RPRD1A Gene

Name	regulation of nuclear pre-mRNA domain containing 1A
Description	This gene encodes a cell-cycle and transcription regulatory protein. The encoded protein interacts with the cell cycle inhibitor cyclin-dependent kinase 4 inhibitor B and may function as a negative regulator of G(1)/S phase progression. This protein also forms homo- and hetrodimers with the protein, regulation of nuclear pre-mRNA domain-containing protein 1B, to form a scaffold that interacts with the C-terminal domain of RNA polymerase II subunit B1 and regulates several aspects of transcription. Alternate splicing results in multiple transcript variants. A pseudogene of this gene is found on chromosome 16. [provided by RefSeq, Dec 2014]
Summary	{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nRegulation of nuclear pre-mRNA domain‐containing protein 1A (RPRD1A), also known as p15RS, plays a key role as a negative regulator of the Wnt/β-catenin signaling pathway. Studies have shown that RPRD1A inhibits oncogenic signaling by interfering with the formation of the β-catenin·TCF4 transcriptional complex and by recruiting transcriptional co‐repressors such as HDAC2 to maintain a deacetylated state at Wnt target gene promoters. Suppression of RPRD1A—such as via overexpressed miR-454-3p—leads to the activation of Wnt signaling, which in turn enhances cell migration, invasion, and metastatic potential in breast cancer and other malignancies."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "4"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nIn addition to its role in signaling, RPRD1A functions as a transcriptional scaffold. It forms homo- and heterodimers (with its family member RPRD1B) via coiled-coil domains and interacts with the C-terminal domain (CTD) of RNA polymerase II when phosphorylated at specific serine residues. This interaction helps recruit the RPAP2 phosphatase to properly coordinate the dephosphorylation of the CTD, thereby linking CTD modification dynamics to the regulation of gene transcription and RNA processing."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nBeyond its roles in Wnt signaling and transcription regulation, RPRD1A was originally identified as p15RS—a protein implicated in cell cycle control—through differential gene expression analyses. In this context, it negatively regulates cyclin D and cyclin E levels, thereby contributing to cell cycle arrest. Intriguingly, in hepatocellular carcinoma, high levels of RPRD1A have been associated with aggressive tumor features by modulating redox homeostasis; RPRD1A competes with E3 ubiquitin ligase TRIM21 to reduce the ubiquitination of p62, thus promoting sequestration of Keap1 and consequent nuclear accumulation of NRF2 that drives cytoprotective gene expression. These multifaceted functions highlight RPRD1A’s potential as both a diagnostic marker and a therapeutic target in various cancers."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "6"}]}, {"type": "t", "text": "\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Liangliang Ren, Han Chen, Junwei Song, et al. "}, {"type": "b", "children": [{"type": "t", "text": "MiR-454-3p-Mediated Wnt/β-catenin Signaling Antagonists Suppression Promotes Breast Cancer Metastasis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Theranostics (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.7150/thno.29055"}], "href": "https://doi.org/10.7150/thno.29055"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "30809286"}], "href": "https://pubmed.ncbi.nlm.nih.gov/30809286"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Yinyuan Wu, Yanquan Zhang, Haiwei Zhang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "p15RS attenuates Wnt/{beta}-catenin signaling by disrupting {beta}-catenin·TCF4 Interaction."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2010)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M110.148791"}], "href": "https://doi.org/10.1074/jbc.M110.148791"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "20739273"}], "href": "https://pubmed.ncbi.nlm.nih.gov/20739273"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Chunxiao Liu, Yanquan Zhang, Jun Li, et al. "}, {"type": "b", "children": [{"type": "t", "text": "p15RS/RPRD1A (p15INK4b-related sequence/regulation of nuclear pre-mRNA domain-containing protein 1A) interacts with HDAC2 in inhibition of the Wnt/β-catenin signaling pathway."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M114.620872"}], "href": "https://doi.org/10.1074/jbc.M114.620872"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25697359"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25697359"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Xiaocui Zhang, Qiuju Cao, Xiaodan Liu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Cellular and molecular evidence for malignancy-inhibitory functions of p15RS."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cell Cycle (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.4161/cc.20400"}], "href": "https://doi.org/10.4161/cc.20400"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22580456"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22580456"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Zuyao Ni, Chao Xu, Xinghua Guo, et al. "}, {"type": "b", "children": [{"type": "t", "text": "RPRD1A and RPRD1B are human RNA polymerase II C-terminal domain scaffolds for Ser5 dephosphorylation."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Struct Mol Biol (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/nsmb.2853"}], "href": "https://doi.org/10.1038/nsmb.2853"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24997600"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24997600"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Jun Liu, Huitu Liu, Xue Zhang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Identification and characterization of P15RS, a novel P15(INK4b) related gene on G1/S progression."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biochem Biophys Res Commun (2002)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/s0006-291x(02)02684-0"}], "href": "https://doi.org/10.1016/s0006-291x(02"}, {"type": "t", "text": "02684-0) PMID: "}, {"type": "a", "children": [{"type": "t", "text": "12470661"}], "href": "https://pubmed.ncbi.nlm.nih.gov/12470661"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Xiaofan Feng, Tianyi Jiang, Chun Yang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "RPRD1A stabilizes NRF2 and aggravates HCC progression through competing with p62 for TRIM21 binding."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cell Death Dis (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41419-021-04447-4"}], "href": "https://doi.org/10.1038/s41419-021-04447-4"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "34921137"}], "href": "https://pubmed.ncbi.nlm.nih.gov/34921137"}]}]}]}
Synonyms	P15RS, HST3101
Proteins	RPR1A_HUMAN
NCBI Gene ID	55197
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Predicted Functions
Co-expressed Genes
Expression in Tissues and Cell Lines

