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

  • See Evidence submitted by expert panel for details.

Variant: NM_000261.2:c.1187_1189dup

CA1139532728

Gene: MYOC
Condition: juvenile open angle glaucoma
Inheritance Mode: Autosomal dominant inheritance
UUID: 20ad1fd9-9eb4-4977-b099-d25f0e06ef1e

HGVS expressions

NM_000261.2:c.1187_1189dup
NC_000001.11:g.171636252_171636254dup
CM000663.2:g.171636252_171636254dup
NC_000001.10:g.171605392_171605394dup
CM000663.1:g.171605392_171605394dup
NC_000001.9:g.169872015_169872017dup
NG_008859.1:g.21381_21383dup
ENST00000037502.11:c.1187_1189dup
ENST00000637303.1:c.235-2378_235-2376dup
ENST00000638471.1:c.*525_*527dup
ENST00000037502.10:c.1187_1189dup
ENST00000614688.1:c.*151_*153dup
NM_000261.1:c.1187_1189dup

Likely Pathogenic

Met criteria codes 4
PM4_Supporting PM2_Supporting PS3_Moderate PP1_Moderate
Not Met criteria codes 11
PS2 PS1 PS4 BA1 PP3 PM6 PM5 BS3 BS1 BP4 BP7

Evidence Links 2

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Glaucoma VCEP
The c.1187_1189dup variant in MYOC is predicted to cause a change in the length of the protein due to an in-frame insertion of 1 amino acid (p.Glu396dup). This variant is predicted to involve < 10% of the protein within the conserved olfactomedin domain, meeting PM4_Supporting. This variant was not found in any population of gnomAD (v2.1.1), meeting the ≤ 0.0001 threshold set for PM2_Supporting in a population of at least 10,000 alleles. There was no computational evidence predicting a damaging or benign impact of this variant on MYOC function. Previous studies (PMIDs: 16466712, 35196929) demonstrated that the Glu396dup protein had increased insolubility and reduced secretion levels compared to wild type myocilin protein and met the OddsPath threshold for PS3_Moderate (> 4.3), indicating that this variant did impact protein function. 5 segregations in 1 family, with juvenile or primary open angle glaucoma (JOAG or POAG), have been reported (PMID: 9535666), which fulfilled PP1_Moderate (5-6 meioses). Only 1 proband with JOAG had been reported (PMID: 9535666), not meeting the ≥ 2 probands threshold required to meet PS4_Supporting. In summary, this variant met the criteria to receive a score of 6 and to be classified as likely pathogenic (likely pathogenic classification range 6 to 9) for juvenile open angle glaucoma based on the ACMG/AMP criteria met, as specified by the ClinGen Glaucoma VCEP (v1, 12 Oct 2021): PS3_Moderate, PP1_Moderate, PM2_Supporting, PM4_Supporting
Met criteria codes
PM4_Supporting
This in-frame insertion variant is predicted to involve ≤10% of the protein and is within the conserved olfactomedin domain.
PM2_Supporting
This variant was not found in any population of gnomAD (v2.1.1), meeting the ≤ 0.0001 threshold set for PM2_Supporting in a population of at least 10,000 alleles.
PS3_Moderate
Previous studies (PMIDs: 16466712, 35196929) demonstrated that the Glu396dup protein had increased insolubility and reduced secretion levels compared to wild type myocilin protein and met the OddsPath threshold for PS3_Moderate (> 4.3), indicating that this variant did impact protein function.

PP1_Moderate
5 segregations in 1 family, with juvenile or primary open angle glaucoma (JOAG or POAG), have been reported (PMID: 9535666), which fulfilled PP1_Moderate (5-6 meioses).
Not Met criteria codes
PS2
This variant has not been identified de novo.
PS1
An established pathogenic variant causing this same amino acid change has not been identified.
PS4
Only 1 proband with JOAG had been reported (PMID: 9535666), not meeting the ≥ 2 probands threshold required to meet PS4_Supporting.
BA1
This criterion was not met as PM2_Supporting has been met.
PP3
This is not a missense variant.
PM6
This variant has not been identified de novo.
PM5
This is not a missense variant.
BS3
This criterion was not met as PS3_Moderate has been met.
BS1
This criterion was not met as PM2_Supporting has been met.
BP4
This is not a missense, synonymous or non-coding variant.
BP7
This is not a synonymous or non-coding variant.
Approved on: 2022-05-10
Published on: 2022-05-25
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