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GeneE
25 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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CTNNA1
catenin alpha 1
Chromosome 5 · 5q31.2
NCBI Gene: 1495Ensembl: ENSG00000044115.21HGNC: HGNC:2509UniProt: A0A384MDY0
310PubMed Papers
21Diseases
0Drugs
233Pathogenic Variants
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
cellular response to indole-3-methanolidentical protein bindingfocal adhesionbeta-catenin bindingButterfly-shaped pigment dystrophyhereditary diffuse gastric adenocarcinomahereditary neoplastic syndromeInherited cancer-predisposing syndrome
✦AI Summary

CTNNA1 encodes α-E-catenin, a crucial component of adherens junctions that links cadherin-mediated cell adhesion complexes to the actin cytoskeleton 1. The protein associates with the cytoplasmic domains of various cadherins, particularly E-cadherin, forming complexes essential for cell-cell adhesion properties 2. Unlike initial beliefs, α-E-catenin does not directly bind F-actin when assembled in cadherin complexes, suggesting more complex mechanisms for linking adherens junctions to the cytoskeleton 2. CTNNA1 functions as an invasion-suppressor gene, with biallelic inactivation leading to increased cellular invasiveness in colon cancer, following Knudsen's two-hit model 3. The gene contains alternative transcriptional start sites that produce N-terminally truncated isoforms highly expressed in nervous tissue, potentially affecting brain-specific functions 4. Germline pathogenic variants in CTNNA1 are associated with hereditary diffuse gastric cancer (HDGC), though they account for less than 2% of HDGC families and show specific association with early-onset diffuse gastric cancer rather than lobular breast cancer 56. The protein is ubiquitously expressed across normal tissues and maps to chromosome 5 1.

Sources cited
1
CTNNA1 structure, chromosomal location (5q31), and ubiquitous tissue expression
PMID: 8404069
2
Function in cadherin-mediated cell adhesion and signaling pathways
PMID: 14519384
3
Role as invasion-suppressor gene following two-hit model in colon cancer
PMID: 10023666
4
Alternative transcription producing N-terminally truncated isoforms in nervous system
PMID: 21708131
5
Association with hereditary diffuse gastric cancer and limited involvement in HDGC families
PMID: 34425242
6
Low frequency of CTNNA1 germline alterations in Chinese HDGC patients
PMID: 36484990
Disease Associationsⓘ21
Butterfly-shaped pigment dystrophyOpen Targets
0.75Strong
hereditary diffuse gastric adenocarcinomaOpen Targets
0.56Moderate
hereditary neoplastic syndromeOpen Targets
0.56Moderate
Inherited cancer-predisposing syndromeOpen Targets
0.56Moderate
colorectal cancerOpen Targets
0.51Moderate
Familial exudative vitreoretinopathyOpen Targets
0.38Weak
exudative vitreoretinopathyOpen Targets
0.37Weak
patterned macular dystrophy 1Open Targets
0.37Weak
hereditary mixed polyposis syndromeOpen Targets
0.37Weak
Retinal dystrophyOpen Targets
0.35Weak
Hereditary breast and ovarian cancer syndromeOpen Targets
0.34Weak
hereditary breast ovarian cancer syndromeOpen Targets
0.34Weak
central nervous system cancerOpen Targets
0.28Weak
placental retentionOpen Targets
0.27Weak
Alzheimer diseaseOpen Targets
0.26Weak
craniosynostosisOpen Targets
0.26Weak
irritable bowel syndromeOpen Targets
0.24Weak
ankylosing spondylitisOpen Targets
0.23Weak
colorectal adenocarcinomaOpen Targets
0.21Weak
bladder transitional cell carcinomaOpen Targets
0.20Weak
Macular dystrophy, patterned, 2UniProt
Pathogenic Variants233
NM_001903.5(CTNNA1):c.1899+1G>CLikely pathogenic
Hereditary cancer-predisposing syndrome|not provided|Hereditary diffuse gastric adenocarcinoma
★★☆☆2026
NM_001903.5(CTNNA1):c.99del (p.Thr34fs)Pathogenic
Hereditary diffuse gastric adenocarcinoma|not provided|CTNNA1-related disorder
★★☆☆2026→ Residue 34
NM_001903.5(CTNNA1):c.1390-1G>ALikely pathogenic
not provided
★★☆☆2025
NM_001903.5(CTNNA1):c.2191C>T (p.Arg731Ter)Pathogenic
