| Name | H1.6 linker histone, cluster member |
| Description | 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] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n A body of work has defined diverse roles for linker histone H1 variants and H1‐like proteins in chromatin organization, gene regulation, and cell differentiation. In the male germline, for example, the testis‐specific histone H1t is produced in mid‐pachytene spermatocytes and early spermatids, where it participates in chromatin remodeling events essential for proper meiotic progression and spermatogenesis. Its misregulation—as seen when factors such as BRDT fail to engage its promoter—leads to abnormal chromatin structure and consequent infertility."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " In addition, a spermatid‐specific H1‐like protein, HILS1, is expressed in elongating and elongated spermatids where it appears to mediate nuclear condensation via mechanisms distinct from those of conventional linker histones."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n Structural analyses of the carboxyl‐terminal domains of somatic H1 variants such as H1(0) and H1t have revealed that these intrinsically disordered regions become highly structured upon binding DNA, thereby facilitating higher‐order chromatin folding."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": " In embryonic stem cells and in somatic cells, other H1 variants (including H1d, H1c, H1.2, and H1.3) are unequally distributed across the genome; for instance, these proteins are typically depleted from GC‐rich, gene‐dense regions and active promoters yet enriched at heterochromatic domains such as major satellites and lamina‐associated regions. Notably, H1.2 displays a particularly repressive pattern correlating with low gene expression."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n Moreover, post‐translational modifications such as phosphorylation further modulate H1 variant functions. Detailed mass spectrometry studies have identified multiple phosphorylation states of H1t in rodent testes, suggesting that the extent of phosphorylation—not necessarily a strict sequential order—is critical for regulated chromatin decondensation during histone replacement by transition proteins and protamines."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "6"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n Beyond canonical H1 proteins, H1‐like factors such as HP1BP3 expand the functional repertoire of this protein family. HP1BP3, which shares structural features with H1 histones, has been implicated in the organization of nucleolar protein networks and in coupling chromatin to RNA processing events. Specifically, HP1BP3 not only contributes to global gene expression regulation and proper chromatin dynamics during development but also promotes co‐transcriptional processing of primary microRNAs through stabilization of Drosha on active miRNA genes."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n In summary, the H1 family—from classical linker histones such as H1(0), H1c, H1d, H1.2, H1.3, and the testis‐specific H1t to H1‐like proteins like HILS1 and HP1BP3—plays multifaceted roles in mediating chromatin compaction, regulating transcription, and driving the dynamic chromatin rearrangements required for proper meiotic progression, stem cell function, and overall cellular homeostasis.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Enyuan Shang, Helen D Nickerson, Duancheng Wen, et al. "}, {"type": "b", "children": [{"type": "t", "text": "The first bromodomain of Brdt, a testis-specific member of the BET sub-family of double-bromodomain-containing proteins, is essential for male germ cell differentiation."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Development (2007)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1242/dev.004481"}], "href": "https://doi.org/10.1242/dev.004481"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "17728347"}], "href": "https://pubmed.ncbi.nlm.nih.gov/17728347"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Wei Yan, Lang Ma, Kathleen H Burns, et al. "}, {"type": "b", "children": [{"type": "t", "text": "HILS1 is a spermatid-specific linker histone H1-like protein implicated in chromatin remodeling during mammalian spermiogenesis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Proc Natl Acad Sci U S A (2003)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1073/pnas.1837812100"}], "href": "https://doi.org/10.1073/pnas.1837812100"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "12920187"}], "href": "https://pubmed.ncbi.nlm.nih.gov/12920187"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Alicia Roque, Ibon Iloro, Imma Ponte, et al. "}, {"type": "b", "children": [{"type": "t", "text": "DNA-induced secondary structure of the carboxyl-terminal domain of histone H1."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2005)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M505636200"}], "href": "https://doi.org/10.1074/jbc.M505636200"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "16006555"}], "href": "https://pubmed.ncbi.nlm.nih.gov/16006555"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Kaixiang Cao, Nathalie Lailler, Yunzhe Zhang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "High-resolution mapping of h1 linker histone variants in embryonic stem cells."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "PLoS Genet (2013)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1371/journal.pgen.1003417"}], "href": "https://doi.org/10.1371/journal.pgen.1003417"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23633960"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23633960"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Lluís Millán-Ariño, Abul B M M K Islam, Andrea Izquierdo-Bouldstridge, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Mapping of six somatic linker histone H1 variants in human breast cancer cells uncovers specific features of H1.2."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nucleic Acids Res (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/nar/gku079"}], "href": "https://doi.org/10.1093/nar/gku079"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24476918"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24476918"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Bettina Sarg, Sabine Chwatal, Heribert Talasz, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Testis-specific linker histone H1t is multiply phosphorylated during spermatogenesis. Identification of phosphorylation sites."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2009)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M805925200"}], "href": "https://doi.org/10.1074/jbc.M805925200"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "19043117"}], "href": "https://pubmed.ncbi.nlm.nih.gov/19043117"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Haoming Liu, Chunyang Liang, Rahul K Kollipara, et al. "}, {"type": "b", "children": [{"type": "t", "text": "HP1BP3, a Chromatin Retention Factor for Co-transcriptional MicroRNA Processing."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Cell (2016)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.molcel.2016.06.014"}], "href": "https://doi.org/10.1016/j.molcel.2016.06.014"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "27425409"}], "href": "https://pubmed.ncbi.nlm.nih.gov/27425409"}]}, {"type": "r", "ref": 8, "children": [{"type": "t", "text": "Benjamin P Garfinkel, Naomi Melamed-Book, Eli Anuka, et al. "}, {"type": "b", "children": [{"type": "t", "text": "HP1BP3 is a novel histone H1 related protein with essential roles in viability and growth."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nucleic Acids Res (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/nar/gkv089"}], "href": "https://doi.org/10.1093/nar/gkv089"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25662603"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25662603"}]}]}]}
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| NCBI Gene ID | 3010 |
| API | |
| Download Associations | |
| Predicted Functions |
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| Co-expressed Genes |
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| Expression in Tissues and Cell Lines |
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H1-6 has 1,866 functional associations with biological entities spanning 5 categories (functional term, phrase or reference, disease, phenotype or trait, chemical, cell line, cell type or tissue, gene, protein or microRNA) extracted from 26 datasets.
