| Name | H3 clustered histone 12 |
| Description | 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 H3 family. Transcripts from this gene lack polyA tails but instead contain a palindromic termination element. This gene is found in the small histone gene cluster on chromosome 6p22-p21.3. [provided by RefSeq, Aug 2015] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n Histone H3 proteins—including the canonical variants encoded by genes such as HIST1H3C (often referenced as H3.1) and the replacement variant H3.3 encoded by H3F3A—play central roles in chromatin structure and function. These proteins not only package DNA into nucleosomes but also act as dynamic platforms for the regulation of gene expression, DNA replication, repair, and genome stability. Several studies in pediatric brain tumors have shown that specific point mutations affecting key lysine residues (for example, the K27M substitution) in these variants induce a global reduction in repressive trimethylation (H3K27me3) and drive unique oncogenic transcriptional programs. In diffuse intrinsic pontine glioma (DIPG) and pediatric glioblastoma, mutations in H3.3 (H3F3A) and, less frequently, in the canonical H3.1 (encoded by HIST1H3B/C) demarcate molecularly and clinically distinct tumor subgroups that differ in cellular phenotypes and patient outcomes."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "4"}]}, {"type": "t", "text": " In normal cells, the distinct deposition pathways for histone H3 variants are mediated by specialized chaperones (such as DAXX for H3.3 and replication‐coupled factors for H3.1), which ensure timely nucleosome assembly and maintenance of epigenetic memory."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": " Furthermore, post‐translational modifications on these histones—such as methylation or acetylation at lysine residues (e.g. K27, K36, or K56)—further modulate chromatin accessibility and function in processes ranging from transcription elongation to centromere assembly and DNA repair."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "7", "end_ref": "9"}]}, {"type": "t", "text": " Notably, aberrant methylation of the HIST1H3C promoter has been identified as a prognostic biomarker in neuroblastoma, underscoring its role in tumor biology and potential as a diagnostic and therapeutic target."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "10"}]}, {"type": "t", "text": " Collectively, these findings emphasize that histone H3 variants—including those corresponding to H3C12/HIST1H3C—are not merely structural components of chromatin but also key regulators of epigenetic programs, whose alterations can profoundly influence developmental processes and tumorigenesis.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Dong-Anh Khuong-Quang, Pawel Buczkowicz, Patricia Rakopoulos, et al. "}, {"type": "b", "children": [{"type": "t", "text": "K27M mutation in histone H3.3 defines clinically and biologically distinct subgroups of pediatric diffuse intrinsic pontine gliomas."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Acta Neuropathol (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00401-012-0998-0"}], "href": "https://doi.org/10.1007/s00401-012-0998-0"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22661320"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22661320"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "David Castel, Cathy Philippe, Raphaël Calmon, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Histone H3F3A and HIST1H3B K27M mutations define two subgroups of diffuse intrinsic pontine gliomas with different prognosis and phenotypes."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Acta Neuropathol (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00401-015-1478-0"}], "href": "https://doi.org/10.1007/s00401-015-1478-0"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "26399631"}], "href": "https://pubmed.ncbi.nlm.nih.gov/26399631"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Sriram Venneti, Mariarita Santi, Michelle Madden Felicella, et al. "}, {"type": "b", "children": [{"type": "t", "text": "A sensitive and specific histopathologic prognostic marker for H3F3A K27M mutant pediatric glioblastomas."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Acta Neuropathol (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00401-014-1338-3"}], "href": "https://doi.org/10.1007/s00401-014-1338-3"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25200322"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25200322"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Dong Fang, Haiyun Gan, Liang Cheng, et al. "}, {"type": "b", "children": [{"type": "t", "text": "H3.3K27M mutant proteins reprogram epigenome by sequestering the PRC2 complex to poised enhancers."