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Variant: NM_000261.2:c.599del

CA2573130348

Gene: MYOC
Condition: juvenile open angle glaucoma
Inheritance Mode: Autosomal dominant inheritance
UUID: eb7a637f-186b-49be-aaf3-cd35ca863915

HGVS expressions

NM_000261.2:c.599del
NC_000001.11:g.171652013del
CM000663.2:g.171652013del
NC_000001.10:g.171621153del
CM000663.1:g.171621153del
NC_000001.9:g.169887776del
NG_008859.1:g.5621del
ENST00000037502.11:c.599del
ENST00000638471.1:c.130+469del
ENST00000037502.10:c.599del
ENST00000614688.1:c.599del
NM_000261.1:c.599del

Uncertain Significance

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

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.599del variant in MYOC is a deletion of a single nucleotide, predicted to encode a frameshift with consequent premature termination of the protein at codon 16 of the frameshift, or amino acid 215 (p.Arg200LysfsTer16). Truncation of this protein occurs outside of the conserved olfactomedin domain, which did not meet PM4. 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. Only 1 proband with juvenile open angle glaucoma had been reported (PMID: Yadav et al, 2022, Pre-print), 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 juvenile 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
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.
Not Met criteria codes
PS4
Only 1 proband with JOAG had been reported (PMID: Yadav et al, 2022, Pre-print), 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.
BP4
This is not a missense, synonymous or non-coding variant.
BP7
This is not a synonymous or non-coding variant.
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.
PM5
This is not a missense variant.
PM4
Truncation of this protein occurs outside of the conserved olfactomedin domain, which did not meet PM4.
PM6
This variant has not been identified de novo.
BS3
No functional evidence has been found for this variant.
BS1
This criterion was not met as PM2_Supporting has been met.
Approved on: 2023-08-08
Published on: 2023-08-08
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