NCOA2

Chr 8

nuclear receptor coactivator 2

Also known as: GRIP1, KAT13C, NCoA-2, SRC-2, SRC2, TIF2, bHLHe75

The NCOA2 protein functions as a transcriptional coactivator for nuclear hormone receptors, including steroid, thyroid, retinoid, and vitamin D receptors, and plays a critical role in glucose metabolism regulation and circadian clock function. Mutations in NCOA2 cause neurodevelopmental disorders with variable features including intellectual disability, developmental delay, and growth abnormalities, typically with autosomal dominant inheritance. This gene is highly constrained against loss-of-function variants in the general population, indicating that such mutations are likely to be pathogenic when they occur.

Summary from RefSeq, UniProt
Research Assistant →
0
Active trials
64
Pubs (1 yr)
0
P/LP submissions
P/LP missense
0.12
LOEUF· LoF intol.
LOF
Mechanism· predicted
Clinical SummaryNCOA2
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

LoF intolerant — likely haploinsufficient
LoF Constraint
0.12LOEUF
pLI 1.000
Z-score 7.06
OE 0.05 (0.020.12)
Highly constrained

Among the most LoF-intolerant genes (~top 3%)

Missense Constraint
2.29Z-score
OE missense 0.77 (0.720.83)
622 obs / 804.5 exp
Mild constraint

Moderately missense-constrained (top ~2.5%)

Observed / Expected Ratios
LoF OE0.05 (0.020.12)
00.351.4
Missense OE0.77 (0.720.83)
00.61.4
Synonymous OE0.94
01.21.6
LoF obs/exp: 3 / 63.9Missense obs/exp: 622 / 804.5Syn Z: 0.76
DN
0.2499th %ile
GOF
0.1799th %ile
LOF
0.87top 5%

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

LOFprediction above median · LOEUF 0.12

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

NCOA2 · protein map & ClinVar variants

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

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

Search ClinicalTrials.gov →
Clinical Literature
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Full-Text Mentions
NLP-detected gene mentions in article bodies · via PubTator3
PubTator3
Top 5 full-text resultsSearch PubTator3 ↗
Key Publications
Landmark & review papers · by relevance
PubMed
Malignant Cartilage-Forming Tumors.
Hameed M·Surg Pathol Clin
2021Review
Congenital spindle cell rhabdomyosarcoma.
Whittle SB et al.·Pediatr Blood Cancer
2019Review
Rhabdomyosarcomas of Bone: An Update.
Shah A et al.·Surg Pathol Clin
2025Review
Top 5 results · since 2015Search PubMed ↗