SP100
Chr 2SP100 nuclear antigen
Also known as: lysp100b
SP100 encodes a major component of PML nuclear bodies that functions as a transcriptional coactivator and corepressor, regulating cell growth, differentiation, apoptosis, and viral responses. Mutations cause autosomal dominant immunodeficiency with anti-interferon autoantibodies and susceptible infections, typically presenting in childhood. The gene is highly constrained against loss-of-function variants, indicating intolerance to protein disruption.
Population Genetics & Constraint
gnomAD v4 — loss-of-function & missense intolerance
Typical tolerance to LoF variation
Mild missense constraint
The highest-scoring mechanism for this gene is dominant-negative.
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
200 submitted variants in ClinVar
Classification Summary
Curated Variants Distribution
Classified variants from ClinVar · 5 ACMG categories
| Classification | LoF | Missense + Inframe | Non-coding | Synonymous | Total |
|---|---|---|---|---|---|
Pathogenic | 0 | 0 | 29 | 0 | 29 |
Likely Pathogenic | 0 | 0 | 1 | 0 | 1 |
VUS | 1 | 95 | 2 | 0 | 98 |
Likely Benign | 1 | 18 | 0 | 0 | 19 |
Benign | 0 | 0 | 1 | 1 | 2 |
| Total | 2 | 113 | 33 | 1 | 149 |
LoF = frameshift, stop gained/lost, canonical splice · Counts from ClinVar esearch · Updated hourly
View in ClinVar →Protein Context — Lollipop Plot
SP100 · protein map & ClinVar variants
Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.
External Resources
Links to major genomics databases and tools
Clinical Trials
Active and recruiting trials from ClinicalTrials.gov
No active trials found for this gene.
Search ClinicalTrials.gov →External Resources
Links to major genomics databases and tools