The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
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CA1244262

Gene: MYOC
Condition: primary open angle glaucoma
Inheritance Mode: Autosomal dominant inheritance
UUID: 78ac7986-ec93-4219-b5ad-3b2f43fde867

HGVS expressions

NM_000261.2:c.526del
NC_000001.11:g.171652087del
CM000663.2:g.171652087del
NC_000001.10:g.171621227del
CM000663.1:g.171621227del
NC_000001.9:g.169887850del
NG_008859.1:g.5548del
ENST00000037502.11:c.526del
ENST00000638471.1:c.130+396del
ENST00000037502.10:c.526del
ENST00000614688.1:c.526del
NM_000261.1:c.526del

Uncertain Significance

Met criteria codes 1
PM2_Supporting
Not Met criteria codes 14
PM6 PM5 PM4 BS3 BS1 BP7 BP4 PS2 PS1 PS3 PS4 BA1 PP1 PP3

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Glaucoma VCEP
The c.526del variant in MYOC is a deletion of a single nucleotide, predicted to encode a frameshift with consequent premature termination of the protein at codon 2 of the frameshift, or amino acid 178 (p.Glu176ArgfsTer2). Truncation of this protein occurs outside of the conserved olfactomedin domain, which did not meet PM4. The highest minor allele frequency of this variant was in the European (non-Finnish) population of gnomAD (v2.1.1) = 0.00002638 (3 alleles out of 113,730), which met the ≤ 0.0001 threshold set for PM2_Supporting in a population of at least 10,000 alleles. There was no computational or functional evidence predicting a damaging or benign impact of this variant on MYOC function. Only 1 proband with primary open angle glaucoma had been reported (Souzeau et al, pers. comm.), not meeting the ≥ 2 probands threshold required to meet PS4_Supporting. In summary, this variant met the criteria to receive a score of 1 and to be classified as a variant of uncertain significance (uncertain significance classification range -1 to 5) for primary open angle glaucoma based on the ACMG/AMP criteria met, as specified by the ClinGen Glaucoma VCEP (v1, 12 Oct 2021): PM2_Supporting
Met criteria codes
PM2_Supporting
The highest minor allele frequency of this variant was in the European (non-Finnish) population of gnomAD (v2.1.1) = 0.00002638 (3 alleles out of 113,730), which met the ≤ 0.0001 threshold set for PM2_Supporting in a population of at least 10,000 alleles.
Not Met criteria codes
PM6
This variant has not been identified de novo.
PM5
This is not a missense variant.
PM4
Truncation of this protein occurs outside of the conserved olfactomedin domain, which did not meet PM4.
BS3
No functional evidence has been found for this variant.
BS1
This criterion was not met as PM2_Supporting has been met.
BP7
This is not a synonymous or non-coding variant.
BP4
This is not a missense, synonymous or non-coding variant.
PS2
This variant has not been identified de novo.
PS1
This variant does not involve an amino acid change.
PS3
No functional evidence has been found for this variant.
PS4
Only 1 proband with POAG had been reported (Souzeau et al, pers. comm.), not meeting the ≥ 2 probands threshold required to meet PS4_Supporting.
BA1
This criterion was not met as PM2_Supporting has been met.
PP1
No segregations have been reported for this variant.
PP3
This is not a missense variant.
Approved on: 2022-08-28
Published on: 2022-08-28
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