The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • Gene obtained from curated document aligns with the Allele Registry but not with ClinVar data
  • Despite there being a valid 'cspec' property in the messages there's a discrepancy in message contents and CSPEC data: * Message Gene: COCH CSPEC Genes: [ 'CDH23', 'COCH', 'GJB2', 'KCNQ4', 'MYO6', 'MYO7A', 'SLC26A4', 'TECTA', 'USH2A' ] * Message MONDOs: MONDO:0011058 CSPEC MONDO: [ 'MONDO:0019501', 'MONDO:0019497', 'MONDO:0019497', 'MONDO:0019497', 'MONDO:0019497', 'MONDO:0019497', 'MONDO:0019501', 'MONDO:0019497', 'MONDO:0010134', 'MONDO:0019497', 'MONDO:0019501' ]
  • No CSPEC computed assertion could be determined for this classification!


Variant: NM_004086.3(COCH):c.260G>A (p.Gly87Glu)

CA389344542

3620741 (ClinVar)

Gene: COCH (HGNC:1690)
Condition: autosomal dominant nonsyndromic deafness 9 (MONDO:0011058)
Inheritance Mode: Autosomal dominant inheritance
UUID: 48a94ed3-cda9-48dd-b66c-e3750ab27f87
Approved on: 2025-03-12
Published on: 2025-06-30

HGVS expressions

NM_004086.3(COCH):c.260G>A (p.Gly87Glu)
NM_004086.3:c.260G>A
NC_000014.9:g.30878831G>A
CM000676.2:g.30878831G>A
NC_000014.8:g.31348037G>A
CM000676.1:g.31348037G>A
NC_000014.7:g.30417788G>A
NG_008211.2:g.9297G>A
ENST00000216361.9:c.455G>A
ENST00000396618.9:c.260G>A
ENST00000555117.2:c.260G>A
ENST00000643575.1:c.260G>A
ENST00000643697.1:n.505G>A
ENST00000644874.2:c.260G>A
ENST00000216361.8:c.260G>A
ENST00000396618.7:c.260G>A
ENST00000460581.6:c.-77G>A
ENST00000475087.5:c.260G>A
ENST00000553772.5:c.239+1103G>A
ENST00000553833.5:n.414G>A
ENST00000555881.5:c.83-1621G>A
ENST00000556908.5:c.212G>A
ENST00000557065.1:c.156-592G>A
NM_001135058.1:c.260G>A
NM_004086.2:c.260G>A
NR_038356.1:n.1618-2279C>T
NM_001347720.1:c.455G>A
NM_001135058.2:c.260G>A
NM_001347720.2:c.455G>A
More

Likely Pathogenic

Met criteria codes 3
PM5_Strong PP3 PM2_Supporting

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen Hearing Loss Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for CDH23, COCH, GJB2, KCNQ4, MYO6, MYO7A, SLC26A4, TECTA and USH2A Version 2

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Hearing Loss VCEP
The c.260G>A variant in COCH is a missense variant predicted to cause substitution of glycine by glutamate at amino acid 87 (p.Gly87Glu). This variant is absent from gnomAD v4.1.0 (PM2_Supporting). The amino acid residue is well conserved and the REVEL computational prediction analysis tool produced a score of 0.885, which is above the threshold necessary to apply PP3 (PP3). Three different missense variants, c.259G>T; p.Gly87Trp [PMID:16835921, ClinVar Variation ID: 1297642], c.260G>C; p.Gly87Ala [ClinVar Variation ID: 517362, with variant segregation in 3 affected family members per lab communication], and c.260G>T; p.Gly87Val [PMIDs:23767834, 23993205], have been classified as pathogenic or likely pathogenic for autosomal dominant, adult-onset hearing loss with vestibular symptoms (PM5_Strong). The p.Gly87Glu variant was detected via a hearing loss gene panel for a patient with a 3-generation history of progressive adult-onset hearing loss in the 5th or 6th decade with vestibular symptoms. In summary, this variant has been classified as likely pathogenic for autosomal dominant, adult-onset, nonsyndromic, sensorineural genetic hearing loss based on the ACMG/AMP criteria applied, as specified by the ClinGen Hearing Loss VCEP: PM5_Strong, PM2_Supporting, PP3 (ClinGen Hearing Loss VCEP specifications version 1; 3/12/2025).
Met criteria codes
PM5_Strong
Three different missense variants, c.259G>T; p.Gly87Trp [PMID:16835921, ClinVar Variation ID: 1297642], c.260G>C; p.Gly87Ala [ClinVar Variation ID: 517362, with variant segregation in 3 affected family members per lab communication], and c.260G>T; p.Gly87Val [PMIDs:23767834, 23993205], have been classified as pathogenic or likely pathogenic for autosomal dominant, adult-onset hearing loss with vestibular symptoms.
PP3
The amino acid residue is well conserved and the REVEL computational prediction analysis tool produced a score of 0.885, which is above the threshold necessary to apply PP3
PM2_Supporting
This variant is absent from gnomAD v4.1.0
Curation History
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