DCLK1

Chr 13

doublecortin like kinase 1

Also known as: CL1, CLICK1, DCAMKL1, DCDC3A, DCLK

The protein is a serine/threonine kinase containing doublecortin domains that bind microtubules and regulate microtubule polymerization, functioning in neuronal migration, retrograde transport, and neurogenesis in the developing and mature nervous system. Mutations cause autosomal dominant epileptic encephalopathy with intellectual disability and developmental delay, typically presenting in early childhood. This gene is extremely intolerant to loss-of-function mutations, indicating that even single functional copies may be insufficient for normal development.

OMIMResearchSummary from RefSeq, UniProt
LOFmechanismLOEUF 0.23
Clinical SummaryDCLK1
Population Constraint (gnomAD)
Highly constrained gene — heterozygous loss-of-function variants are very rare in the population (pLI 1.00). One damaged copy is likely sufficient to cause disease.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Dual constrained — LoF & missense intolerant
LoF Constraint
0.23LOEUF
pLI 1.000
Z-score 5.30
OE 0.10 (0.050.23)
Highly constrained

Highly LoF-intolerant (top ~10% of genes)

Missense Constraint
4.40Z-score
OE missense 0.41 (0.360.46)
177 obs / 435.7 exp
Constrained

Highly missense-constrained (top ~0.1%)

Observed / Expected Ratios
LoF OE0.10 (0.050.23)
00.351.4
Missense OE0.41 (0.360.46)
00.61.4
Synonymous OE0.85
01.21.6
LoF obs/exp: 4 / 40.4Missense obs/exp: 177 / 435.7Syn Z: 1.59
DN
0.5181th %ile
GOF
0.4874th %ile
LOF
0.68top 10%

The highest-scoring mechanism for this gene is loss-of-function (haploinsufficiency).

LOFprediction above median · LOEUF 0.23

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312. Mechanism ranking also informed by gnomAD constraint, ClinVar, and ClinGen data.

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

DCLK1 · 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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