The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]


Variant: NM_000138.5(FBN1):c.3707G>A (p.Cys1236Tyr)

CA392324303

495599 (ClinVar)

Gene: FBN1
Condition: Marfan syndrome
Inheritance Mode: Autosomal dominant inheritance
UUID: 5ec31f85-0600-444a-80bc-517d8d4448fa
Approved on: 2023-12-29
Published on: 2023-12-29

HGVS expressions

NM_000138.5:c.3707G>A
NM_000138.5(FBN1):c.3707G>A (p.Cys1236Tyr)
NC_000015.10:g.48485379C>T
CM000677.2:g.48485379C>T
NC_000015.9:g.48777576C>T
CM000677.1:g.48777576C>T
NC_000015.8:g.46564868C>T
NG_008805.2:g.165410G>A
ENST00000684448.1:n.2381G>A
ENST00000316623.10:c.3707G>A
ENST00000316623.9:c.3707G>A
ENST00000537463.6:c.637-10729G>A
NM_000138.4:c.3707G>A
More

Pathogenic

Met criteria codes 6
PP4 PP3 PP2 PS4_Moderate PM2_Supporting PM1_Strong
Not Met criteria codes 20
PM5 PM4 PM3 PM6 PS2 PS3 PS1 BA1 PP1 PVS1 BS2 BS4 BS3 BS1 BP5 BP7 BP3 BP2 BP4 BP1

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen FBN1 Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines Version 1

PDF
Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
FBN1 VCEP
NM_000138.5 c.3707G>A is a missense variant in FBN1 predicted to cause a substitution of a cysteine by tyrosine at amino acid 1236 (p.Cys1236Tyr). This variant has been identified in at least three individuals including two probands with clinical diagnoses of Marfan syndrome, with neonatal onset in one case, and one proband with a highly specific Marfan syndrome phenotype including thoracic aortic aneurysm and dissection (TAAD), ectopia lentis, and systemic features of Marfan syndrome (PS4_moderate, PP4; UZG, Mayo, & Bichat internal data). It is not present in gnomAD (PM2_supporting; https://gnomad.broadinstitute.org/ v2.1.1 & v3.1.2). This variant affects a cysteine residue in a calcium-binding EGF-like domain; cysteine residues are involved in the formation of disulfide bridges which are essential for the protein structure (PM1_strong). Computational prediction tools and conservation analysis support that this variant is likely to impact the protein (PP3; REVEL = 0.960). 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: PM1_strong, PS4_moderate, PP2, PP3, PP4, PM2_supporting.
Met criteria codes
PP4
Internal proband (Bichat) meeting revised Ghent criteria
PP3
REVEL = 0.960; > 0.750
PP2
no benign criteria
PS4_Moderate
2 probands worth 2.0 PS4 points
PM2_Supporting
absent from gnomAD
PM1_Strong
Cysteine-removing variant in cbEGF15
Not Met criteria codes
PM5
p.Cys1236Arg is LP/P; N/A because PM1_strong is applied
PM4
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PM3
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PM6
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PS2
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PS3
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PS1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BA1
PM2_supporting met
PP1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PVS1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BS2
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BS4
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BS3
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BS1
PM2_supporting met
BP5
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP7
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP3
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP2
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP4
PP3 met
BP1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
Curation History
The information on this website is not intended for direct diagnostic use or medical decision-making without review by a genetics professional. Individuals should not change their health behavior solely on the basis of information contained on this website. If you have questions about the information contained on this website, please see a health care professional.
¤ Powered by BCM's Genboree.