not provided|Hereditary cancer-predisposing syndrome|CTNNA1-associated FEVR|Patterned macular dystrophy 2
★★☆☆2025→ Residue 731
NM_001903.5(CTNNA1):c.385C>T (p.Arg129Ter)Pathogenic
not provided|Hereditary diffuse gastric adenocarcinoma|Hereditary cancer-predisposing syndrome
★★☆☆2025→ Residue 129
NM_001903.5(CTNNA1):c.1271_1281del (p.Arg424fs)Pathogenic
Hereditary cancer-predisposing syndrome|not provided
★★☆☆2025→ Residue 424
NM_001903.5(CTNNA1):c.468+1G>TLikely pathogenic
Hereditary diffuse gastric adenocarcinoma|Hereditary cancer-predisposing syndrome
★★☆☆2025
NM_001903.5(CTNNA1):c.1330dup (p.Glu444fs)Pathogenic
not provided|Hereditary diffuse gastric adenocarcinoma
★★☆☆2025→ Residue 444
NM_001903.5(CTNNA1):c.1969C>T (p.Gln657Ter)Pathogenic
not provided|Hereditary cancer-predisposing syndrome|Hereditary diffuse gastric adenocarcinoma
★★☆☆2025→ Residue 657
NM_001903.5(CTNNA1):c.1007_1008del (p.Glu336fs)Pathogenic
not provided|Hereditary cancer-predisposing syndrome
★★☆☆2025→ Residue 336
NM_001903.5(CTNNA1):c.1351C>T (p.Arg451Ter)Pathogenic
not provided|Hereditary cancer-predisposing syndrome|Hereditary diffuse gastric adenocarcinoma|Patterned macular dystrophy 2
★★☆☆2025→ Residue 451
NM_001903.5(CTNNA1):c.292C>T (p.Arg98Ter)Pathogenic
not provided|Hereditary cancer-predisposing syndrome|Hereditary diffuse gastric adenocarcinoma
★★☆☆2025→ Residue 98
NM_001903.5(CTNNA1):c.151_152del (p.Lys51fs)Pathogenic
not provided|Hereditary diffuse gastric adenocarcinoma
★★☆☆2025→ Residue 51
NM_001903.5(CTNNA1):c.1822G>T (p.Glu608Ter)Pathogenic
Hereditary diffuse gastric adenocarcinoma|not provided
★★☆☆2025→ Residue 608
NM_001903.5(CTNNA1):c.39G>A (p.Trp13Ter)Pathogenic
Hereditary diffuse gastric adenocarcinoma|Hereditary cancer-predisposing syndrome
★★☆☆2025→ Residue 13
NM_001903.5(CTNNA1):c.1261C>T (p.Gln421Ter)Pathogenic
not provided|Hereditary cancer-predisposing syndrome
★★☆☆2025→ Residue 421
NM_001903.5(CTNNA1):c.2043dup (p.Ala682fs)Pathogenic
Hereditary cancer-predisposing syndrome|not provided
★★☆☆2025→ Residue 682
NM_001903.5(CTNNA1):c.95_96del (p.Leu32fs)Pathogenic
Hereditary cancer-predisposing syndrome|Hereditary diffuse gastric adenocarcinoma
★★☆☆2025→ Residue 32
NM_001903.5(CTNNA1):c.1078_1081del (p.Arg360fs)Pathogenic
not provided|Hereditary diffuse gastric adenocarcinoma|Hereditary cancer-predisposing syndrome
★★☆☆2025→ Residue 360
NM_001903.5(CTNNA1):c.1991dup (p.Ala665fs)Pathogenic
not provided|Hereditary cancer-predisposing syndrome|Hereditary diffuse gastric adenocarcinoma
★★☆☆2025→ Residue 665
View on ClinVar ↗
Related Genes
ACTA1Protein interaction100%ACTG1Protein interaction100%ACTN4Protein interaction100%ACTN1Protein interaction100%CDH1Protein interaction100%CDH2Protein interaction100%
Tissue Expression6 tissues
Heart
100%
Lung
65%
Brain
51%
Ovary
42%
Liver
33%
Bone Marrow
15%
Gene Interaction Network
Click a node to explore
CTNNA1ACTA1ACTG1ACTN4ACTN1CDH1CDH2
PROTEIN STRUCTURE
Preparing viewer…
PDB6V2O · 1.27 Å · X-ray
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
0.49Moderately Constrained
pLIⓘ
0.97Intolerant
Observed/Expected LoF0.37 [0.28–0.49]
RankingsWhere CTNNA1 stands among ~20K protein-coding genes
  • #1,104of 20,598
    Most Researched310 · top 10%
  • #275of 5,498
    Most Pathogenic Variants233 · top 10%
  • #2,893of 17,882
    Most Constrained (LOEUF)0.49 · top quartile
Genes detectedCTNNA1
Sources retrieved25 papers
Response time—
📄 Sources
25▼
1
Cancer predisposition and germline CTNNA1 variants.
PMID: 34425242
Eur J Med Genet · 2021
1.00
2
Whole-Exome Sequencing Among Chinese Patients With Hereditary Diffuse Gastric Cancer.
PMID: 36484990
JAMA Netw Open · 2022
0.90
3
Hereditary diffuse gastric cancer spectrum associated with germline
PMID: 40998418
Gut · 2026
0.84
4
[Hereditary diffuse gastric cancer].
PMID: 36700973
Chirurgie (Heidelb) · 2023
0.80
5
The human alphaE-catenin gene CTNNA1: mutational analysis and rare occurrence of a truncated splice variant.
PMID: 11997091
Biochim Biophys Acta · 2002
0.70