BMPR1B p.Val132=
c.396G>A · VCV4784111
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
very rare (popmax 0.000254%, nfe)
Conditions
2
acromesomelic dysplasia 3
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 6.6 | GERP -0.34, phastCons 1 |
| Overall | ||
| CADD | 10.4 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.000254%
European (non-Finnish) · 3/1,179,324 alleles
Filtering AF
6.8e-05%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 1.9e-05%
Overall
0.000205%
3/1,460,196 alleles · very rare
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
- BMPR1B
- Protein
- p.Val132=
- Coding
- c.396G>A
- MANE Select
- NM_001203
- Type
- single nucleotide variant
- Location
- chr4:95123856 (GRCh38)
- Gene constraint
- LOEUF 0.331 · pLI 1.00 (gnomAD)
- Structure
- AlphaFold pLDDT 85.36 · 1 PDB
Similar variants
- BMPR1B p.Val132Gly Likely benign ★ same residue
- BMPR1B c.585+1G>C Likely pathogenic ★★ same condition
- BMPR1B p.Arg486Trp Pathogenic ★★ same condition
- BMPR1B p.Arg412Gly Uncertain significance ★★ ⚠ same condition
- BMPR1B p.Arg91Ile Uncertain significance ★★ ⚠ same condition
- BMPR1B p.Asn257Asp Uncertain significance ★★ ⚠ same condition
- BMPR1B p.Asp166Gly Uncertain significance ★★ ⚠ same condition
- BMPR1B p.Asp280Asn Uncertain significance ★★ same condition
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/bmpr1b-p-val132 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown