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 label mismatch: BRCA2 vs undefined
  • Gene obtained from curated document aligns with the Allele Registry but not with ClinVar data
  • No CSPEC computed assertion could be determined for this classification!


Variant: NM_000059.4(BRCA2):c.8378G>T (p.Gly2793Val)

CA025615

38158 (ClinVar)

Gene: BRCA2 (HGNC:675)
Condition: BRCA2-related cancer predisposition (MONDO:0700269)
Inheritance Mode: Autosomal dominant inheritance
UUID: b1baf39c-b1a3-4367-b6a6-c47152a2510b
Approved on: 2026-07-15
Published on: 2026-07-15

HGVS expressions

NM_000059.4(BRCA2):c.8378G>T (p.Gly2793Val)
NM_000059.4:c.8378G>T
NC_000013.11:g.32370448G>T
CM000675.2:g.32370448G>T
NC_000013.10:g.32944585G>T
CM000675.1:g.32944585G>T
NC_000013.9:g.31842585G>T
NG_012772.3:g.59969G>T
ENST00000470094.2:c.8378G>T
ENST00000528762.2:c.8378G>T
ENST00000530893.7:c.8009G>T
ENST00000665585.2:c.8378G>T
ENST00000666593.2:c.8378G>T
ENST00000700202.2:c.8378G>T
ENST00000700202.1:c.845G>T
ENST00000380152.8:c.8378G>T
ENST00000544455.6:c.8378G>T
ENST00000614259.2:c.8386G>T
ENST00000665585.1:c.943G>T
ENST00000680887.1:c.8378G>T
ENST00000380152.7:c.8378G>T
ENST00000544455.5:c.8378G>T
NM_000059.3:c.8378G>T
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Likely Pathogenic

Met criteria codes 3
PM2_Supporting PS3 PP3
Not Met criteria codes 5
PVS1 BS3 BP5 BP7 PP4

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen ENIGMA BRCA1 and BRCA2 Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for BRCA2 Version 1.1.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
ENIGMA BRCA1 and BRCA2 VCEP
The c.8378G>T variant in BRCA2 is a missense variant predicted to cause substitution of Glycine by Valine at amino acid 2793 (p.(Gly2793Val)). This variant is absent from gnomAD v4.1 (read depth ≥25x in >90% samples, PM2_Supporting met). This BRCA2 missense variant is within a key functional domain and a SpliceAI score of 0.36 predicts an impact on splicing (score threshold >0.20). The computational predictor BayesDel (noAF) gives a score of 0.59, above the recommended threshold of 0.3 for prediction of impact on BRCA2 function via protein change (PP3 met). Missense variant predicted to alter splicing, functional data considered only from assays that measure effect via mRNA and protein. Reported by two calibrated studies incorporating mRNA splicing effect to exhibit function similar to pathogenic control variants (PMIDs: 39779857, 39779848). Additionally, this variant is reported to exhibit function similar to pathogenic control variants in two assays with cDNA based design (PMIDs: 38417439, 32444794) (PS3 met). This variant is reported to result in aberrant mRNA splicing. RT-PCR and agarose gel electrophoresis demonstrated that the variant impacts splicing by exon 19 skipping (PMID: 32123317). The percent full-length and aberrant transcripts produced from the variant allele was not stated (PVS1 (RNA) and BP7_Strong (RNA) not met). Multifactorial likelihood ratio analysis using clinically calibrated data produced a combined LR for this variant of 0.87 (based on Family History LR=0.87), which is above the ENIGMA BRCA1/2 VCEP threshold for BP5 (>0.48) and below PP4 (<2.08) (BP5 and PP4 not met; PMID: 31853058). In summary, this variant meets the criteria to be classified as a Likely pathogenic variant for BRCA2-related cancer predisposition based on the ACMG/AMP criteria applied as specified by the ENIGMA BRCA1/2 VCEP (PM2_Supporting, PP3, PS3).
Met criteria codes
PM2_Supporting
This variant is absent from gnomAD v4.1 (read depth ≥25x in >90% samples, PM2_Supporting met).
PS3
Missense variant predicted to alter splicing, functional data considered only from assays that measure effect via mRNA and protein. Reported by two calibrated studies incorporating mRNA splicing effect to exhibit function similar to pathogenic control variants (PMIDs: 39779857, 39779848). Additionally, this variant is reported to exhibit function similar to pathogenic control variants in two assays with cDNA based design (PMIDs: 38417439, 32444794) (PS3 met).
PP3
This BRCA2 missense variant is within a key functional domain and a SpliceAI score of 0.36 predicts an impact on splicing (score threshold >0.20). The computational predictor BayesDel (noAF) gives a score of 0.59, above the recommended threshold of 0.3 for prediction of impact on BRCA2 function via protein change (PP3 met).
Not Met criteria codes
PVS1
This variant is reported to result in aberrant mRNA splicing. RT-PCR and agarose gel electrophoresis demonstrated that the variant impacts splicing by exon 19 skipping (PMID: 32123317). The percent full-length and aberrant transcripts produced from the variant allele was not stated (PVS1 (RNA) and BP7_Strong (RNA) not met).
BS3
No code specific comments provided, please refer to the summary above or general recommendations provided in the guideline
BP5
Multifactorial likelihood ratio analysis using clinically calibrated data produced a combined LR for this variant of 0.87 (based on Family History LR=0.87), which is above the ENIGMA BRCA1/2 VCEP threshold for BP5 (>0.48) and below PP4 (<2.08) (BP5 and PP4 not met; PMID: 31853058).
BP7
This variant is reported to result in aberrant mRNA splicing. RT-PCR and agarose gel electrophoresis demonstrated that the variant impacts splicing by exon 19 skipping (PMID: 32123317). The percent full-length and aberrant transcripts produced from the variant allele was not stated (PVS1 (RNA) and BP7_Strong (RNA) not met).
PP4
Multifactorial likelihood ratio analysis using clinically calibrated data produced a combined LR for this variant of 0.87 (based on Family History LR=0.87), which is above the ENIGMA BRCA1/2 VCEP threshold for BP5 (>0.48) and below PP4 (<2.08) (BP5 and PP4 not met; PMID: 31853058).
Curation History
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