PHF24

Chr 9

PHD finger protein 24

Also known as: GINIP

PHF24 encodes a transcriptional corepressor that negatively regulates gene transcription and is predicted to be involved in GABAergic synaptic transmission and pain perception pathways. The gene is highly constrained against loss-of-function variants (LOEUF 0.56), but no definitive human disease associations have been established for PHF24 mutations. Additional clinical and molecular studies are needed to determine the inheritance pattern and phenotypic spectrum associated with this gene.

OMIMResearchSummary from RefSeq
GOFmechanismLOEUF 0.56
Clinical SummaryPHF24
Population Constraint (gnomAD)
Constrained for loss-of-function variants (OE-LoF 0.28) despite low pLI — interpret in context.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Moderate LoF intolerance
LoF Constraint
0.56LOEUF
pLI 0.070
Z-score 3.05
OE 0.28 (0.150.56)
Moderately constrained

More LoF-intolerant than ~75% of genes

Missense Constraint
0.72Z-score
OE missense 0.88 (0.790.98)
231 obs / 264.0 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.28 (0.150.56)
00.351.4
Missense OE0.88 (0.790.98)
00.61.4
Synonymous OE0.98
01.21.6
LoF obs/exp: 6 / 21.1Missense obs/exp: 231 / 264.0Syn Z: 0.19
DN
0.4289th %ile
GOF
0.6444th %ile
LOF
0.4233th %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

PHF24 · 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.

Search ClinicalTrials.gov →
Clinical Literature
Open Research Assistant →
Key Publications
Landmark & review papers · by relevance
PubMed
Top 2 results · since 2015Search PubMed ↗