LRRC9 Gene

Name	leucine rich repeat containing 9
Description	Predicted to enable U2 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Located in cytoplasm. [provided by Alliance of Genome Resources, Mar 2025]
Summary	{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n Recent studies indicate that the protein LRRC9 may act as a multifunctional signaling adaptor that integrates elements of defense, developmental regulation, and possibly behavior. Bioinformatic analyses have revealed that LRRC9 contains an atypical ADP‐ribosyltransferase‐like domain embedded between leucine‐rich repeat (LRR) motifs. Although this ART domain is highly divergent and appears to lack key catalytic residues—suggesting that LRRC9 may function as a pseudoenzyme—it is postulated to link pathogen or stress detection via its LRR regions to alternative signaling pathways, reminiscent of innate immune responses."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " In parallel, population genomic studies in sockeye salmon have uncovered signatures of strong divergent selection spanning the LRRC9 locus, implicating it in the regulation of reproductive behavioral traits such as stream‐ versus shore‐spawning ecotypes."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": " Moreover, in amphibian embryos exposed to a retinoid X receptor antagonist, LRRC9 was among the few genes consistently differentially expressed, suggesting that it might also play a role in developmental signaling processes that are sensitive to environmental or chemical perturbations."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Collectively, these findings support the notion that LRRC9 serves as an integrative component in linking environmental or pathogen cues to downstream signaling and regulatory networks involved in both immune defense and the modulation of key developmental and reproductive processes.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Zbigniew Wyżewski, Marcin Gradowski, Marianna Krysińska, et al. "}, {"type": "b", "children": [{"type": "t", "text": "A novel predicted ADP-ribosyltransferase-like family conserved in eukaryotic evolution."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "PeerJ (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.7717/peerj.11051"}], "href": "https://doi.org/10.7717/peerj.11051"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "33854844"}], "href": "https://pubmed.ncbi.nlm.nih.gov/33854844"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Andrew J Veale, Michael A Russello "}, {"type": "b", "children": [{"type": "t", "text": "An ancient selective sweep linked to reproductive life history evolution in sockeye salmon."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Sci Rep (2017)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41598-017-01890-2"}], "href": "https://doi.org/10.1038/s41598-017-01890-2"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "28496186"}], "href": "https://pubmed.ncbi.nlm.nih.gov/28496186"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Jingmin Zhu, Huahong Shi, Pan Zhu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Effects of antagonist of retinoid X receptor (UVI3003) on morphology and gene profile of Xenopus tropicalis embryos."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Environ Toxicol Pharmacol (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.etap.2014.05.010"}], "href": "https://doi.org/10.1016/j.etap.2014.05.010"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24950139"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24950139"}]}]}]}
Proteins	LRRC9_HUMAN
NCBI Gene ID	341883
API
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Predicted Functions
Co-expressed Genes
Expression in Tissues and Cell Lines

Functional Associations

LRRC9 has 1,402 functional associations with biological entities spanning 7 categories (molecular profile, organism, functional term, phrase or reference, disease, phenotype or trait, chemical, cell line, cell type or tissue, gene, protein or microRNA) extracted from 49 datasets.

Click the + buttons to view associations for LRRC9 from the datasets below.