Functional Associations

RPRD1A has 6,297 functional associations with biological entities spanning 9 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, sequence feature) extracted from 111 datasets.

Click the + buttons to view associations for RPRD1A from the datasets below.

If available, associations are ranked by standardized value

Harmonizome 3.0

RPRD1A 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 RPRD1A 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 RPRD1A 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 RPRD1A gene relative to other tissues from the Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles dataset.
	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	tissue samples with high or low expression of RPRD1A gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset.
	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	tissue samples with high or low expression of RPRD1A 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 RPRD1A 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 RPRD1A 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 RPRD1A 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 RPRD1A gene relative to other cell types and tissues from the BioGPS Human Cell Type and Tissue Gene Expression Profiles dataset.
	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	small molecule perturbations changing expression of RPRD1A gene from the Carcinogenome Chemical Perturbation Carcinogenicity Signatures dataset.
	CCLE Cell Line Gene CNV Profiles	cell lines with high or low copy number of RPRD1A 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 RPRD1A gene relative to other cell lines from the CCLE Cell Line Gene Expression Profiles dataset.
	CCLE Cell Line Proteomics	Cell lines associated with RPRD1A protein from the CCLE Cell Line Proteomics dataset.
	ChEA Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of RPRD1A gene from the CHEA Transcription Factor Binding Site Profiles dataset.
	ChEA Transcription Factor Targets	transcription factors binding the promoter of RPRD1A 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 RPRD1A gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets 2022 dataset.
	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	gene perturbations changing expression of RPRD1A gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
	CM4AI U2OS Cell Map Protein Localization Assemblies	assemblies containing RPRD1A protein from integrated AP-MS and IF data from the CM4AI U2OS Cell Map Protein Localization Assemblies dataset.
	CMAP Signatures of Differentially Expressed Genes for Small Molecules	small molecule perturbations changing expression of RPRD1A gene from the CMAP Signatures of Differentially Expressed Genes for Small Molecules dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores	cellular components containing RPRD1A protein from the COMPARTMENTS Curated Protein Localization Evidence Scores dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	cellular components containing RPRD1A protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
	COMPARTMENTS Experimental Protein Localization Evidence Scores	cellular components containing RPRD1A protein in low- or high-throughput protein localization assays from the COMPARTMENTS Experimental Protein Localization Evidence Scores dataset.
	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	cellular components containing RPRD1A 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 RPRD1A 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 RPRD1A 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 RPRD1A gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
	COSMIC Cell Line Gene Mutation Profiles	cell lines with RPRD1A gene mutations from the COSMIC Cell Line Gene Mutation Profiles dataset.
	CTD Gene-Chemical Interactions	chemicals interacting with RPRD1A gene/protein from the curated CTD Gene-Chemical Interactions dataset.
	CTD Gene-Disease Associations	diseases associated with RPRD1A gene/protein from the curated CTD Gene-Disease Associations dataset.
	DeepCoverMOA Drug Mechanisms of Action	small molecule perturbations with high or low expression of RPRD1A protein relative to other small molecule perturbations from the DeepCoverMOA Drug Mechanisms of Action dataset.
	DepMap CRISPR Gene Dependency	cell lines with fitness changed by RPRD1A 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 RPRD1A 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 RPRD1A 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 RPRD1A gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset.
	DisGeNET Gene-Phenotype Associations	phenotypes associated with RPRD1A 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 RPRD1A 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 RPRD1A gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
	ENCODE Transcription Factor Targets	transcription factors binding the promoter of RPRD1A gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
	GDSC Cell Line Gene Expression Profiles	cell lines with high or low expression of RPRD1A gene relative to other cell lines from the GDSC Cell Line Gene Expression Profiles dataset.
	GeneRIF Biological Term Annotations	biological terms co-occuring with RPRD1A gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset.