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
  • ClinVar Id was derived from the Allele Registry.


Variant: NM_000261.2:c.967G>A

CA343725312

1342969 (ClinVar)

Gene: MYOC
Condition: juvenile open angle glaucoma
Inheritance Mode: Autosomal dominant inheritance
UUID: 888624e6-7cfd-465a-b22b-2eb67ffb2a41

HGVS expressions

NM_000261.2:c.967G>A
NC_000001.11:g.171636473C>T
CM000663.2:g.171636473C>T
NC_000001.10:g.171605613C>T
CM000663.1:g.171605613C>T
NC_000001.9:g.169872236C>T
NG_008859.1:g.21161G>A
ENST00000037502.11:c.967G>A
ENST00000637303.1:c.235-2157C>T
ENST00000638471.1:c.*305G>A
ENST00000037502.10:c.967G>A
ENST00000614688.1:c.967G>A
NM_000261.1:c.967G>A
NM_000261.2(MYOC):c.967G>A (p.Glu323Lys)

Likely Pathogenic

Met criteria codes 5
PS4_Supporting PP3 PM2_Supporting PS3_Moderate PP1_Moderate
Not Met criteria codes 10
PS2 PS1 PM5 PM4 PM6 BA1 BS3 BS1 BP4 BP7

Evidence Links 2

Expert Panel

Criteria Specification Information

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

PDF
Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Glaucoma VCEP
The c.967G>A variant in MYOC is a missense variant predicted to cause substitution of Glutamic acid by Lysine at amino acid 323 (p.Glu323Lys). 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. The REVEL score = 0.759, which met the ≥ 0.7 threshold for PP3, predicting a damaging effect on MYOC function. A previous study (PMID: 16466712) demonstrated that the Glu323Lys protein had 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. 10 segregations in 1 family, with juvenile open angle glaucoma, have been reported (PMID: 9772276), which fulfilled PP1_Moderate (≥ 5 meioses in ≥ 1 family, but not the ≥ 7 meioses in > 1 family for the strong criterion). 2 probands with juvenile or primary open angle glaucoma have been reported carrying this variant (PMIDs: 9772276, 12616399), which met PS4_Supporting (≥ 2 probands). In summary, this variant met the criteria to receive a score of 7 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, PP3, PS4_Supporting, PM2_Supporting.
Met criteria codes
PS4_Supporting
2 probands with JOAG or POAG have been reported carrying this variant (PMIDs: 9772276, 12616399), which met PS4_Supporting (≥ 2 probands).
PP3
The REVEL score = 0.759, which met the ≥ 0.7 threshold for PP3, predicting a damaging effect on MYOC function.
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
A previous study (PMID: 16466712) demonstrated that the Glu323Lys protein had 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
10 segregations in 1 family, with JOAG, have been reported (PMID: 9772276), 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
PS2
This variant has not been identified de novo.
PS1
An established pathogenic variant causing this same amino acid change has not been identified.
PM5
No other missense variants at this amino acid residue have been identified.
PM4
This variant does not cause a protein length change.
PM6
This variant has not been identified de novo.
BA1
This criterion was not met as PM2_Supporting has been met.
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 criterion was not met as PP3 has been met.
BP7
This is not a synonymous or non-coding variant.
Approved on: 2022-03-06
Published on: 2022-07-11
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