CLIC3

Chr 9

chloride intracellular channel 3

The protein functions as a glutaredoxin-like enzyme catalyzing thiol disulfide exchange reactions and can form chloride ion channels when inserted into membranes. Mutations cause autosomal recessive congenital cataract, facial dysmorphism, and neuropathy syndrome. This gene is not highly constrained against loss-of-function mutations, consistent with a recessive inheritance pattern.

OMIMResearchSummary from UniProt
GOFmechanismLOEUF 1.89
Clinical SummaryCLIC3
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
Some data sources returned errors (1)

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Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
1.89LOEUF
pLI 0.000
Z-score -0.89
OE 1.33 (0.821.89)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint
1.14Z-score
OE missense 0.74 (0.640.87)
116 obs / 156.3 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE1.33 (0.821.89)
00.351.4
Missense OE0.74 (0.640.87)
00.61.4
Synonymous OE0.67
01.21.6
LoF obs/exp: 11 / 8.2Missense obs/exp: 116 / 156.3Syn Z: 2.30
DN
0.5870th %ile
GOF
0.75top 25%
LOF
0.3163th %ile

The highest-scoring mechanism for this gene is gain-of-function.

GOFprediction above median

Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

CLIC3 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

3D Protein StructureAlphaFold

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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