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Elife (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.7554/eLife.36696"}], "href": "https://doi.org/10.7554/eLife.36696"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "29932419"}], "href": "https://pubmed.ncbi.nlm.nih.gov/29932419"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Pascal Drané, Khalid Ouararhni, Arnaud Depaux, et al. "}, {"type": "b", "children": [{"type": "t", "text": "The death-associated protein DAXX is a novel histone chaperone involved in the replication-independent deposition of H3.3."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Genes Dev (2010)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1101/gad.566910"}], "href": "https://doi.org/10.1101/gad.566910"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "20504901"}], "href": "https://pubmed.ncbi.nlm.nih.gov/20504901"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Meghan C Barnhart, P Henning J L Kuich, Madison E Stellfox, et al. "}, {"type": "b", "children": [{"type": "t", "text": "HJURP is a CENP-A chromatin assembly factor sufficient to form a functional de novo kinetochore."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Cell Biol (2011)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1083/jcb.201012017"}], "href": "https://doi.org/10.1083/jcb.201012017"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "21768289"}], "href": "https://pubmed.ncbi.nlm.nih.gov/21768289"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Hong Wen, Yuanyuan Li, Yuanxin Xi, et al. "}, {"type": "b", "children": [{"type": "t", "text": "ZMYND11 links histone H3.3K36me3 to transcription elongation and tumour suppression."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nature (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/nature13045"}], "href": "https://doi.org/10.1038/nature13045"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24590075"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24590075"}]}, {"type": "r", "ref": 8, "children": [{"type": "t", "text": "Jian Yuan, Mintie Pu, Zhiguo Zhang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Histone H3-K56 acetylation is important for genomic stability in mammals."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cell Cycle (2009)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.4161/cc.8.11.8620"}], "href": "https://doi.org/10.4161/cc.8.11.8620"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "19411844"}], "href": "https://pubmed.ncbi.nlm.nih.gov/19411844"}]}, {"type": "r", "ref": 9, "children": [{"type": "t", "text": "Jun-ichirou Ohzeki, Jan H Bergmann, Natalay Kouprina, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Breaking the HAC Barrier: histone H3K9 acetyl/methyl balance regulates CENP-A assembly."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "EMBO J (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/emboj.2012.82"}], "href": "https://doi.org/10.1038/emboj.2012.82"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22473132"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22473132"}]}, {"type": "r", "ref": 10, "children": [{"type": "t", "text": "Anneleen Decock, Maté Ongenaert, Jasmien Hoebeeck, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Genome-wide promoter methylation analysis in neuroblastoma identifies prognostic methylation biomarkers."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Genome Biol (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1186/gb-2012-13-10-r95"}], "href": "https://doi.org/10.1186/gb-2012-13-10-r95"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23034519"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23034519"}]}]}]}
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| NCBI Gene ID | 8356 |
| 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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H3C12 has 1,429 functional associations with biological entities spanning 5 categories (disease, phenotype or trait, functional term, phrase or reference, chemical, cell line, cell type or tissue, gene, protein or microRNA) extracted from 9 datasets.
Click the + buttons to view associations for H3C12 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 H3C12 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 H3C12 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset. | |
| DISEASES Experimental Gene-Disease Association Evidence Scores 2025 | diseases associated with H3C12 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 H3C12 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset. | |
| GTEx Tissue Gene Expression Profiles 2023 | tissues with high or low expression of H3C12 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset. | |
| PFOCR Pathway Figure Associations 2024 | pathways involving H3C12 protein from the Wikipathways PFOCR 2024 dataset. | |
| Rummagene Transcription Factor Associations 2026 | transcription factors regulating expression of H3C12 gene from the Rummagene Transcription Factor Associations 2026 dataset. | |
| Sci-Plex Drug Perturbation Signatures | drug perturbations changing expression of H3C12 gene from the Sci-Plex Drug Perturbation Signatures dataset. | |
| WikiPathways Pathways 2024 | pathways involving H3C12 protein from the WikiPathways Pathways 2024 dataset. | |