If available, associations are ranked by standardized value

Harmonizome 3.0

LRRC9 Gene

Functional Associations

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

	Dataset	Summary
	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of LRRC9 gene relative to other tissues from the Allen Brain Atlas Adult Human 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 LRRC9 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 LRRC9 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray dataset.
	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of LRRC9 gene relative to other tissues from the Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles dataset.
	ChEA Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of LRRC9 gene from the CHEA Transcription Factor Binding Site Profiles dataset.
	ChEA Transcription Factor Targets	transcription factors binding the promoter of LRRC9 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 LRRC9 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 LRRC9 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	cellular components containing LRRC9 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	cellular components co-occuring with LRRC9 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 LRRC9 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
	dbGAP Gene-Trait Associations	traits associated with LRRC9 gene in GWAS and other genetic association datasets from the dbGAP Gene-Trait Associations dataset.
	DISEASES Experimental Gene-Disease Association Evidence Scores	diseases associated with LRRC9 gene in GWAS datasets from the DISEASES Experimental Gene-Disease Assocation Evidence Scores dataset.
	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	diseases associated with LRRC9 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 LRRC9 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset.
	ENCODE Histone Modification Site Profiles	histone modification site profiles with high histone modification abundance at LRRC9 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 LRRC9 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
	ENCODE Transcription Factor Targets	transcription factors binding the promoter of LRRC9 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 LRRC9 from the ESCAPE Omics Signatures of Genes and Proteins for Stem Cells dataset.
	GeneSigDB Published Gene Signatures	PubMedIDs of publications reporting gene signatures containing LRRC9 from the GeneSigDB Published Gene Signatures dataset.
	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	gene perturbations changing expression of LRRC9 gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
	GEO Signatures of Differentially Expressed Genes for Small Molecules	small molecule perturbations changing expression of LRRC9 gene from the GEO Signatures of Differentially Expressed Genes for Small Molecules dataset.
	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	transcription factor perturbations changing expression of LRRC9 gene from the GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations dataset.
	GEO Signatures of Differentially Expressed Genes for Viral Infections	virus perturbations changing expression of LRRC9 gene from the GEO Signatures of Differentially Expressed Genes for Viral Infections dataset.
	GTEx Tissue Gene Expression Profiles	tissues with high or low expression of LRRC9 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles dataset.
	GTEx Tissue Gene Expression Profiles 2023	tissues with high or low expression of LRRC9 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset.
	GTEx Tissue Sample Gene Expression Profiles	tissue samples with high or low expression of LRRC9 gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset.
	GWASdb SNP-Disease Associations	diseases associated with LRRC9 gene in GWAS and other genetic association datasets from the GWASdb SNP-Disease Associations dataset.
	GWASdb SNP-Phenotype Associations	phenotypes associated with LRRC9 gene in GWAS datasets from the GWASdb SNP-Phenotype Associations dataset.
	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	cell lines with high or low expression of LRRC9 gene relative to other cell lines from the Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles dataset.
	HPA Tissue Gene Expression Profiles	tissues with high or low expression of LRRC9 gene relative to other tissues from the HPA Tissue Gene Expression Profiles dataset.
	HPA Tissue Sample Gene Expression Profiles	tissue samples with high or low expression of LRRC9 gene relative to other tissue samples from the HPA Tissue Sample Gene Expression Profiles dataset.
	JASPAR Predicted Human Transcription Factor Targets 2025	transcription factors regulating expression of LRRC9 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 LRRC9 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Mouse Transcription Factor Targets 2025 dataset.
	JASPAR Predicted Transcription Factor Targets	transcription factors regulating expression of LRRC9 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Transcription Factor Targets dataset.
	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	cell lines with high or low copy number of LRRC9 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
	LOCATE Predicted Protein Localization Annotations	cellular components predicted to contain LRRC9 protein from the LOCATE Predicted Protein Localization Annotations dataset.
	MotifMap Predicted Transcription Factor Targets	transcription factors regulating expression of LRRC9 gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset.
	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	gene perturbations changing expression of LRRC9 gene from the PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	gene perturbations changing expression of LRRC9 gene from the PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	cell types and tissues with high or low DNA methylation of LRRC9 gene relative to other cell types and tissues from the Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles dataset.
	Rummagene Transcription Factor Associations 2026	transcription factors regulating expression of LRRC9 gene from the Rummagene Transcription Factor Associations 2026 dataset.
	RummaGEO Drug Perturbation Signatures	drug perturbations changing expression of LRRC9 gene from the RummaGEO Drug Perturbation Signatures dataset.
	RummaGEO Gene Perturbation Signatures	gene perturbations changing expression of LRRC9 gene from the RummaGEO Gene Perturbation Signatures dataset.
	Tabula Sapiens Gene-Cell Associations	cell types with high or low expression of LRRC9 gene relative to other cell types from the Tabula Sapiens Gene-Cell Associations dataset.
	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	tissues with high expression of LRRC9 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 LRRC9 protein in proteomics datasets from the TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 dataset.
	TISSUES Text-mining Tissue Protein Expression Evidence Scores	tissues co-occuring with LRRC9 protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores dataset.
	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	tissues co-occuring with LRRC9 protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 dataset.