) Multiome 586
chr6:26,312,505–26,313,475 156.7 kb Distal (>10kb) Multiome 896
chr6:26,322,092–26,323,232 166.3 kb Distal (>10kb) Multiome 811
chr6:26,327,476–26,328,318 171.8 kb Distal (>10kb) Multiome 716
chr6:26,341,545–26,342,139 185.4 kb Distal (>10kb) Multiome 716
chr6:26,365,073–26,365,647 209.0 kb Distal (>10kb) Multiome 587
chr6:26,382,957–26,383,951 226.9 kb Distal (>10kb) Multiome 448
chr6:26,421,258–26,421,866 265.1 kb Distal (>10kb) Multiome 473
chr6:27,131,467–27,132,107 975.4 kb Distal (>10kb) Multiome HiCAR 580
chr6:27,132,200–27,134,276 976.6 kb Distal (>10kb) Multiome HiCAR 975
chr6:27,139,091–27,140,128 983.1 kb Distal (>10kb) Multiome HiCAR 662
chr6:27,145,480–27,148,111 990.7 kb Distal (>10kb) Multiome HiCAR 951
chr6:27,772,302–27,773,105 1616.3 kb Distal (>10kb) Multiome HiCAR 784
chr6:27,809,816–27,810,576 1653.8 kb Distal (>10kb) Multiome HiCAR 914
chr6:27,813,688–27,816,146 1658.6 kb Distal (>10kb) Multiome HiCAR 564
chr6:27,836,792–27,839,128 1682.1 kb Distal (>10kb) Multiome HiCAR 1131
chr6:27,865,093–27,868,152 1709.0 kb Distal (>10kb) Multiome HiCAR 744
chr6:27,870,957–27,872,527 1715.9 kb Distal (>10kb) Multiome HiCAR 426
chr6:27,872,808–27,873,995 1717.3 kb Distal (>10kb) Multiome HiCAR 372

Genome Browser

Genomic view of the H1-4 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.

chr6:25,872,032 – 27,883,995
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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