ClinVar Miner

Submissions for variant NM_000419.5(ITGA2B):c.3060G>A (p.Lys1020=)

dbSNP: rs757268030
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Total submissions: 1
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
ClinGen Platelet Disorders Variant Curation Expert Panel, ClinGen RCV002254806 SCV002525895 pathogenic Glanzmann thrombasthenia 2022-05-17 reviewed by expert panel curation The NM_000419.5(ITGA2B):c.3060G>A (p.Lys1020=) synonymous variant disrupts the donor splice site of intron 29/30 of ITGA2B (SpliceAI 0.76; PP3) as confirmed by analysis of patient cDNA, which showed a deletion of exon 29 (PM4; PMID: 21113249). The variant has been reported homozygous in siblings TA and TG, who displayed mucocutaneous bleeding and impaired aggregation with all agonists except ristocetin, which is highly specific for Glanzmann thrombasthenia. Additionally, alphaIIbbeta3 surface expression was reduced to <1%, as measured by flow cytometry, and there was <1% binding to PAC-1. ITGA2B and ITGB3 were sequenced across all exons and intron/exon boundaries (PP4_strong, PP1, PM3_supporting; PMID: 21113249). This variant is absent from gnomAD v2.1.1 (PM2_Supporting). In summary, this variant meets the criteria to be classified as Likely Pathogenic for autosomal recessive Glanzmann Thrombasthenia based on the ACMG/AMP criteria applied, as specified by the ClinGen PD VCEP: PP4_strong, PM4, PM3_supporting, PM2_supporitng, PP3. (VCEP specifications version 2; date of approval 05/17/2022).

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