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.1630G>A (p.Gly544Arg)

CA392341228

495558 (ClinVar)

Gene: FBN1
Condition: Marfan syndrome
Inheritance Mode: Autosomal dominant inheritance
UUID: ffae4be0-4bf4-4afb-9791-d353f6a6b96e
Approved on: 2024-05-23
Published on: 2024-10-31

HGVS expressions

NM_000138.5:c.1630G>A
NM_000138.5(FBN1):c.1630G>A (p.Gly544Arg)
NC_000015.10:g.48510128C>T
CM000677.2:g.48510128C>T
NC_000015.9:g.48802325C>T
CM000677.1:g.48802325C>T
NC_000015.8:g.46589617C>T
NG_008805.2:g.140661G>A
ENST00000559133.6:c.1630G>A
ENST00000674301.2:c.1630G>A
ENST00000684448.1:n.304G>A
ENST00000316623.10:c.1630G>A
ENST00000316623.9:c.1630G>A
ENST00000537463.6:c.636+27583G>A
NM_000138.4:c.1630G>A
More

Pathogenic

Met criteria codes 6
PP3 PP2 PS1 PM1 PM5 PM2_Supporting
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.1630G>A is a missense variant in FBN1 predicted to cause a substitution of a glycine by arginine at amino acid 544 (p.Gly544Arg). This variant impacts a critical glycine between Cys2 and Cys3 within a calcium binding EGF-like domain, important for interdomain packaging (PM1, PMID 31227806). This variant has been reported twice in ClinVar: once as pathogenic, and once as uncertain significance (Variation ID: 495558). This variant has been previously reported in at least 1 individual with clinical features of Marfan syndrome (MFS) (Invitae lab data). This variant is not present in gnomAD (PM2_sup; https://gnomad.broadinstitute.org/ v2.1.1). A different nucleotide change resulting in the same amino acid substitution, missense variant at this position, c.1630G>C p.Gly544Arg, has previously been previously established as pathogenic, and was found to segregate with MFS with or without thoracic aortic aneurysm in eight affected individuals from one family (PS1; PMID 30087447, internal lab data). A different missense variant at this position, c.1630G>C p.Gly544Arg, has been found in an individual with a clinical diagnosis of MFS, and has been established as likely pathogenic (PM5; internal lab data). Computational prediction tools and conservation analysis suggest that this variant may impact the protein (REVEL: 0.918). The constraint z-score for missense variants affecting FBN1 is 5.06 (PP2). 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: PS1, PM1, PM5, PM2_Sup, PP2, PP3.
Met criteria codes
PP3
REVEL score: 0.918
PP2
Missense variant
PS1
FBN1 c.1630G>C p.Gly544Arg Absent in gnomAD, REVEL: 0.918, No impact on splicing, segregates in large family with Marfan syndrome Pathogenic: PP1_Strong, PM1, PM2_Sup, PP2, PP3 ,PP4
PM1
critical Gly between Cys2-Cys3 in cbEGF-like domain
PM5
FBN1 c.1631G>A p.Gly544Glu- at least likely path Bichat- 1 proband with ectopia lentis and thoracic aortic aneurysm (PP4), absent in gnomAD, REVEL: 0.841 Likely Path: PM1, PM2_Sup, PP3, PP2, PP4
PM2_Supporting
Absent in gnomAD
Not Met criteria codes
PS4
Invitae ClinVar-1 with clinical features of MFS
Curation History
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