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L459=

SynonymousSilentLikely benignTransmembrane · predicted
Synonymous variant · codon at position 459 · Cytoplasmic loop 3 · 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 459 (Cytoplasmic loop 3) is highlighted.

Variant Assessment

Variant type
Synonymous
Schema
Silent
Silent — no amino-acid change
Domain
Cytoplasmic loop 3
Status
—

Therapeutic Implication · Silent

No amino-acid change (L459 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.1377G>C
Protein consequenceL459=
ClinVar variantNM_006005.3(WFS1):c.1377G>C (p.Leu459=)
ClinVar accessionVCV002094001
Last evaluated2022/02/11 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

L459= — WFS1 Molecular Atlas Card

Variant type: Synonymous (silent) Codon: position 459 (Leucine, L) — amino acid unchanged Domain context: Cytoplasmic loop 3

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

No amino-acid change (L459 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.1377G>C
  • ClinVar accession: VCV002094001
  • Last evaluated: 2022/02/11 00:00
  • Submissions: 1

Card generated by wolfram-atlas-batch (synonymous pipeline) on 2026-06-08T02:53:30.304586Z. WFS1: UniProt O76024, AlphaFold v6. Synonymous variants carry no protein-structural effect.