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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  • No Criteria Specification was provided in the publication event for the variant classifaction.
  • The Criteria Specification shown below is a best-estimate based on the VCEP, gene, disease, and publication date.

Variant: NM_000138.5(FBN1):c.2660G>A (p.Cys887Tyr)

CA392332017

915814 (ClinVar)

Gene: FBN1 (HGNC:2200)
Condition: Marfan syndrome (MONDO:0007947)
Inheritance Mode: Autosomal dominant inheritance
UUID: a3ae3431-d3c3-44cf-b1ea-6d1787d7e255
Approved on: 2023-12-29
Published on: 2023-12-29

HGVS expressions

NM_000138.5:c.2660G>A
NM_000138.5(FBN1):c.2660G>A (p.Cys887Tyr)
NC_000015.10:g.48495140C>T
CM000677.2:g.48495140C>T
NC_000015.9:g.48787337C>T
CM000677.1:g.48787337C>T
NC_000015.8:g.46574629C>T
NG_008805.2:g.155649G>A
ENST00000684448.1:n.1334G>A
ENST00000316623.10:c.2660G>A
ENST00000316623.9:c.2660G>A
ENST00000537463.6:c.637-20490G>A
NM_000138.4:c.2660G>A
More

Likely Pathogenic

Met criteria codes 6
PM5 PM1 PM2_Supporting PP4 PP3 PP2
Not Met criteria codes 1
PS4

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
FBN1 VCEP
The NM_00138 c.2660G>A, is a missense variant in FBN1 predicted to cause a substitution of a cysteine by tyrosine at amino acid 887 (p.Cys887Tyr). This variant was found in a proband with a clinical diagnosis of Marfan syndrome (PMID 23684891) (PP4). This variant has been reported three times in ClinVar: twice as pathogenic and once as uncertain significance (Variation ID: 915814). This variant has been reported in the literature in an individual with a suspected diagnosis of Marfan syndrome (PMID 29907982). This variant is not present in gnomAD (PM2_sup; https://gnomad.broadinstitute.org/ v2.1.1). Other missense variants affecting the same residue, including p.Cys887Tyr and p.Cys887Arg have been previously reported in individuals with clinical features of Marfan syndrome (PMID 27906200, 34281902, internal data; PM5). This variant affects a cysteine residue in a hybrid domain. Cysteine residues are believed to be involved in the formation of disulfide bridges which are essential for the protein structure (PM1). Computational prediction tools and conservation analysis suggest that this variant may impact the protein (REVEL: 0.926, PP3). The constraint z-score for missense variants affecting FBN1 is 5.06 (PP2). In summary, this variant meets criteria to be classified as likely pathogenic for Marfan syndrome based on the ACMG/AMP criteria applied, as specified by the ClinGen FBN1 VCEP: PM1, PM5, PM2_Sup, PP2, PP3, PP4.
Met criteria codes
PM5
p.Cys887Ser- Internal data- identified in two families with variable features of Marfan syndrome. Found to segregate with disease in multiple affected relatives. PMID 27906200- (UMD database)- Identified in a proband with features of MFS Invitae ClinVar entry- at least 1 individual with features of MFS Absent in gnomAD, REVEL Score: 0.903
PM1
Removes a Cys residue in a hybrid domain
PM2_Supporting
Absent in gnomAD v2.1.1
PP4
PMID: 23684891- Proband with clinical diagnosis of MFS
PP3
REVEL score: 0.926 (0.75 Threshold)
PP2
z-score is 5.06
Not Met criteria codes
PS4
0.5 points
Curation History
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