NOL4

Chr 18

nucleolar protein 4

Also known as: CT125, HRIHFB2255, NOLP

The NOL4 protein is predicted to bind RNA and localize to the nucleolus. This gene is highly constrained against loss-of-function variants (pLI = 1.00, LOEUF = 0.22), suggesting mutations would likely cause severe disease, but no specific disease associations have been established yet. The extreme intolerance to functional variants indicates NOL4 likely plays a critical role in cellular function.

OMIMResearchSummary from RefSeq
LOFmechanismLOEUF 0.22
Clinical SummaryNOL4
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.
📋
ClinVar Variants
46 unique Pathogenic / Likely Pathogenic· 67 VUS of 126 total submissions

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

LoF intolerant — likely haploinsufficient
LoF Constraint
0.22LOEUF
pLI 0.999
Z-score 5.02
OE 0.09 (0.040.22)
Highly constrained

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

Missense Constraint
2.27Z-score
OE missense 0.66 (0.600.74)
240 obs / 361.3 exp
Mild constraint

Moderately missense-constrained (top ~2.5%)

Observed / Expected Ratios
LoF OE0.09 (0.040.22)
00.351.4
Missense OE0.66 (0.600.74)
00.61.4
Synonymous OE1.14
01.21.6
LoF obs/exp: 3 / 35.0Missense obs/exp: 240 / 361.3Syn Z: -1.28
DN
0.3395th %ile
GOF
0.2895th %ile
LOF
0.77top 5%

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

LOFprediction above median · LOEUF 0.22

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

126 submitted variants in ClinVar

Classification Summary

Pathogenic43
Likely Pathogenic3
VUS67
Likely Benign4
Benign1
43
Pathogenic
3
Likely Pathogenic
67
VUS
4
Likely Benign
1
Benign

Curated Variants Distribution

Classified variants from ClinVar · 5 ACMG categories

ClassificationLoFMissense + InframeNon-codingSynonymousTotal
Pathogenic
0
0
43
0
43
Likely Pathogenic
0
0
3
0
3
VUS
0
65
2
0
67
Likely Benign
0
1
1
2
4
Benign
0
0
1
0
1
Total066502118

LoF = frameshift, stop gained/lost, canonical splice · Counts from ClinVar esearch · Updated hourly

View in ClinVar →

Protein Context — Lollipop Plot

NOL4 · 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
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