FMN2 p.Pro945=
c.2835G>A · rs1186257105 · VCV1675409
Likely benign
Multiple submitters
Classification
Likely benign
ClinVar
Review
Multiple submitters ★★☆☆
ClinVar · 2 submitters
gnomAD v4.1
Rare
rare (popmax 0.145%, amr)
Computational evidence
| Protein change | ||
| Missense predictors do not apply to this variant type; conservation carries the signal. | ||
| Splicing | ||
| SpliceAI | — | not assessed · no allele here is in the release |
|---|---|---|
| Constraint at this position | ||
| Conservation | phyloP -15 | GERP -2.1 |
| Overall | ||
| CADD | 3.043 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.145%
Admixed American · 64/44,180 alleles
Filtering AF
0.116%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 0.106%
Overall
0.0446%
605/1,355,240 alleles · rare
exomes 540/1,305,824 · genomes 65/49,416 · joint denominator
| Ancestry group | Frequency | 1 in |
|---|---|---|
| Admixed Americangrpmax | 0.145% | 690 |
| Middle Eastern | 0.0716% | 1,397 |
| East Asian | 0.0488% | 2,048 |
| Remaining individualsnot grpmax-eligible | 0.0451% | 2,215 |
| European (non-Finnish) | 0.0451% | 2,220 |
| African / African-American | 0.0334% | 2,991 |
| South Asian | 0.0182% | 5,485 |
| Finnishnot grpmax-eligible | 0.00786% | 12,728 |
| Ashkenazi Jewishnot grpmax-eligible | 0.0043% | 23,238 |
Rarity supports pathogenicity (ACMG PM2); frequency above a disease-specific BA1/BS1 threshold argues against it. A variant frequent in one ancestry group can be near-absent in others, so a single global figure can mislead.
Variant & gene context
- Gene
- FMN2
- Protein
- p.Pro945=
- Coding
- c.2835G>A
- MANE Select
- NM_020066
- dbSNP
- rs1186257105
- Type
- single nucleotide variant
- Location
- chr1:240207647 (GRCh38)
- Gene constraint
- LOEUF 0.51 · pLI 0.51 (gnomAD)
- Structure
- AlphaFold pLDDT 51.48 · 2 PDB
- Residue 945
- the fh1 domain; the 'disordered' region
Similar variants
- FMN2 p.Pro945Leu Conflicting classifications of pathogenicity ★ ⚠ same residue
- FMN2 p.Ile183Phe Likely pathogenic ★★ ⚠ same type
- FMN2 p.Ala1691Val Uncertain significance ★★ ⚠ same type
- FMN2 p.Ala367Val Uncertain significance ★★ ⚠ same type
- FMN2 p.Ala508Val Uncertain significance ★★ ⚠ same type
- FMN2 p.Asp352Tyr Uncertain significance ★★ ⚠ same type
- FMN2 p.Gln192Leu Uncertain significance ★★ ⚠ same type
- FMN2 p.Gln210Arg Uncertain significance ★★ ⚠ same type
Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →
Cite Sugi Variant
Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/fmn2-p-pro945 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown