Is ACTB p.Gly146Ser (c.436G>A) pathogenic?

ACTB p.Gly146Ser (c.436G>A) is classified Pathogenic/Likely pathogenic in ACTB (ClinVar, No assertion criteria, 2 submitters; last evaluated 2023-08-11). AlphaMissense: likely pathogenic (0.9989); Absent from gnomAD v4.1; Associated with CONGENITAL SMOOTH MUSCLE HAMARTOMA, SOMATIC, MOSAIC.

How common is ACTB p.Gly146Ser (c.436G>A) in the general population?

ACTB p.Gly146Ser (c.436G>A) is absent from gnomAD v4.1 (gnomAD).

What do computational predictors say about ACTB p.Gly146Ser (c.436G>A)?

AlphaMissense predicts likely pathogenic (score 0.9989) — an in-silico prediction, not a clinical call.

ACTB p.Gly146Ser

Q: What condition is associated with ACTB p.Gly146Ser (c.436G>A)?

ACTB p.Gly146Ser (c.436G>A) is associated with CONGENITAL SMOOTH MUSCLE HAMARTOMA, SOMATIC, MOSAIC, congenital smooth muscle hamartoma (ClinVar).

c.436G>A · rs2128241304 · VCV1344713

Pathogenic/Likely pathogenic No assertion criteria

Classification

Pathogenic/Likely pathogenic

ClinVar

Review

No assertion criteria ☆☆☆☆

ClinVar · 2 submitters

AlphaMissense

likely pathogenic

0.9989 · ACMG-weighted

gnomAD v4.1

Absent

absent from gnomAD v4.1

Missense predictors

3/3 damaging

AlphaMissense, REVEL, SaProt

Conditions

CONGENITAL SMOOTH MUSCLE HAMARTOMA, SOMATIC, MOSAIC

Computational evidence

Protein change
AlphaMissense	0.9989	likely pathogenic ✓ concordant with ClinVar
REVEL	0.982	strongly pathogenic-leaning
SaProt	LLR -15.35	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 7.7	GERP 1.8, phastCons 1
Regional constraint	o/e 0.11	constrained · MANE · 1,149 bp · p 1.6e-51 · regional, not allelic
Overall
CADD	33.0	PHRED · no single calibrated threshold — expert panels disagree

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: ACTB
Protein: p.Gly146Ser
Coding: c.436G>A
MANE Select: NM_001101
dbSNP: rs2128241304
Type: single nucleotide variant
Location: chr7:5528647 (GRCh38)
Gene constraint: LOEUF 0.193 · pLI 1.00 · ClinGen HI 0/3 (gnomAD)
Structure: AlphaFold pLDDT 95.31 · 93 PDB
Residue 146: a UniProt-annotated variant site (in csmh; somatic variant)

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

Disease context

CONGENITAL SMOOTH MUSCLE HAMARTOMA, SOMATIC, MOSAIC

Also linked: congenital smooth muscle hamartoma

Similar variants

ACTB p.Gly146Ala Pathogenic/Likely pathogenic same residue
ACTB p.Gly146Asp Pathogenic same residue
ACTB p.Gly146Val Pathogenic same residue
ACTB p.Gly146= Likely benign ★ same residue
ACTB p.Arg183Trp Pathogenic ★★ same condition
ACTB p.Arg206Gly Likely pathogenic ★★ same condition
ACTB p.His40Tyr Pathogenic/Likely pathogenic ★★ same condition
ACTB p.Val159Ala Likely pathogenic ★★ 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/actb-p-gly146ser (accessed [today's date]).

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