Is MFSD8 p.Val475= (c.1425G>A) pathogenic?

MFSD8 p.Val475= (c.1425G>A) is classified Likely benign in MFSD8 (ClinVar, Single submitter, 1 submitter; last evaluated 2024-01-19). Absent from gnomAD v4.1; Associated with neuronal ceroid lipofuscinosis 7.

What condition is associated with MFSD8 p.Val475= (c.1425G>A)?

MFSD8 p.Val475= (c.1425G>A) is associated with neuronal ceroid lipofuscinosis 7 (ClinVar).

How common is MFSD8 p.Val475= (c.1425G>A) in the general population?

MFSD8 p.Val475= (c.1425G>A) is absent from gnomAD v4.1 (gnomAD).

MFSD8 p.Val475=

c.1425G>A · rs1736226991 · VCV1645555

Likely benign Single submitter

Classification

Likely benign

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

gnomAD v4.1

Absent

absent from gnomAD v4.1

Conditions

neuronal ceroid lipofuscinosis 7

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP -1.3	GERP 0.18
Overall
CADD	7.294	PHRED · no single calibrated threshold — expert panels disagree

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: MFSD8
Protein: p.Val475=
Coding: c.1425G>A
MANE Select: NM_001371596
dbSNP: rs1736226991
Type: single nucleotide variant
Location: chr4:127920762 (GRCh38)
Gene constraint: LOEUF 1.005 · pLI <0.01 (gnomAD)
Structure: AlphaFold pLDDT 83.20

Full MFSD8 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

neuronal ceroid lipofuscinosis 7 — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For CLN7 disease (Orphanet):

Onset: Infancy

Similar variants

MFSD8 p.Val475Leu Conflicting classifications of pathogenicity ★ ⚠ same residue
MFSD8 p.Val475Met Uncertain significance ★ ⚠ same residue
MFSD8 c.1102+1G>A Likely pathogenic ★★ same condition
MFSD8 c.1102+2T>C Pathogenic/Likely pathogenic ★★ same condition
MFSD8 c.1350+2T>C Pathogenic/Likely pathogenic ★★ same condition
MFSD8 c.154+1G>A Likely pathogenic ★★ same condition
MFSD8 c.198+2T>C Pathogenic/Likely pathogenic ★★ same condition
MFSD8 c.439+2T>A 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/mfsd8-p-val475 (accessed [today's date]).

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