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
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Variant: NM_000552.5(VWF):c.1728G>T (p.Met576Ile)

CA228284

100188 (ClinVar)

Gene: VWF
Condition: hereditary von Willebrand disease
Inheritance Mode: Undetermined mode of inheritance
UUID: c701fa88-56a8-42e0-b654-c408c8fe4e24
Approved on: 2024-07-09
Published on: 2024-08-12

HGVS expressions

NM_000552.5:c.1728G>T
NM_000552.5(VWF):c.1728G>T (p.Met576Ile)
NC_000012.12:g.6057850C>A
CM000674.2:g.6057850C>A
NC_000012.11:g.6167016C>A
CM000674.1:g.6167016C>A
NC_000012.10:g.6037277C>A
NG_009072.1:g.71821G>T
NG_009072.2:g.71821G>T
ENST00000261405.10:c.1728G>T
ENST00000261405.9:c.1728G>T
ENST00000538635.5:n.420+52665G>T
NM_000552.3:c.1728G>T
NM_000552.4:c.1728G>T
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Likely Benign

Met criteria codes 2
BS1 BP4
Not Met criteria codes 2
PS4 PP4

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen von Willebrand Disease Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for VWF Version 1.0.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
von Willebrand Disease VCEP
NM_000552.5:c.1728G>T is a missense variant in VWF that replaces methionine with isoleucine at position 576. The The Grpmax filtering allele frequency in gnomAD v4.1 is 0.02820 (based on 1745/59454 alleles in the Admixed American population, with 41 homozygotes), which is higher than the ClinGen VWD VCEP threshold of >0.01 (BS1). This variant has been reported in the heterozygous state in at least 6 patients with a diagnosed blood disorder, with several exhibiting mild or moderate reduction of VWF:Ag (PMID: 17190853, PMID: 25780857, PMID: 33556167). However, diagnoses are not consistent and the variant is ineligible for consideration for PS4 due to its high frequency in the control population. The computational predictor REVEL gives a score of 0.038, which is below the ClinGen VWD VCEP threshold of <0.290 and does not predict a damaging effect on VWF function (BP4). Additionally, the computational splicing predictor SpliceAI indicated that the variant has no impact on splicing. In summary, this variant meets the criteria to be classified as a variant of unknown significance for hereditary von Willebrand disease based on the ACMG/AMP criteria applied, as specified by the ClinGen VWD VCEP: BS1, BP4.
Met criteria codes
BS1
The Grpmax filtering allele frequency in gnomAD v4.1 is 0.02820 (based on 1745/59454 alleles in the Admixed American population, with 41 homozygotes), which is higher than the ClinGen VWD VCEP threshold of >0.01 (BS1).
BP4
The computational predictor REVEL gives a score of 0.038, which is below the ClinGen VWD VCEP threshold of <0.290 and does not predict a damaging effect on VWF function (BP4). Additionally, the computational splicing predictor SpliceAI gives a score of 0.08 for splice donor loss, indicating that the variant likely has no impact on splicing.
Not Met criteria codes
PS4
At least 6 patients with this variant in the heterozygous state have been reported with a diagnosed blood disorder, with several exhibiting mild or moderate reduction of VWF:Ag (PMID: 17190853, PMID: 25780857, PMID: 33556167). However, diagnoses are not consistent and the variant is ineligible for consideration for PS4 due to its high frequency in the control population.
PP4
At least 6 patients with this variant in the heterozygous state have been reported with a diagnosed blood disorder, with several exhibiting mild or moderate reduction of VWF:Ag. However, diagnoses are not consistent and additional laboratory phenotypes have not been reported (PMID: 17190853, PMID: 25780857, PMID: 33556167).
Curation History
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