CENPF

Chr 1AR

centromere protein F

Also known as: CENF, CILD31, PRO1779, STROMS, hcp-1

This gene encodes a protein that associates with the centromere-kinetochore complex. The protein is a component of the nuclear matrix during the G2 phase of interphase. In late G2 the protein associates with the kinetochore and maintains this association through early anaphase. It localizes to the spindle midzone and the intracellular bridge in late anaphase and telophase, respectively, and is thought to be subsequently degraded. The localization of this protein suggests that it may play a role in chromosome segregation during mitotis. It is thought to form either a homodimer or heterodimer. Autoantibodies against this protein have been found in patients with cancer or graft versus host disease. [provided by RefSeq, Jul 2008]

Primary Disease Associations & Inheritance

Stromme syndromeMIM #243605
AR
0
Active trials
0
Pathogenic / LP
0
ClinVar variants
49
Pubs (1 yr)
-0.0
Missense Z
0.73
LOEUF
Clinical SummaryCENPF
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
📖
GeneReview available — CENPF
Authoritative clinical overview · Recommended first read
Open GeneReview ↗

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
0.73LOEUF
pLI 0.000
Z-score 4.14
OE 0.61 (0.510.73)
Tolerant

Typical tolerance to LoF variation

Missense Constraint
-0.03Z-score
OE missense 1.00 (0.961.05)
1473 obs / 1469.8 exp
Tolerant

Tolerant to missense variation

Observed / Expected Ratios
LoF OE0.61 (0.510.73)
00.351.4
Missense OE1.00 (0.961.05)
00.61.4
Synonymous OE1.02
01.21.6
LoF obs/exp: 79 / 129.9Missense obs/exp: 1473 / 1469.8Syn Z: -0.30
DN
DN
0.74top 25%
GOF
0.6248th %ile
LOF
0.2774th %ile

The highest-scoring mechanism for this gene is dominant-negative.

DNprediction 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

CENPF · protein map & ClinVar variants

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

Gene2Phenotype Curations

CENPF-related Stromme syndrome

strong
ARLoss Of FunctionAbsent Gene Product
Dev. Disorders
G2P ↗

Gene2Phenotype curations · DECIPHER consortium patient cohort (public variants) · deciphergenomics.org

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
Landmark / reviewRecent case evidence