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Variant: NM_000138.5(FBN1):c.6163+2dup

CA304350

200167 (ClinVar)

Gene: FBN1
Condition: Marfan syndrome
Inheritance Mode: Autosomal dominant inheritance
UUID: 3401a70a-1ff0-42ee-a482-b9993196d6f9

HGVS expressions

NM_000138.5:c.6163+2dup
NM_000138.5(FBN1):c.6163+2dup
NC_000015.10:g.48441719dup
CM000677.2:g.48441719dup
NC_000015.9:g.48733916dup
CM000677.1:g.48733916dup
NC_000015.8:g.46521208dup
NG_008805.2:g.209070dup
ENST00000559133.6:c.6163+2dup
ENST00000674301.2:c.6163+2dup
ENST00000316623.10:c.6163+2dup
ENST00000674301.1:c.1162+2dup
ENST00000316623.9:c.6163+2dup
ENST00000537463.6:c.*1926+2dup
ENST00000559133.5:c.1470+2dup
ENST00000560820.1:n.283+2dup
NM_000138.4:c.6163+2dup

Uncertain Significance

Met criteria codes 1
PP3
Not Met criteria codes 8
PP2 PM5 PM2 BA1 BS1 BP4 BP1 PS1

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
FBN1 VCEP
The NM_00138 c.6163+2dup variant in FBN1 occurs in the intron near the invariant region (+1/2) of the consensus donor splice site; the c.6163+2T nucleotide is moderately conserved. In silico prediction programs (GeneSplicer, MaxEntScan, NNSplice) predict this variant to weaken/ destroy the canonical donor site of this intron, which is expected to disrupt mRNA splicing and result in absent or truncated protein product (PP3). However, this prediction has not been confirmed by RNA functional studies. This variant has been reported five times in ClinVar: once as pathogenic, four times as uncertain significance (Variation ID: 200167). This variant has been reported in individuals with thoracic aortic aneurysm and/or dissection who carried other cardiogenetic variants (GeneDx, Murdoch Childrens Research Institute ClinVar entry). It has also been reported in an individual without structural heart disease (PMID 28659821). This variant is present in 2/113448 (0.0018%) of alleles tested from the European non-Finnish population in gnomAD (https://gnomad.broadinstitute.org/ v2.1.1). Due to the conflicting evidence, this variant is classified as uncertain significance for Marfan syndrome based on the ACMG/AMP criteria applied, as specified by the ClinGen FBN1 VCEP: PP3.
Met criteria codes
PP3
Splice tools: MaxENT, NNSplice, GeneSplicer all predict weakening and/or loss of canonical donor site at c.6163
Not Met criteria codes
PP2
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PM5
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
PM2
V2.1.1- Identified in 2/113448 (0.0018%) of alleles tested from the European non-Finnish population V4.0.0- Identified in 41/1179576 (0.003%) of alleles tested from the European non-Finnish population
BA1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BS1
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP4
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP1
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
Approved on: 2024-02-22
Published on: 2024-02-22
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