Click the + buttons to view associations for H1-6 from the datasets below.
If available, associations are ranked by standardized value
| Dataset | Summary | |
|---|---|---|
| Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles | tissue samples with high or low expression of H1-6 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset. | |
| CM4AI KOLF21J CRISPRi Gene Perturbation Atlas | gene perturbations changing expression of H1-6 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset. | |
| COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 | cellular components co-occuring with H1-6 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset. | |
| DepMap CRISPR Gene Dependency | cell lines with fitness changed by H1-6 gene knockdown relative to other cell lines from the DepMap CRISPR Gene Dependency dataset. | |
| DISEASES Experimental Gene-Disease Association Evidence Scores 2025 | diseases associated with H1-6 gene in GWAS datasets from the DISEASES Experimental Gene-Disease Assocation Evidence Scores 2025 dataset. | |
| DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 | diseases co-occuring with H1-6 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset. | |
| DisGeNET Gene-Disease Associations | diseases associated with H1-6 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset. | |
| GO Biological Process Annotations 2023 | biological processes involving H1-6 gene from the curated GO Biological Process Annotations 2023 dataset. | |
| GO Biological Process Annotations 2025 | biological processes involving H1-6 gene from the curated GO Biological Process Annotations2025 dataset. | |
| GO Cellular Component Annotations 2023 | cellular components containing H1-6 protein from the curated GO Cellular Component Annotations 2023 dataset. | |
| GO Cellular Component Annotations 2025 | cellular components containing H1-6 protein from the curated GO Cellular Component Annotations 2025 dataset. | |
| GO Molecular Function Annotations 2023 | molecular functions performed by H1-6 gene from the curated GO Molecular Function Annotations 2023 dataset. | |
| GO Molecular Function Annotations 2025 | molecular functions performed by H1-6 gene from the curated GO Molecular Function Annotations 2025 dataset. | |
| GTEx Tissue Gene Expression Profiles 2023 | tissues with high or low expression of H1-6 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset. | |
| GWAS Catalog SNP-Phenotype Associations 2025 | phenotypes associated with H1-6 gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations 2025 dataset. | |
| JASPAR Predicted Human Transcription Factor Targets 2025 | transcription factors regulating expression of H1-6 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Human Transcription Factor Targets dataset. | |
| JASPAR Predicted Mouse Transcription Factor Targets 2025 | transcription factors regulating expression of H1-6 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Mouse Transcription Factor Targets 2025 dataset. | |
| LINCS L1000 CMAP Chemical Perturbation Consensus Signatures | small molecule perturbations changing expression of H1-6 gene from the LINCS L1000 CMAP Chemical Perturbations Consensus Signatures dataset. | |
| MGI Mouse Phenotype Associations 2023 | phenotypes of transgenic mice caused by H1-6 gene mutations from the MGI Mouse Phenotype Associations 2023 dataset. | |
| PFOCR Pathway Figure Associations 2023 | pathways involving H1-6 protein from the PFOCR Pathway Figure Associations 2023 dataset. | |
| PFOCR Pathway Figure Associations 2024 | pathways involving H1-6 protein from the Wikipathways PFOCR 2024 dataset. | |
| Rummagene Transcription Factor Associations 2026 | transcription factors regulating expression of H1-6 gene from the Rummagene Transcription Factor Associations 2026 dataset. | |
| RummaGEO Drug Perturbation Signatures | drug perturbations changing expression of H1-6 gene from the RummaGEO Drug Perturbation Signatures dataset. | |
| RummaGEO Gene Perturbation Signatures | gene perturbations changing expression of H1-6 gene from the RummaGEO Gene Perturbation Signatures dataset. | |
| TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 | tissues with high expression of H1-6 protein in proteomics datasets from the TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 dataset. | |
| TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 | tissues co-occuring with H1-6 protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 dataset. | |