Is DARS1 p.Arg151Cys (c.451C>T) pathogenic?

DARS1 p.Arg151Cys (c.451C>T) is classified Uncertain significance in DARS1 (ClinVar, Single submitter, 1 submitter; last evaluated 2025-09-04). AlphaMissense: ambiguous (0.5276); Ultra-rare (popmax 0.0147%, afr); Associated with Inborn genetic diseases.

What condition is associated with DARS1 p.Arg151Cys (c.451C>T)?

DARS1 p.Arg151Cys (c.451C>T) is associated with Inborn genetic diseases (ClinVar).

How common is DARS1 p.Arg151Cys (c.451C>T) in the general population?

DARS1 p.Arg151Cys (c.451C>T) is ultra-rare (popmax 0.0147%, afr) (gnomAD).

What do computational predictors say about DARS1 p.Arg151Cys (c.451C>T)?

AlphaMissense predicts ambiguous (score 0.5276) — an in-silico prediction, not a clinical call.

DARS1 p.Arg151Cys

c.451C>T · VCV4237619

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

AlphaMissense

ambiguous

0.5276 · ACMG-weighted

gnomAD v4.1

Rare

ultra-rare (popmax 0.0147%, afr)

Missense predictors

2/2 damaging

REVEL, SaProt · AlphaMissense no call

Conditions

Inborn genetic diseases

Computational evidence

Protein change
AlphaMissense	0.5276	ambiguous
REVEL	0.693	pathogenic-leaning
SaProt	LLR -13.09	damaging
⇒ REVEL and SaProt both call this damaging; AlphaMissense makes no call.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 12	GERP 1.9, phastCons 1
Regional constraint	o/e 1.02	unconstrained · MANE · 78 kb · p 0.69 · 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

Grpmax group 0.0147% African / African-American · 11/74,918 alleles

Filtering AF 0.00815% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.00633%

Overall 0.00143% 23/1,613,532 alleles · ultra-rare

Ancestry group	Frequency	1 in
African / African-Americangrpmax	0.0147%	6,811
South Asian	0.00549%	18,213
Remaining individualsnot grpmax-eligible	0.0016%	62,446
European (non-Finnish)	0.000509%	196,611

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: DARS1
Protein: p.Arg151Cys
Coding: c.451C>T
MANE Select: NM_001349
Type: single nucleotide variant
Location: chr2:135933963 (GRCh38)
Gene constraint: LOEUF 1.023 · pLI <0.01 (gnomAD)
Structure: AlphaFold pLDDT 93.69 · 3 PDB

Full DARS1 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

DARS1 p.Arg151His Uncertain significance ★ ⚠ same residue
DARS1 p.Arg197Cys Uncertain significance ★★ ⚠ same condition
DARS1 p.Arg498Gln Uncertain significance ★★ ⚠ same condition
DARS1 p.Arg63His Uncertain significance ★★ ⚠ same condition
DARS1 p.Asn233Ser Uncertain significance ★★ ⚠ same condition
DARS1 p.Glu357Lys Uncertain significance ★★ ⚠ same condition
DARS1 p.Gly170Arg Uncertain significance ★★ ⚠ same condition
DARS1 p.Gly359Glu 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/dars1-p-arg151cys (accessed [today's date]).

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