The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
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Variant: NM_000138.5(FBN1):c.7775G>T (p.Cys2592Phe)

CA16619939

423498 (ClinVar)

Gene: FBN1
Condition: Marfan syndrome
Inheritance Mode: Autosomal dominant inheritance
UUID: ce4dbad8-1bb8-4127-83c0-e1d61fd66e08
Approved on: 2024-08-22
Published on: 2024-08-22

HGVS expressions

NM_000138.5:c.7775G>T
NM_000138.5(FBN1):c.7775G>T (p.Cys2592Phe)
NC_000015.10:g.48420731C>A
CM000677.2:g.48420731C>A
NC_000015.9:g.48712928C>A
CM000677.1:g.48712928C>A
NC_000015.8:g.46500220C>A
NG_008805.2:g.230058G>T
ENST00000559133.6:c.*583G>T
ENST00000674301.2:c.*1288G>T
ENST00000682170.1:n.1956G>T
ENST00000682767.1:n.1072G>T
ENST00000316623.10:c.7775G>T
ENST00000674301.1:c.2941G>T
ENST00000316623.9:c.7775G>T
ENST00000559133.5:c.3144G>T
NM_000138.4:c.7775G>T
More

Pathogenic

Met criteria codes 6
PM1_Strong PS4_Moderate PM2_Supporting PP3 PP2 PM6_Supporting
Not Met criteria codes 2
PP1 PM5

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
FBN1 VCEP
The NM_00138 c.7775G>T, is a missense variant in FBN1 predicted to cause a substitution of a cysteine by phenylalanine at amino acid 2592 (p.Cys2592Phe). This variant has been reported three times in ClinVar: once as pathogenic, once as likely pathogenic, and once as uncertain significance (Variation ID: 423498). This variant is not present in gnomAD (PM2_sup; https://gnomad.broadinstitute.org/ v2.1.1). This variant has been identified in an individual with ectopia lentis and a systemic score >7 and was reported to be de novo without confirmation of parental relationships (internal lab data, PM6_Sup). At least two additional individuals with clinical features of Marfan syndrome carry this variant (internal lab data, Invitae ClinVar, PS4_Mod). In one individual with thoracic aortic aneurysm and skeletal features, the variant was found to segregate in an affected sister (Internal lab data). This variant affects a cysteine residue in a calcium binding EGF-like domain. Cysteine residues in these domains are believed to be involved in the formation of disulfide bridges which are essential for the protein structure (PM1_strong). Computational prediction tools and conservation analysis suggest that this variant may impact the protein (REVEL: 0.839, PP3). The constraint z-score for missense variants affecting FBN1 is 8.18 (PP2; https://gnomad.broadinstitute.org/ v4.0.0). In summary, this variant meets criteria to be classified as pathogenic for Marfan syndrome based on the ACMG/AMP criteria applied, as specified by the ClinGen FBN1 VCEP: PM1_Strong, PS4_Moderate, PM2_Sup, PM6_Sup, PP2, PP3.
Met criteria codes
PM1_Strong
Cys-disrupting variant in cbEGF-like domain
PS4_Moderate
2 points
PM2_Supporting
Absent in gnomAD
PP3
REVEL score: 0.839
PP2
Missense variant
PM6_Supporting
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
Not Met criteria codes
PP1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PM5
N/A- PM1_Strong met Other variants at this residue resported in patients with MFS/ MFS-related features: p.Cys2592Ser- PMID 16222657, 31227806 Absent in GnomAD p.Cys2592Tyr- P/LP by multiple labs Absent in gnomAD
Curation History
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