Is FUS p.Pro525Ser (c.1573C>T) pathogenic?

FUS p.Pro525Ser (c.1573C>T) is classified Likely pathogenic in FUS (ClinVar, Single submitter, 1 submitter; last evaluated 2023-11-30). AlphaMissense: likely pathogenic (0.9907); Absent from gnomAD v4.1; Associated with amyotrophic lateral sclerosis type 6.

What condition is associated with FUS p.Pro525Ser (c.1573C>T)?

FUS p.Pro525Ser (c.1573C>T) is associated with amyotrophic lateral sclerosis type 6 (ClinVar).

How common is FUS p.Pro525Ser (c.1573C>T) in the general population?

FUS p.Pro525Ser (c.1573C>T) is absent from gnomAD v4.1 (gnomAD).

What do computational predictors say about FUS p.Pro525Ser (c.1573C>T)?

AlphaMissense predicts likely pathogenic (score 0.9907) — an in-silico prediction, not a clinical call.

FUS p.Pro525Ser

Q: How is Frontotemporal dementia with motor neuron disease inherited?

Typically Autosomal dominant (Orphanet). A genetic counselor can assess individual risk for a family.

c.1573C>T · rs1555509699 · VCV2671949

Likely pathogenic Single submitter

Classification

Likely pathogenic

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

AlphaMissense

likely pathogenic

0.9907 · ACMG-weighted

gnomAD v4.1

Absent

absent from gnomAD v4.1

Missense predictors

2/2 damaging

AlphaMissense, SaProt · REVEL no call

Conditions

amyotrophic lateral sclerosis type 6

Computational evidence

Protein change
AlphaMissense	0.9907	likely pathogenic ✓ concordant with ClinVar
REVEL	0.473	indeterminate
SaProt	LLR -11.80	damaging
⇒ AlphaMissense and SaProt both call this damaging; REVEL makes no call.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 6	GERP 2, phastCons 1
Regional constraint	o/e 0.80	unconstrained · MANE · 644 bp · p 0.025 · regional, not allelic
Overall
CADD	25.1	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: FUS
Protein: p.Pro525Ser
Coding: c.1573C>T
MANE Select: NM_004960
dbSNP: rs1555509699
Type: single nucleotide variant
Location: chr16:31191430 (GRCh38)
Gene constraint: LOEUF 0.104 · pLI 1.00 (gnomAD)
Structure: AlphaFold pLDDT 54.96 · 23 PDB
Residue 525: the 'disordered' region; a UniProt-annotated variant site (in als6)

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

Disease context

amyotrophic lateral sclerosis type 6 — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Frontotemporal dementia with motor neuron disease (Orphanet):

Inheritance: Autosomal dominant
Onset: Adult

Similar variants

FUS p.Pro525Leu Pathogenic ★★ same residue
FUS p.Pro525Thr Pathogenic ★ same residue
FUS p.Pro525Ala Uncertain significance ★ ⚠ same residue
FUS p.Pro525= Likely benign ★ same residue
FUS p.Arg481Ter Pathogenic/Likely pathogenic ★★ same condition
FUS p.Arg495Ter Pathogenic ★★ same condition
FUS p.Arg514Gly Pathogenic ★★ ⚠ same condition
FUS p.Arg521Cys 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/fus-p-pro525ser (accessed [today's date]).

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