CLN5

Chr 13AR

CLN5 intracellular trafficking protein

The CLN5 protein functions in lysosomal degradation of post-translationally modified proteins. Mutations cause neuronal ceroid lipofuscinosis type 5 (CLN5 disease), a form of Batten disease characterized by autosomal recessive inheritance and progressive neurodegeneration in children. The disease results from loss-of-function mutations that disrupt lysosomal storage function, leading to accumulation of lipofuscin and other cellular debris.

GeneReviewsOMIMResearchSummary from RefSeq, OMIM, UniProt
LOFmechanismARLOEUF 1.232 OMIM phenotypes
Clinical SummaryCLN5
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Gene-Disease Validity (ClinGen)
neuronal ceroid lipofuscinosis · ARDefinitive

Definitive — sufficient evidence for diagnostic panels

Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
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Clinical Trials
2 active or recruiting trials — potential therapeutic options may be available
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GeneReview available — CLN5
Authoritative clinical overview · Recommended first read
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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
1.23LOEUF
pLI 0.000
Z-score 0.85
OE 0.78 (0.521.23)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint
-0.12Z-score
OE missense 1.02 (0.921.14)
226 obs / 220.8 exp
Tolerant

Tolerant to missense variation

Observed / Expected Ratios
LoF OE0.78 (0.521.23)
00.351.4
Missense OE1.02 (0.921.14)
00.61.4
Synonymous OE0.91
01.21.6
LoF obs/exp: 14 / 17.9Missense obs/exp: 226 / 220.8Syn Z: 0.67

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

CLN5 · protein map & ClinVar variants

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

3D Protein StructureAlphaFold
Clinical Literature
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