| Name | H3.5 histone |
| Description | 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 contains introns and its mRNA is polyadenylated, unlike most histone genes. The protein encoded by this gene is a replication-independent histone that is a member of the histone H3 family. [provided by RefSeq, Oct 2015] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n Histone H3.5 is a recently identified variant of histone H3 that exhibits a highly specialized and restricted function in the human testis. Unlike the canonical H3 variants, H3.5 is encoded via a retrotransposition event and is expressed specifically in the seminiferous tubules, where it is incorporated preferentially into euchromatic regions and associates with actively transcribed genes. Studies have shown that when ectopically expressed in cultured cells, H3.5 is assembled into chromatin, is post‐translationally modified, and can even compensate for deficiencies in H3.3 function, thus sustaining cell growth."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n In the context of spermatogenesis, H3.5 is predominantly expressed in immature germ cells such as spermatogonia and early primary spermatocytes – a pattern distinct from other testis‐specific histones that are typically involved in the histone–protamine exchange during meiosis. Its expression correlates with markers of DNA replication (for example, PCNA), suggesting a role in facilitating DNA synthesis rather than regulating cell death. Moreover, the reduced levels of H3.5 observed in cases of non‐obstructive azoospermia (NOA), alongside its responsiveness to gonadotropin stimulation, underscore its potential importance in maintaining normal spermatogenic processes."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Collectively, these findings indicate that H3.5 serves as a critical epigenetic regulator within the testes, contributing to the maintenance of an open chromatin state necessary for active transcription and proper germ cell proliferation. Its unique structural attributes and regulated expression suggest that perturbations in H3.5 may underlie defects in early germ cell development and spermatogenesis.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Raphael Schenk, Andreas Jenke, Matthias Zilbauer, et al. "}, {"type": "b", "children": [{"type": "t", "text": "H3.5 is a novel hominid-specific histone H3 variant that is specifically expressed in the seminiferous tubules of human testes."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Chromosoma (2011)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00412-011-0310-4"}], "href": "https://doi.org/10.1007/s00412-011-0310-4"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "21274551"}], "href": "https://pubmed.ncbi.nlm.nih.gov/21274551"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "K Shiraishi, A Shindo, A Harada, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Roles of histone H3.5 in human spermatogenesis and spermatogenic disorders."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Andrology (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1111/andr.12438"}], "href": "https://doi.org/10.1111/andr.12438"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "29179259"}], "href": "https://pubmed.ncbi.nlm.nih.gov/29179259"}]}]}]}
|
| NCBI Gene ID | 440093 |
| API | |
| Download Associations | |
| Predicted Functions |
![]() |
| Co-expressed Genes |
![]() |
| Expression in Tissues and Cell Lines |
![]() |
H3-5 has 6,254 functional associations with biological entities spanning 6 categories (functional term, phrase or reference, disease, phenotype or trait, chemical, cell line, cell type or tissue, gene, protein or microRNA, sequence feature) extracted from 26 datasets.
Click the + buttons to view associations for H3-5 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 H3-5 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset. | |
| CellMarker Gene-Cell Type Associations | cell types associated with H3-5 gene from the CellMarker Gene-Cell Type Associations dataset. | |
| CM4AI KOLF21J CRISPRi Gene Perturbation Atlas | gene perturbations changing expression of H3-5 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset. | |
| COMPARTMENTS Curated Protein Localization Evidence Scores 2025 | cellular components containing H3-5 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset. | |
| COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 | cellular components co-occuring with H3-5 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 H3-5 gene knockdown relative to other cell lines from the DepMap CRISPR Gene Dependency dataset. | |
| DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 | diseases co-occuring with H3-5 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 H3-5 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset. | |
| GO Biological Process Annotations 2023 | biological processes involving H3-5 gene from the curated GO Biological Process Annotations 2023 dataset. | |
| GO Biological Process Annotations 2025 | biological processes involving H3-5 gene from the curated GO Biological Process Annotations2025 dataset. | |
| GO Cellular Component Annotations 2023 | cellular components containing H3-5 protein from the curated GO Cellular Component Annotations 2023 dataset. | |
| GO Cellular Component Annotations 2025 | cellular components containing H3-5 protein from the curated GO Cellular Component Annotations 2025 dataset. | |
| GO Molecular Function Annotations 2023 | molecular functions performed by H3-5 gene from the curated GO Molecular Function Annotations 2023 dataset. | |
| GO Molecular Function Annotations 2025 | molecular functions performed by H3-5 gene from the curated GO Molecular Function Annotations 2025 dataset. | |
| GTEx eQTL 2025 | SNPs regulating expression of H3-5 gene from the GTEx eQTL 2025 dataset. | |
| GTEx Tissue Gene Expression Profiles 2023 | tissues with high or low expression of H3-5 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset. | |
| JASPAR Predicted Human Transcription Factor Targets 2025 | transcription factors regulating expression of H3-5 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Human Transcription Factor Targets dataset. | |
| KEGG Pathways 2026 | pathways involving H3-5 protein from the KEGG Pathways 2026 dataset. | |
| MoTrPAC Rat Endurance Exercise Training | tissue samples with high or low expression of H3-5 gene relative to other tissue samples from the MoTrPAC Rat Endurance Exercise Training dataset. | |
| PFOCR Pathway Figure Associations 2024 | pathways involving H3-5 protein from the Wikipathways PFOCR 2024 dataset. | |
| Rummagene Transcription Factor Associations 2026 | transcription factors regulating expression of H3-5 gene from the Rummagene Transcription Factor Associations 2026 dataset. | |
| RummaGEO Drug Perturbation Signatures | drug perturbations changing expression of H3-5 gene from the RummaGEO Drug Perturbation Signatures dataset. | |
| RummaGEO Gene Perturbation Signatures | gene perturbations changing expression of H3-5 gene from the RummaGEO Gene Perturbation Signatures dataset. | |
| TISSUES Curated Tissue Protein Expression Evidence Scores 2025 | tissues with high expression of H3-5 protein from the TISSUES Curated Tissue Protein Expression Evidence Scores 2025 dataset. | |
| TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 | tissues with high expression of H3-5 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 H3-5 protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 dataset. | |