CDK13 Gene

HGNC Family	Cyclin-dependent kinases (CDK)
Name	cyclin-dependent kinase 13
Description	The protein encoded by this gene is a member of the cyclin-dependent serine/threonine protein kinase family. Members of this family are well known for their essential roles as master switches in cell cycle control. The exact function of this protein has not yet been determined, but it may play a role in mRNA processing and may be involved in regulation of hematopoiesis. Alternatively spliced transcript variants have been described.[provided by RefSeq, Dec 2009]
Summary	{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n CDK13 is a cyclin‐dependent kinase that functions as a transcriptional regulator by phosphorylating the C-terminal domain (CTD) of RNA polymerase II, thereby modulating elongation and co‐transcriptional RNA processing events."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "3"}]}, {"type": "t", "text": " Although CDK13 forms a complex with cyclin K similar to its paralog CDK12, it displays distinct substrate selectivity that differentially influences the expression of RNA processing factors and small nuclear RNAs."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": " In cancer, CDK13 is emerging as a critical player; gene amplification studies have identified CDK13 as a common oncogenic driver whose increased copy number correlates with early clinical onset"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": ", and de novo missense variants clustered within its kinase domain are associated with congenital heart defects and intellectual disability."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": " Moreover, upregulation of CDK13 promotes cell proliferation in prostate cancer through a regulatory feedback loop involving circular RNA species and the transcription factor E2F5"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "6"}]}, {"type": "t", "text": ", while ADAR1-dependent RNA editing events in the CDK13 transcript enhance oncogenic properties in thyroid cancer cells."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}]}, {"type": "t", "text": " CDK13 further contributes to neural development by regulating axonal elongation via modulation of CDK5 expression."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "8"}]}, {"type": "t", "text": " Finally, proteomic analyses in tumor samples also implicate aberrant CDK13 expression as a potential diagnostic biomarker and therapeutic target."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "9"}]}, {"type": "t", "text": " Collectively, these findings delineate a multifaceted role for CDK13 in transcription regulation, RNA splicing, developmental processes, and tumorigenesis.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Bartlomiej Bartkowiak, Pengda Liu, Hemali P Phatnani, et al. "}, {"type": "b", "children": [{"type": "t", "text": "CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1."}]}, {"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.1968210"}], "href": "https://doi.org/10.1101/gad.1968210"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "20952539"}], "href": "https://pubmed.ncbi.nlm.nih.gov/20952539"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Kaiwei Liang, Xin Gao, Joshua M Gilmore, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Characterization of human cyclin-dependent kinase 12 (CDK12) and CDK13 complexes in C-terminal domain phosphorylation, gene transcription, and RNA processing."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Cell Biol (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1128/MCB.01426-14"}], "href": "https://doi.org/10.1128/MCB.01426-14"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25561469"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25561469"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Qian Dai, Tingjun Lei, Changhong Zhao, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Cyclin K-containing kinase complexes maintain self-renewal in murine embryonic stem cells."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M111.321760"}], "href": "https://doi.org/10.1074/jbc.M111.321760"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22547058"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22547058"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Hye-Eun Kim, Dae-Ghon Kim, Kyung Jin Lee, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Frequent amplification of CENPF, GMNN and CDK13 genes in hepatocellular carcinomas."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "PLoS One (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1371/journal.pone.0043223"}], "href": "https://doi.org/10.1371/journal.pone.0043223"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22912832"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22912832"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "W M R van den Akker, I Brummelman, L M Martis, et al. "}, {"type": "b", "children": [{"type": "t", "text": "De novo variants in CDK13 associated with syndromic ID/DD: Molecular and clinical delineation of 15 individuals and a further review."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Clin Genet (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1111/cge.13225"}], "href": "https://doi.org/10.1111/cge.13225"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "29393965"}], "href": "https://pubmed.ncbi.nlm.nih.gov/29393965"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Jin-Chun Qi, Zhan Yang, Tao Lin, et al. "}, {"type": "b", "children": [{"type": "t", "text": "CDK13 upregulation-induced formation of the positive feedback loop among circCDK13, miR-212-5p/miR-449a and E2F5 contributes to prostate carcinogenesis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Exp Clin Cancer Res (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1186/s13046-020-01814-5"}], "href": "https://doi.org/10.1186/s13046-020-01814-5"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "33390186"}], "href": "https://pubmed.ncbi.nlm.nih.gov/33390186"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Julia Ramírez-Moya, Christos Miliotis, Allison R Baker, et al. "}, {"type": "b", "children": [{"type": "t", "text": "An ADAR1-dependent RNA editing event in the cyclin-dependent kinase CDK13 promotes thyroid cancer hallmarks."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Cancer (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1186/s12943-021-01401-y"}], "href": "https://doi.org/10.1186/s12943-021-01401-y"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "34496885"}], "href": "https://pubmed.ncbi.nlm.nih.gov/34496885"}]}, {"type": "r", "ref": 8, "children": [{"type": "t", "text": "Hong-Ru Chen, Guan-Ting Lin, Chun-Kai Huang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Cdk12 and Cdk13 regulate axonal elongation through a common signaling pathway that modulates Cdk5 expression."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Exp Neurol (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.expneurol.2014.06.024"}], "href": "https://doi.org/10.1016/j.expneurol.2014.06.024"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24999027"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24999027"}]}, {"type": "r", "ref": 9, "children": [{"type": "t", "text": "Daniel Ansari, Roland Andersson, Monika P Bauden, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Protein deep sequencing applied to biobank samples from patients with pancreatic cancer."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Cancer Res Clin Oncol (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00432-014-1817-x"}], "href": "https://doi.org/10.1007/s00432-014-1817-x"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25216700"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25216700"}]}]}]}
Synonyms	CHED, HCDK13, CHDFIDD, CDC2L5, CDC2L
Proteins	CDK13_HUMAN
NCBI Gene ID	8621
API
Download Associations
Predicted Functions
Co-expressed Genes
Expression in Tissues and Cell Lines

Functional Associations

CDK13 has 7,268 functional associations with biological entities spanning 8 categories (molecular profile, organism, chemical, functional term, phrase or reference, disease, phenotype or trait, structural feature, cell line, cell type or tissue, gene, protein or microRNA) extracted from 115 datasets.

