Is DRC4 p.Arg132Cys (c.394C>T) pathogenic?

DRC4 p.Arg132Cys (c.394C>T) is classified Uncertain significance in DRC4 (ClinVar, Single submitter, 1 submitter; last evaluated 2022-01-07). AlphaMissense: likely benign (0.0774); Ultra-rare (popmax 0.0285%, sas); Associated with Inborn genetic diseases.

What condition is associated with DRC4 p.Arg132Cys (c.394C>T)?

DRC4 p.Arg132Cys (c.394C>T) is associated with Inborn genetic diseases (ClinVar).

How common is DRC4 p.Arg132Cys (c.394C>T) in the general population?

DRC4 p.Arg132Cys (c.394C>T) is ultra-rare (popmax 0.0285%, sas) (gnomAD).

What do computational predictors say about DRC4 p.Arg132Cys (c.394C>T)?

AlphaMissense predicts likely benign (score 0.0774) — an in-silico prediction, not a clinical call.

DRC4 p.Arg132Cys

c.394C>T · rs149848921 · VCV3098686

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

AlphaMissense

likely benign

0.0774 · ACMG-weighted

gnomAD v4.1

Rare

ultra-rare (popmax 0.0285%, sas)

Missense predictors

0/3 damaging

AlphaMissense, REVEL, SaProt

Conditions

Inborn genetic diseases

Computational evidence

Protein change
AlphaMissense	0.0774	likely benign
REVEL	0.209	benign-leaning
SaProt	LLR -7.89	tolerated
⇒ AlphaMissense, REVEL and SaProt all call this tolerated.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP -0.24
Regional constraint	o/e 1.12	unconstrained · MANE · 21 kb · p 0.0024 · regional, not allelic
Overall
CADD	12.9	PHRED · no single calibrated threshold — expert panels disagree

ClinVar classifies this uncertain; the computational predictors unanimously lean tolerated — a triage signal, not a reclassification

AlphaMissense carries the ACMG weight for missense; REVEL and SaProt are independent agreement signals.

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.0285% South Asian · 26/91,078 alleles

Filtering AF 0.0199% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.0171%

Overall 0.00452% 73/1,613,882 alleles · ultra-rare

Ancestry group	Frequency	1 in
South Asiangrpmax	0.0285%	3,503
Admixed American	0.02%	4,999
African / African-American	0.0187%	5,353
Middle Eastern	0.0165%	6,060
Remaining individualsnot grpmax-eligible	0.008%	12,500
Ashkenazi Jewishnot grpmax-eligible	0.00338%	29,602
Finnishnot grpmax-eligible	0.00156%	64,024
European (non-Finnish)	0.0011%	90,761

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: DRC4
Protein: p.Arg132Cys
Coding: c.394C>T
MANE Select: NM_001481
dbSNP: rs149848921
Type: single nucleotide variant
Location: chr16:90032823 (GRCh38)
Structure: AlphaFold pLDDT 85.12 · 1 PDB
Residue 132: the 'microtubule-binding' region

Full DRC4 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

Inborn genetic diseases — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

DRC4 p.Arg132His Uncertain significance ★ ⚠ same residue
DRC4 p.Ala280Thr Uncertain significance ★★ ⚠ same condition
DRC4 p.Ala460Pro Uncertain significance ★★ ⚠ same condition
DRC4 p.Arg203Gln Uncertain significance ★★ ⚠ same condition
DRC4 p.Arg278Cys Uncertain significance ★★ ⚠ same condition
DRC4 p.Arg342Trp Uncertain significance ★★ ⚠ same condition
DRC4 p.Arg369Cys Uncertain significance ★★ ⚠ same condition
DRC4 p.Asp239Tyr 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/drc4-p-arg132cys (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown