CENPN

Chr 16

centromere protein N

Also known as: BM039, C16orf60, CENP-N, ICEN32

The protein forms part of the nucleosome-associated complex that is essential for kinetochore assembly and chromosome segregation by directly binding to CENPA nucleosomes at centromeres. Mutations cause autosomal recessive primary microcephaly with growth retardation and developmental delays. This gene is moderately constrained against loss-of-function variants, and the condition typically presents in early infancy with severe microcephaly and failure to thrive.

OMIMResearchSummary from RefSeq, UniProt
LOEUF 0.65
Clinical SummaryCENPN
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
0.65LOEUF
pLI 0.004
Z-score 2.81
OE 0.36 (0.210.65)
Tolerant

Typical tolerance to LoF variation

Missense Constraint
-0.43Z-score
OE missense 1.09 (0.971.22)
202 obs / 185.7 exp
Tolerant

Tolerant to missense variation

Observed / Expected Ratios
LoF OE0.36 (0.210.65)
00.351.4
Missense OE1.09 (0.971.22)
00.61.4
Synonymous OE1.21
01.21.6
LoF obs/exp: 8 / 22.3Missense obs/exp: 202 / 185.7Syn Z: -1.36

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

CENPN · 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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