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Variant: NM_000261.2:c.1515A>G

CA343722726

Gene: MYOC
Condition: juvenile open angle glaucoma
Inheritance Mode: Autosomal dominant inheritance
UUID: 51bf1a35-7099-4aa0-af4f-fc0900f84e6c

HGVS expressions

NM_000261.2:c.1515A>G
NC_000001.11:g.171635925T>C
CM000663.2:g.171635925T>C
NC_000001.10:g.171605065T>C
CM000663.1:g.171605065T>C
NC_000001.9:g.169871688T>C
NG_008859.1:g.21709A>G
ENST00000037502.11:c.1515A>G
ENST00000637303.1:c.235-2705T>C
ENST00000638471.1:c.*853A>G
ENST00000037502.10:c.1515A>G
ENST00000614688.1:c.*479A>G
NM_000261.1:c.1515A>G

Uncertain Significance

Met criteria codes 3
PM4_Supporting PM2_Supporting PP1_Moderate
Not Met criteria codes 12
PM6 PM5 BS3 BS1 BP7 BP4 PS4 PS2 PS1 PS3 BA1 PP3

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen Glaucoma Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines Version 1.1

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Glaucoma VCEP
The c.1515A>G variant in MYOC is a single nucleotide change, predicted to substitute the terminating codon by Tryptophan and extending the protein by an additional 42 amino acids (p.Ter505TrpextTer42). 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 or functional evidence predicting a damaging or benign impact of this variant on MYOC function. 20 segregations in 1 family, with juvenile or primary open angle glaucoma (JOAG or POAG), have been reported (PMID: 34923728), which fulfilled PP1_Moderate (≥ 5 meioses in ≥ 1 family, but not the ≥ 7 meioses in > 1 family for the strong criterion). Only 1 proband with JOAG had been reported (PMID: 34923728), not meeting the ≥ 2 probands threshold required to meet PS4_Supporting. In summary, this variant met the criteria to receive a score of 4 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): PP1_Moderate, PM2_Supporting, PM4_Supporting.
Met criteria codes
PM4_Supporting
This deletion 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.
PP1_Moderate
20 segregations in 1 family, with juvenile or primary open angle glaucoma (JOAG or POAG), have been reported (PMID: 34923728), which fulfilled PP1_Moderate (≥5 meioses in ≥1 family, but not the ≥7 meioses in >1 family for the strong criterion).
Not Met criteria codes
PM6
This variant has not been identified de novo.
PM5
This is not a missense variant.
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.
PS4
Only 1 proband with JOAG had been reported (PMID: 34923728), not meeting the ≥ 2 probands threshold required to meet PS4_Supporting.
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.
BA1
This criterion was not met as PM2_Supporting has been met.
PP3
This is not a missense variant.
Approved on: 2023-05-03
Published on: 2023-05-03
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