DHX32 p.Leu38=
c.112T>C · rs552754249 · VCV1972236
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
very rare (popmax 0.00167%, 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 -3 | GERP -3.2 |
| Overall | ||
| CADD | 1.417 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.00167%
Admixed American · 1/60,026 alleles
Filtering AF
7.9e-05%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 5.4e-05%
Overall
0.000342%
5/1,461,880 alleles · very rare
| Ancestry group | Frequency | 1 in |
|---|---|---|
| Admixed Americangrpmax | 0.00167% | 60,026 |
| European (non-Finnish) | 0.000339% | 295,008 |
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
- DHX32
- Protein
- p.Leu38=
- Coding
- c.112T>C
- MANE Select
- NM_018180
- dbSNP
- rs552754249
- Type
- single nucleotide variant
- Location
- chr10:125880713 (GRCh38)
- Gene constraint
- LOEUF 0.919 · pLI <0.01 (gnomAD)
- Structure
- AlphaFold pLDDT 86.34
Similar variants
- DHX32 p.Ala251Val Uncertain significance ★★ ⚠ same type
- DHX32 p.Ala93Thr Uncertain significance ★★ ⚠ same type
- DHX32 p.Arg129Gln Uncertain significance ★★ ⚠ same type
- DHX32 p.Arg261Cys Uncertain significance ★★ ⚠ same type
- DHX32 p.Arg261His Uncertain significance ★★ ⚠ same type
- DHX32 p.Asn239Lys Uncertain significance ★★ ⚠ same type
- DHX32 p.Asn297His Uncertain significance ★★ ⚠ same type
- DHX32 p.Asn297Ile 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/dhx32-p-leu38 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown