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9 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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LRFN1
leucine rich repeat and fibronectin type III domain containing 1
Chromosome 19 · 19q13.2
NCBI Gene: 57622Ensembl: ENSG00000128011.6HGNC: HGNC:29290UniProt: Q9P244
20PubMed Papers
0Diseases
0Drugs
1Pathogenic Variants
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
protein bindingpostsynaptic density membraneplasma membranesynapse
✦AI Summary

LRFN1 (leucine rich repeat and fibronectin type III domain containing 1) is a neuronal transmembrane glycoprotein that plays a central role in excitatory synapse development and maintenance. The protein contains characteristic leucine-rich repeat, immunoglobulin-like, and fibronectin type III domains, with an extracellular N-terminus and intracellular C-terminus 1. LRFN1 promotes neurite outgrowth in hippocampal neurons and regulates excitatory synapse assembly through binding PSD95 at the postsynaptic density, facilitating clustering of key postsynaptic proteins including DLG4, DLGAP1, GRIA1, and GRIN1. Expression begins during immature neural development and persists into adulthood, predominantly in brain tissue 1. Beyond its synaptic functions, LRFN1 demonstrates emerging roles in cancer biology and disease pathology. In clear cell renal cell carcinoma, LRFN1 is directly targeted by miR-187-3p, and elevated LRFN1 expression promotes tumor progression, enhances immune infiltration (including M2 macrophages and CD8+ T cells), and serves as an independent prognostic biomarker 2. LRFN1 has been identified as a component of prognostic signatures in ovarian cancer and salivary gland carcinomas, where mutations associate with tumor subtype classification 3, 4. Additionally, LRFN1 methylation patterns are affected by maternal smoking exposure in utero 5. While LRFN1 localizes to a chromosome 19 region associated with autosomal dominant partial epilepsy with auditory features, sequence analysis has not identified disease-causing mutations in this gene 6.

Sources cited
1
LRFN1 is a transmembrane glycoprotein with LRR-Ig-Fn domain structure, binds PSD95, and is expressed in developing and mature brain tissue
PMID: 16828986
2
miR-187-3p directly targets LRFN1, and LRFN1 promotes ccRCC progression, immune infiltration, and serves as independent prognostic biomarker
PMID: 35799072
3
LRFN1 is part of an m6A-related 12-gene signature panel for ovarian cancer prognosis
PMID: 34137363
4
LRFN1 mutations are enriched in CRTC1-MAML2 fusion-negative mucoepidermoid carcinomas
PMID: 34011559
5
LRFN1 methylation is associated with maternal smoking exposure during pregnancy
PMID: 27887572
6
LRFN1 is located in chromosome 19q13.11-q13.31 region associated with ADPEAF, but sequence analysis did not identify disease-causing mutations
PMID: 24579982
Pathogenic Variants1
NM_020862.2(LRFN1):c.176T>C (p.Val59Ala)Likely pathogenic
LRFN1
★☆☆☆2021→ Residue 59
View on ClinVar ↗
Related Genes
LRRTM2Shared pathway100%CASKIN1Shared pathway100%DLG4Protein interaction90%PTPRDProtein interaction83%DLG1Protein interaction80%PTPRSProtein interaction49%
Tissue Expression

No tissue expression data available for this gene.

Gene Interaction Network
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LRFN1LRRTM2CASKIN1DLG4PTPRDDLG1PTPRS
PROTEIN STRUCTURE
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AlphaFoldAI-predicted · UniProt Q9P244
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
1.13LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.78 [0.55–1.13]
RankingsWhere LRFN1 stands among ~20K protein-coding genes
  • #14,190of 20,598
    Most Researched20
  • #5,376of 5,498
    Most Pathogenic Variants1
  • #11,622of 17,882
    Most Constrained (LOEUF)1.13
Genes detectedLRFN1
Sources retrieved9 papers
Response time—
📄 Sources
9â–¼
1
Comparative analysis of structure, expression and PSD95-binding capacity of Lrfn, a novel family of neuronal transmembrane proteins.
PMID: 16828986
Gene · 2006
1.00
2
Deciphering the role of miR-187-3p/LRFN1 axis in modulating progression, aerobic glycolysis and immune microenvironment of clear cell renal cell carcinoma.
PMID: 35799072
Discov Oncol · 2022
0.89
3
RNA sequencing profiles and diagnostic signatures linked with response to ramucirumab in gastric cancer.
PMID: 32060041
Cold Spring Harb Mol Case Stud · 2020
0.78
4
Whole-Genome Sequencing of Common Salivary Gland Carcinomas: Subtype-Restricted and Shared Genetic Alterations.
PMID: 34011559
Clin Cancer Res · 2021
0.67
5
N6-Methyladenosine-Related RNA Signature Predicting the Prognosis of Ovarian Cancer.
PMID: 34137363
Recent Pat Anticancer Drug Discov · 2021
0.56