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 label mismatch: GP9 vs undefined
  • No ClinVar Id was directly found from the curated document
  • No CSPEC computed assertion could be determined for this classification!


Variant: NM_000174.5:c.450G>A

CA354449503

Gene: GP9 (HGNC:2815)
Condition: Bernard-Soulier syndrome (MONDO:0009276)
Inheritance Mode: Autosomal recessive inheritance
UUID: ddc8ff76-d1db-4952-b953-60d6fc9594ae
Approved on: 2025-05-01
Published on: 2025-05-02

HGVS expressions

NM_000174.5:c.450G>A
NC_000003.12:g.129062189G>A
CM000665.2:g.129062189G>A
NC_000003.11:g.128781032G>A
CM000665.1:g.128781032G>A
NC_000003.10:g.130263722G>A
NG_008715.1:g.6388G>A
ENST00000307395.5:c.450G>A
ENST00000307395.4:c.450G>A
NM_000174.4:c.450G>A
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Likely Pathogenic

Met criteria codes 5
PM3_Supporting PVS1_Strong PP1 PP4 PM2_Supporting

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen Platelet Disorders Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for GP9 Version 1.0.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Platelet Disorders VCEP
The c.450G>A (p.Trp150Ter) variant in GP9 is a nonsense variant that may cause loss of function of the protein, however it is predicted to escape nonsense mediated decay and remove 15% of the protein (PVS1_Strong). This variant is absent from gnomAD v4.1 (PM2_Supporting). At least one patient (Case in PMID: 20497174) with this variant had aggregation absent for ristocetin and present for all other agonists, which is highly specific for Bernard-Soulier syndrome (PP4). Surface expression of GP1BA and GP9 were absent. Additionally, the patient had excessive mucocutaneous bleeding and macrothrombocytopenia which is consistent with Bernard-Soulier syndrome. This individual was homozygous for the variant (PM3_supporting, PMID:20497174). In PMID: 20497174, all 12 older siblings of the proband (III:1) died of bleeding but were not genotyped, there are several known heterozygous family members: the mother (II:3) and older cousin (III:2) had decreased expression of GP9 and GPP1BA (PP1). In summary, this variant meets the criteria to be classified as Likely Pathogenic for autosomal recessive Bernard-Soulier syndrome based on the ACMG/AMP criteria applied, as specified by the ClinGen PD VCEP: PVS1_strong, PM2_supporting, PP4, PP1, PM3_supporting.
Met criteria codes
PM3_Supporting
This variant has been detected in at least 1 proband with Bernard-Soulier syndrome. This individual was homozygous for the variant (0.5 PM3 points, PMID:20497174). Total points: 0.5 (PM3_supporting).
PVS1_Strong
The c.450G>A (p.Trp150Ter) variant in GP9 is a nonsense variant that may cause loss of function of the protein, however it is predicted to escape nonsense mediated decay and remove 15% of the protein (PVS1_Strong).
PP1
In PMID: 20497174, all 12 older siblings of the proband (III:1) died of bleeding but were not genotyped, there are several known heterozygous family members: the mother (II:3) and older cousin (III:2) had decreased expression of GP9 and GP1BA (0.5+0.5=1pt; PP1)
PP4
At least one patient (Case in PMID: 20497174) with this variant had aggregation absent for ristocetin and present for all other agonists, which is highly specific for Bernard-Soulier syndrome (PP4). Surface expression of GP1BA and GP9 were absent. Additionally, the patient had excessive mucocutaneous bleeding and macrothrombocytopenia which is consistent with Bernard-Soulier syndrome.
PM2_Supporting
This variant is absent from gnomAD v4.1 (PM2_Supporting).
Curation History
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