H1-2
H1.2 linker histone, cluster member | H1.2, H1c, H1s-1, H1F2, HIST1H1C

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 29 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)euchromatin (GO:0000791)facultative heterochromatin formation (GO:0140718)heterochromatin (GO:0000792)histone H3K27me3 reader activity (GO:0061628)negative regulation of DNA recombination (GO:0045910)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleoplasm (GO:0005654)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)regulation of mRNA splicing, via spliceosome (GO:0048024)structural constituent of chromatin (GO:0030527)structural constituent of chromatin (GO:0030527)
Expression (TPM)
H1-2 — as a Regulated Gene

TFs regulating H1-2 0 TFs

Transcription factors with Perturb-seq knockdown data for H1-2. 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 = H1-2 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 H1-2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of H1-2, 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
chr6:25,882,032–25,882,516 174.2 kb Distal (>10kb) Multiome 165
chr6:25,992,391–25,993,479 63.8 kb Distal (>10kb) Multiome 1012
chr6:26,020,104–26,022,401 36.1 kb Distal (>10kb) Multiome 920
chr6:26,025,866–26,027,859 30.1 kb Distal (>10kb) Multiome 1194
chr6:26,031,341–26,032,990 24.3 kb Distal (>10kb) Multiome 1083
chr6:26,033,113–26,034,309 22.8 kb Distal (>10kb) Multiome 800
chr6:26,054,926–26,057,287 1.1 kb Proximal (<10kb) Multiome 1174
chr6:26,065,995–26,066,212 9.5 kb Proximal (<10kb) 401
chr6:26,087,383–26,088,017 31.2 kb Distal (>10kb) Multiome 572
chr6:26,103,452–26,105,109 47.5 kb Distal (>10kb) Multiome 1169
chr6:26,122,481–26,124,909 66.5 kb Distal (>10kb) Multiome 1216
chr6:26,125,788–26,126,592 69.7 kb Distal (>10kb) Multiome 670
chr6:26,156,184–26,158,744 101.6 kb Distal (>10kb) Multiome 1310
chr6:26,171,798–26,172,499 115.5 kb Distal (>10kb) Multiome 580
chr6:26,183,128–26,184,377 127.3 kb Distal (>10kb) Multiome 311
chr6:26,187,874–26,189,538 132.6 kb Distal (>10kb) Multiome 1053
chr6:26,196,695–26,197,676 140.8 kb Distal (>10kb) Multiome 842
chr6:26,198,203–26,200,197 142.9 kb Distal (>10kb) Multiome 939
chr6:26,203,791–26,205,119 148.0 kb Distal (>10kb) Multiome 1071
chr6:26,214,872–26,218,468 160.4 kb Distal (>10kb) Multiome 1096
chr6:26,223,716–26,224,480 167.6 kb Distal (>10kb) Multiome 507
chr6:26,224,856–26,226,566 168.7 kb Distal (>10kb) Multiome 451
chr6:26,239,944–26,240,920 183.9 kb Distal (>10kb) Multiome 375
chr6:26,249,682–26,251,138 193.9 kb Distal (>10kb) Multiome 731
chr6:26,251,339–26,252,079 195.3 kb Distal (>10kb) Multiome 445
chr6:26,270,815–26,273,967 216.5 kb Distal (>10kb) Multiome 742
chr6:26,285,011–26,286,121 229.1 kb Distal (>10kb) Multiome 1121
chr6:26,304,972–26,305,585 248.9 kb Distal (>10kb) Multiome 586
chr6:26,312,505–26,313,475 256.5 kb Distal (>10kb) Multiome 896
chr6:26,322,092–26,323,232 266.2 kb Distal (>10kb) Multiome 811
chr6:26,327,476–26,328,318 271.7 kb Distal (>10kb) Multiome 716
chr6:26,341,545–26,342,139 285.3 kb Distal (>10kb) Multiome 716
chr6:27,865,093–27,868,152 1808.8 kb Distal (>10kb) Multiome HiCAR 744

Genome Browser

Genomic view of the H1-2 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 – 27,878,152
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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