Is ACTC1 p.His175Arg (c.524A>G) pathogenic?

ACTC1 p.His175Arg (c.524A>G) is classified Uncertain significance in ACTC1 (ClinVar, Multiple submitters, 2 submitters; last evaluated 2025-01-23). AlphaMissense: likely pathogenic (0.9858); Absent from gnomAD v4.1; Associated with Cardiovascular phenotype.

What condition is associated with ACTC1 p.His175Arg (c.524A>G)?

ACTC1 p.His175Arg (c.524A>G) is associated with Cardiovascular phenotype (ClinVar).

How common is ACTC1 p.His175Arg (c.524A>G) in the general population?

ACTC1 p.His175Arg (c.524A>G) is absent from gnomAD v4.1 (gnomAD).

What do computational predictors say about ACTC1 p.His175Arg (c.524A>G)?

AlphaMissense predicts likely pathogenic (score 0.9858) — an in-silico prediction, not a clinical call.

ACTC1 p.His175Arg

c.524A>G · VCV3825756

Uncertain significance Multiple submitters

Classification

Uncertain significance

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 2 submitters

AlphaMissense

likely pathogenic

0.9858 · ACMG-weighted

gnomAD v4.1

Absent

absent from gnomAD v4.1

Missense predictors

3/3 damaging

AlphaMissense, REVEL, SaProt

Conditions

Cardiovascular phenotype

Computational evidence

Protein change
AlphaMissense	0.9858	likely pathogenic
REVEL	0.893	moderately pathogenic-leaning
SaProt	LLR -15.56	damaging
⇒ AlphaMissense, REVEL and SaProt all call this damaging.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 7.9	GERP 2.3, phastCons 1
Regional constraint	o/e 0.16	constrained · MANE · 2,113 bp · p 8.3e-37 · regional, not allelic
Overall
CADD	25.3	PHRED · no single calibrated threshold — expert panels disagree

ClinVar classifies this uncertain; the computational predictors unanimously lean damaging — 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

Absent from gnomAD v4.1. Not observed in any sequenced alleles — a rarity signal (ACMG PM2-supporting), not evidence of pathogenicity on its own.

Variant & gene context

Gene: ACTC1
Protein: p.His175Arg
Coding: c.524A>G
MANE Select: NM_005159
Type: single nucleotide variant
Location: chr15:34792500 (GRCh38)
Gene constraint: LOEUF 0.511 · pLI 0.97 · ClinGen HI 1/3 (gnomAD)
Structure: AlphaFold pLDDT 95.47 · 16 PDB
Residue 175: an α-helix

Full ACTC1 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

Cardiovascular phenotype — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

ACTC1 p.His175= Likely benign ★★ same residue
ACTC1 c.808+3G>A Uncertain significance ★★ same condition
ACTC1 p.Ala28Val Uncertain significance ★★ ⚠ same condition
ACTC1 p.Arg208Cys Uncertain significance ★★ ⚠ same condition
ACTC1 p.Arg208His Uncertain significance ★★ ⚠ same condition
ACTC1 p.Arg64Lys Uncertain significance ★★ ⚠ same condition
ACTC1 p.Asp159Asn Uncertain significance ★★ ⚠ same condition
ACTC1 p.Asp365Asn 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/actc1-p-his175arg (accessed [today's date]).

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