Click the + buttons to view associations for CDK13 from the datasets below.

If available, associations are ranked by standardized value

Harmonizome 3.0

CDK13 Gene

Functional Associations

Please acknowledge the Harmonizome in your publications by citing the following reference(s):

	Dataset	Summary
	Achilles Cell Line Gene Essentiality Profiles	cell lines with fitness changed by CDK13 gene knockdown relative to other cell lines from the Achilles Cell Line Gene Essentiality Profiles dataset.
	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of CDK13 gene relative to other tissues from the Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles dataset.
	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	tissues with high or low expression of CDK13 gene relative to other tissues from the Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles dataset.
	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	tissue samples with high or low expression of CDK13 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray dataset.
	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	tissue samples with high or low expression of CDK13 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq dataset.
	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of CDK13 gene relative to other tissues from the Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles dataset.
	BioGPS Cell Line Gene Expression Profiles	cell lines with high or low expression of CDK13 gene relative to other cell lines from the BioGPS Cell Line Gene Expression Profiles dataset.
	BioGPS Human Cell Type and Tissue Gene Expression Profiles	cell types and tissues with high or low expression of CDK13 gene relative to other cell types and tissues from the BioGPS Human Cell Type and Tissue Gene Expression Profiles dataset.
	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	cell types and tissues with high or low expression of CDK13 gene relative to other cell types and tissues from the BioGPS Mouse Cell Type and Tissue Gene Expression Profiles dataset.
	CCLE Cell Line Gene CNV Profiles	cell lines with high or low copy number of CDK13 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset.
	CCLE Cell Line Gene Expression Profiles	cell lines with high or low expression of CDK13 gene relative to other cell lines from the CCLE Cell Line Gene Expression Profiles dataset.
	CCLE Cell Line Gene Mutation Profiles	cell lines with CDK13 gene mutations from the CCLE Cell Line Gene Mutation Profiles dataset.
	CCLE Cell Line Proteomics	Cell lines associated with CDK13 protein from the CCLE Cell Line Proteomics dataset.
	CellMarker Gene-Cell Type Associations	cell types associated with CDK13 gene from the CellMarker Gene-Cell Type Associations dataset.
	ChEA Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of CDK13 gene from the CHEA Transcription Factor Binding Site Profiles dataset.
	ChEA Transcription Factor Targets	transcription factors binding the promoter of CDK13 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets dataset.
	ChEA Transcription Factor Targets 2022	transcription factors binding the promoter of CDK13 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets 2022 dataset.
	CMAP Signatures of Differentially Expressed Genes for Small Molecules	small molecule perturbations changing expression of CDK13 gene from the CMAP Signatures of Differentially Expressed Genes for Small Molecules dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores	cellular components containing CDK13 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	cellular components containing CDK13 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	cellular components containing CDK13 protein in low- or high-throughput protein localization assays from the COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 dataset.
	COMPARTMENTS Text-mining Protein Localization Evidence Scores	cellular components co-occuring with CDK13 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores dataset.
	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	cellular components co-occuring with CDK13 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset.
	COSMIC Cell Line Gene CNV Profiles	cell lines with high or low copy number of CDK13 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
	COSMIC Cell Line Gene Mutation Profiles	cell lines with CDK13 gene mutations from the COSMIC Cell Line Gene Mutation Profiles dataset.
	CTD Gene-Chemical Interactions	chemicals interacting with CDK13 gene/protein from the curated CTD Gene-Chemical Interactions dataset.
	CTD Gene-Disease Associations	diseases associated with CDK13 gene/protein from the curated CTD Gene-Disease Associations dataset.
	DepMap CRISPR Gene Dependency	cell lines with fitness changed by CDK13 gene knockdown relative to other cell lines from the DepMap CRISPR Gene Dependency dataset.
	DISEASES Text-mining Gene-Disease Association Evidence Scores	diseases co-occuring with CDK13 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores dataset.
	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	diseases co-occuring with CDK13 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 CDK13 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset.
	DisGeNET Gene-Phenotype Associations	phenotypes associated with CDK13 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Phenoptype Associations dataset.
	ENCODE Histone Modification Site Profiles	histone modification site profiles with high histone modification abundance at CDK13 gene from the ENCODE Histone Modification Site Profiles dataset.
	ENCODE Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of CDK13 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
	ENCODE Transcription Factor Targets	transcription factors binding the promoter of CDK13 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	PubMedIDs of publications reporting gene signatures containing CDK13 from the ESCAPE Omics Signatures of Genes and Proteins for Stem Cells dataset.
	GDSC Cell Line Gene Expression Profiles	cell lines with high or low expression of CDK13 gene relative to other cell lines from the GDSC Cell Line Gene Expression Profiles dataset.
	GeneRIF Biological Term Annotations	biological terms co-occuring with CDK13 gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset.
	GeneSigDB Published Gene Signatures	PubMedIDs of publications reporting gene signatures containing CDK13 from the GeneSigDB Published Gene Signatures dataset.
	GEO Signatures of Differentially Expressed Genes for Diseases	disease perturbations changing expression of CDK13 gene from the GEO Signatures of Differentially Expressed Genes for Diseases dataset.