MAF p.Arg299=
c.897C>T · rs1199556915 · VCV1879343
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
very rare (popmax 0.000424%, nfe)
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 2.3 | GERP -2.4, phastCons 1 |
| Overall | ||
| CADD | 12.33 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.000424%
European (non-Finnish) · 5/1,179,928 alleles
Filtering AF
0.000124%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 9e-05%
Overall
0.00031%
5/1,613,588 alleles · very rare
exomes 4/1,461,720 · genomes 1/151,868 · joint denominator
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
- MAF
- Protein
- p.Arg299=
- Coding
- c.897C>T
- MANE Select
- NM_005360
- dbSNP
- rs1199556915
- Type
- single nucleotide variant
- Location
- chr16:79599006 (GRCh38)
- Gene constraint
- LOEUF 0.852 · pLI 0.03 (gnomAD)
- Structure
- AlphaFold pLDDT 62.21
- Residue 299
- the bzip domain; the 'represses are-mediated transcription' region; the 'basic motif' region
Similar variants
- MAF p.Arg299Cys Pathogenic/Likely pathogenic ★★ same residue
- MAF p.Arg299Ser Likely pathogenic ★ same residue
- MAF p.Arg299Gly Uncertain significance ⚠ same residue
- MAF p.Ala302Val Pathogenic/Likely pathogenic ★★ same type
- MAF p.Arg306Gly Pathogenic/Likely pathogenic ★★ same type
- MAF p.Cys305Phe Likely pathogenic ★★ same type
- MAF p.Pro59His Pathogenic/Likely pathogenic ★★ same type
- MAF p.Ser54Leu Pathogenic ★★ 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/maf-p-arg299 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown