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Variant: NM_004333.4(BRAF):c.1595G>A (p.Cys532Tyr)

CA175337

40380 (ClinVar)

Gene: BRAF
Condition: RASopathy
Inheritance Mode: Autosomal dominant inheritance
UUID: d9ad9287-b52a-479a-8ff9-9ba17dc649ae

HGVS expressions

NM_004333.4:c.1595G>A
NM_004333.4(BRAF):c.1595G>A (p.Cys532Tyr)
NC_000007.14:g.140777011C>T
CM000669.2:g.140777011C>T
NC_000007.13:g.140476811C>T
CM000669.1:g.140476811C>T
NC_000007.12:g.140123280C>T
NG_007873.3:g.152754G>A
NM_001354609.1:c.1595G>A
NM_004333.5:c.1595G>A
NR_148928.1:n.1900G>A
NM_001354609.2:c.1595G>A
NM_001374244.1:c.1715G>A
NM_001374258.1:c.1715G>A
NM_004333.6:c.1595G>A
ENST00000288602.10:c.1595G>A
ENST00000496384.6:n.418G>A
ENST00000497784.1:n.1630G>A

Likely Pathogenic

Met criteria codes 5
PP3 PP2 PM6 PM2 PS4_Moderate

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
RASopathy VCEP
The c.1595G>A (p.Cys532Tyr) variant in BRAF has been observed in three probands with RASopathies (PS4_Moderate; Laboratory for Molecular Medicine, Hopital Universitaire Robert Debre internal data, ClinVar SCV000197143.4) It has also been seen as an unconfirmed de novo occurrence in a patient with clinical features of a RASopathy (PM6; EGL internal data, ClinVar SCV000112809.8). This variant was absent from large population studies (PM2; gnomad.broadinstitute.org). The variant is located in the BRAF gene, which has been defined by the ClinGen RASopathy Expert Panel as a gene with a low rate of benign missense variants and pathogenic missense variants are common (PP2; PMID: 29493581). Computational prediction tools and conservation analysis suggest that the p.Cys532Tyr variant may impact the protein (PP3). In summary, this variant meets criteria to be classified as likely pathogenic for RASopathies in an autosomal dominant manner. Rasopathy-specific ACMG/AMP criteria applied (PMID:29493581): PS4_Moderate, PM2, PM6, PP2, PP3.
Met criteria codes
PP3
Computational prediction tools and conservation analysis suggest that the p.Cys532Tyr variant may impact the protein (PP3).
PP2
This variant is located in BRAF, which has been defined by the ClinGen RASopathy Expert Panel as a gene with a low rate of benign missense variants and pathogenic missense variants are common (PP2; PMID: 29493581).
PM6
The c.1595G>A (p.Cys532Tyr) variant in BRAF has been reported as an unconfirmed de novo occurrence in a patient with clinical features of a RASopathy (PM6; EGL internal data, ClinVar SCV000112809.8).
PM2
Absent from both versions of gnomAD.
PS4_Moderate
The c.1595G>A (p.Cys532Tyr) variant in BRAF has been observed in three probands with RASopathies (PS4_Moderate; Laboratory for Molecular Medicine, Hopital Universitaire Robert Debre internal data, ClinVar SCV000197143.4)
Approved on: 2020-05-18
Published on: 2020-07-01
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