The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • No ClinVar Id was directly found from the curated document
  • There was no gene found in the curated document received from the VCI/VCEP
  • Gene listed was thus derived from ClinVar and/or CAR

  • See Evidence submitted by expert panel for details.

CA1244034

Gene: MYOC
Condition: juvenile open angle glaucoma
Inheritance Mode: Autosomal dominant inheritance
UUID: d870197a-68d5-44a4-8bcc-483cafd0a102

HGVS expressions

NM_000261.2:c.1356del
NC_000001.11:g.171636084del
CM000663.2:g.171636084del
NC_000001.10:g.171605224del
CM000663.1:g.171605224del
NC_000001.9:g.169871847del
NG_008859.1:g.21551del
ENST00000037502.11:c.1357del
ENST00000637303.1:c.235-2546del
ENST00000638471.1:c.*695del
ENST00000037502.10:c.1357del
ENST00000614688.1:c.*321del
NM_000261.1:c.1357del
NM_000261.2:c.1357del

Uncertain Significance

Met criteria codes 1
PM4_Supporting
Not Met criteria codes 14
BA1 BP7 BP4 BS3 BS1 PP3 PP1 PS2 PS1 PS3 PS4 PM5 PM6 PM2

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Glaucoma VCEP
The c.1357delT variant in MYOC is a deletion of a single nucleotide, predicted to encode a frameshift with consequent premature termination of the protein at codon 11 of the frameshift, or amino acid 464 (p.Tyr453MetfsTer11). This variant is predicted to cause a deletion of < 10% of the protein within the conserved olfactomedin domain, meeting PM4_Supporting. The highest minor allele frequency of this variant was in the African/African American population of gnomAD (v2.1.1) = 0.0008013 (20 alleles out of 24,960), which did not meet the PM2_Supporting allele frequency threshold (≤ 0.0001) or the BS1 allele frequency threshold (≥ 0.001). There was no computational or functional evidence predicting a damaging or benign impact of this variant on MYOC function. Only 2 segregations had been reported for primary open angle glaucoma (PMID: 25330346), not meeting the ≥ 3 segregations required for PP1. Although probands with juvenile or primary open angle glaucoma have been reported carrying this variant, PM2_Supporting was not met, therefore PS4 did not apply. 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 juvenile open angle glaucoma based on the ACMG/AMP criteria met, as specified by the ClinGen Glaucoma VCEP (v1, 12 Oct 2021): PM4_Supporting
Met criteria codes
PM4_Supporting
This truncating variant is predicted to involve ≤ 10% of the protein and is within the conserved olfactomedin domain.
Not Met criteria codes
BA1
This variant did not meet the ≥ 0.01 minor allele frequency threshold in gnomAD (v2.1.1).
BP7
This is not a synonymous or non-coding variant.
BP4
This is not a missense, synonymous or non-coding variant.
BS3
No functional evidence has been found for this variant.
BS1
The highest minor allele frequency of this variant was in the African/African American population of gnomAD (v2.1.1) = 0.0008013 (20 alleles out of 24,960), which did not meet the ≥ 0.001 threshold set for BS1.
PP3
This is not a missense variant.
PP1
Only 2 segregations had been reported for primary open angle glaucoma (PMID: 25330346), not meeting the ≥ 3 segregations required for PP1.
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
Although probands with JOAG or POAG have been reported carrying this variant, PM2_Supporting was not met, therefore PS4 did not apply.
PM5
This is not a missense variant.
PM6
This variant has not been identified de novo.
PM2
The highest minor allele frequency of this variant was in the African/African American population of gnomAD (v2.1.1) = 0.0008013 (20 alleles out of 24,960), which did not meet the ≤ 0.0001 threshold set for PM2_Supporting.
Approved on: 2022-05-10
Published on: 2022-05-25
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