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10 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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CLCA2
chloride channel accessory 2
Chromosome 1 · 1p22.3
NCBI Gene: 9635Ensembl: ENSG00000137975.8HGNC: HGNC:2016UniProt: Q9UQC9
47PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
ProteaseTransporter
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
plasma membranecell junctionintracellularly calcium-gated chloride channel activitymetalloendopeptidase activityHallux valgusheart conduction diseasecystic fibrosiscervical cancer
✦AI Summary

CLCA2 (chloride channel accessory 2) is a calcium-dependent chloride channel regulator and tumor suppressor with multifaceted roles in epithelial homeostasis and cancer prevention. Mechanistically, CLCA2 enhances store-operated calcium entry by interacting with ORAI-1 and STIM-1, thereby amplifying calcium-activated chloride currents through TMEM16A 1. Beyond ion channel regulation, CLCA2 functions as an adhesion molecule through interactions with EVA1 at cell-cell junctions and β-catenin in cytosolic signaling complexes 2. Nuclear-localized CLCA2, transported via extracellular vesicles, activates Wnt/β-catenin signaling and promotes keratinocyte survival under stress 3. CLCA2 expression is significantly downregulated in colorectal, breast, cervical, and prostate cancers, predominantly through promoter hypermethylation rather than mutation 4 5. In cervical cancer, CLCA2 loss correlates with advanced tumor stage, larger size, and poor prognosis 6. Functionally, CLCA2 suppresses cancer cell proliferation, migration, and invasion while inhibiting epithelial-to-mesenchymal transition via ERK/JNK/p38-MAPK pathway inactivation 7. Transcriptional repression of CLCA2 involves CTBP1-mediated complexes with HDACs, ZEB1, and EP300, as well as miR-196b-5p targeting 8. These findings establish CLCA2 as a clinically relevant tumor suppressor and potential therapeutic target across multiple cancer types.

Sources cited
1
CLCA2 transcription is downregulated in approximately 80% of colorectal carcinomas, suggesting a tumor suppressor role
PMID: 11445004
2
CLCA2 enhances store-operated calcium entry by interacting with ORAI-1 and STIM-1, dramatically increasing calcium-activated chloride currents through TMEM16A
PMID: 29758025
3
CLCA2 expression in cervical cancer correlates with tumor stage, size, and HPV status; low CLCA2 predicts worse overall and recurrence-free survival
PMID: 34055075
4
CLCA2 is epigenetically inactivated in breast cancer through promoter region hypermethylation, not primarily through somatic mutations
PMID: 14973555
5
CLCA2 overexpression inhibits cervical cancer cell proliferation, migration, invasion and EMT through inactivation of ERK/JNK/p38-MAPK signaling
PMID: 36280802
6
CLCA2 interacts with EVA1 at cell-cell junctions and with β-catenin in cytosolic complexes to promote epithelial differentiation and inhibit EMT
PMID: 26930581
7
CLCA2 is transported to keratinocyte nuclei via extracellular vesicles where it binds and activates β-catenin, enhancing Wnt target gene expression
PMID: 38602325
8
CLCA2 expression is repressed by CTBP1-formed complexes with ZEB1, EP300, HDACs, and by miR-196b-5p targeting in prostate cancer
PMID: 29536528
Disease Associationsⓘ20
Hallux valgusOpen Targets
0.32Weak
heart conduction diseaseOpen Targets
0.18Weak
cystic fibrosisOpen Targets
0.08Suggestive
cervical cancerOpen Targets
0.08Suggestive
squamous cell carcinomaOpen Targets
0.08Suggestive
nasopharyngeal carcinomaOpen Targets
0.07Suggestive
congenital disorder of glycosylation type IOpen Targets
0.06Suggestive
glycine N-methyltransferase deficiencyOpen Targets
0.05Suggestive
Isolated polycystic liver diseaseOpen Targets
0.05Suggestive
non-small cell lung carcinomaOpen Targets
0.05Suggestive
Familial exudative vitreoretinopathyOpen Targets
0.05Suggestive
breast cancerOpen Targets
0.05Suggestive
hepatocellular adenomaOpen Targets
0.05Suggestive
hepatocellular carcinomaOpen Targets
0.05Suggestive
colobomatous microphthalmia - obesity - hypogenitalism - intellectual disability syndromeOpen Targets
0.05Suggestive
Colobomatous microphthalmia-obesity-hypogenitalism-intellectual disability syndromeOpen Targets
0.05Suggestive
galactosemia 4Open Targets
0.04Suggestive
portal hypertensionOpen Targets
0.04Suggestive
neoplasmOpen Targets
0.04Suggestive
pediatric hepatocellular carcinomaOpen Targets
0.04Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
CLCN4Shared pathway100%CLCA4Protein interaction84%ANO2Protein interaction83%CLCA1Protein interaction80%CLCN5Shared pathway75%TTYH3Shared pathway75%
Tissue Expression6 tissues
Brain
100%
Lung
37%
Liver
31%
Ovary
24%
Bone Marrow
4%
Heart
0%
Gene Interaction Network
Click a node to explore
CLCA2CLCN4CLCA4ANO2CLCA1CLCN5TTYH3
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted · UniProt Q9UQC9
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
1.14LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.93 [0.77–1.14]
RankingsWhere CLCA2 stands among ~20K protein-coding genes
  • #9,188of 20,598
    Most Researched47
  • #11,885of 17,882
    Most Constrained (LOEUF)1.14
Genes detectedCLCA2
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
Expression of the Ca2+-activated chloride channel genes CLCA1 and CLCA2 is downregulated in human colorectal cancer.
PMID: 11445004
DNA Cell Biol · 2001
1.00
2
CLCA2 is a positive regulator of store-operated calcium entry and TMEM16A.
PMID: 29758025
PLoS One · 2018
0.90
3
CLCA2 suppresses the proliferation, migration and invasion of cervical cancer.
PMID: 34055075
Exp Ther Med · 2021
0.80
4
Transport of CLCA2 to the nucleus by extracellular vesicles controls keratinocyte survival and migration.
PMID: 38602325
J Extracell Vesicles · 2024
0.70
5
CLCA2 tumour suppressor gene in 1p31 is epigenetically regulated in breast cancer.
PMID: 14973555
Oncogene · 2004
0.60