The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • Gene obtained from curated document aligns with the Allele Registry but not with ClinVar data
  • No CSPEC computer assertion could be determined for this classification!


Variant: NM_000138.5(FBN1):c.6662G>A (p.Cys2221Tyr)

CA392333555

492830 (ClinVar)

Gene: FBN1
Condition: Marfan syndrome
Inheritance Mode: Autosomal dominant inheritance
UUID: e6eb1855-29b8-4f09-8d88-5c0a246224b0
Approved on: 2024-08-22
Published on: 2024-08-22

HGVS expressions

NM_000138.5:c.6662G>A
NM_000138.5(FBN1):c.6662G>A (p.Cys2221Tyr)
NC_000015.10:g.48432943C>T
CM000677.2:g.48432943C>T
NC_000015.9:g.48725140C>T
CM000677.1:g.48725140C>T
NC_000015.8:g.46512432C>T
NG_008805.2:g.217846G>A
ENST00000559133.6:c.6662G>A
ENST00000674301.2:c.*113G>A
ENST00000682170.1:n.271G>A
ENST00000316623.10:c.6662G>A
ENST00000674301.1:c.1766G>A
ENST00000316623.9:c.6662G>A
ENST00000537463.6:c.*2425G>A
ENST00000559133.5:c.1969G>A
NM_000138.4:c.6662G>A
More

Pathogenic

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

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.6662G>A is a missense variant in FBN1 predicted to cause a substitution of a cysteine by tyrosine at amino acid 2221 (p.Cys2221Tyr). This variant has been reported in three patients, including two with clinical diagnoses of Marfan syndrome and one with ectopia lentis without assessment for additional phenotypes (PP4, PS4_moderate; PMIDs: 26787436, 38190127; Invitae internal data). It is absent from gnomAD (PM2_supporting; https://gnomad.broadinstitute.org/, v2.1.1, 3.1.2, 4.0.0). 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 = 0.965). The constraint z-score for missense variants affecting FBN1 is 8.18 (PP2; gnomAD 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, PP2, PP3, PP4, PM2_supporting.
Met criteria codes
PM2_Supporting
absent from all versions of gnomAD
PP4
Franken et al. with clinical diagnosis of MFS
PP3
REVEL > 0.750
PP2
no benign evidence
PM1_Strong
cysteine in cbEGF34
PS4_Moderate
2 probands worth 2.0 PS4 points
Not Met criteria codes
BA1
PM2_supporting met
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
BP2
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
BP4
PP3 met
BP1
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
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
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
PP1
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
PM5
several LP/P variants, N/A because PM1_strong is applied
PM3
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PM4
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.