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G562=

SynonymousSilentLikely benignCytoplasmic · predicted
Synonymous variant · codon at position 562 · Lumenal loop 4 · WFS1 (Wolframin)

Silent — Silent — no amino-acid change

Interactive 3D Structure

Interactive structure
rotate · zoom · variant + 5 Å neighbors
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AlphaFold wild-type wolframin · the variant site near residue 562 (Lumenal loop 4) is highlighted.

Variant Assessment

Variant type
Synonymous
Schema
Silent
Silent — no amino-acid change
Domain
Lumenal loop 4
Status
—

Therapeutic Implication · Silent

No amino-acid change (G562 is unchanged): the codon is altered but the protein sequence is identical to wild-type. No structural, stability or AlphaMissense effect applies. Synonymous variants are typically benign unless they affect splicing or regulatory elements; this one is not adjacent to an exon boundary.

Clinical Evidence

ClinVar classificationLikely benign
Review statuscriteria provided, single submitter
Associated conditions—
Population frequency (gnomAD v4)Absent from gnomAD v4
cDNA changec.1686C>G
Protein consequenceG562=
ClinVar variantNM_006005.3(WFS1):c.1686C>G (p.Gly562=)
ClinVar accessionVCV003004613
Last evaluated2023/11/15 00:00

Not observed in ~730k individuals — consistent with a rare allele (ACMG PM2_supporting).

Therapeutic Strategy Handoff · prediction

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Full Variant Card

G562= — WFS1 Molecular Atlas Card

Variant type: Synonymous (silent) Codon: position 562 (Glycine, G) — amino acid unchanged Domain context: Lumenal loop 4

Schema category: Silent — Silent — no amino-acid change

No amino-acid change (G562 is unchanged): the codon is altered but the protein sequence is identical to wild-type. No structural, stability or AlphaMissense effect applies. Synonymous variants are typically benign unless they affect splicing or regulatory elements; this one is not adjacent to an exon boundary.

Clinical evidence

  • Classification: Likely benign
  • Review status: criteria provided, single submitter
  • cDNA change: c.1686C>G
  • ClinVar accession: VCV003004613
  • Last evaluated: 2023/11/15 00:00
  • Submissions: 1

Card generated by wolfram-atlas-batch (synonymous pipeline) on 2026-06-08T02:54:40.125866Z. WFS1: UniProt O76024, AlphaFold v6. Synonymous variants carry no protein-structural effect.