Genetic Information

Gene & Transcript Details

Gene
BRCA1
Transcript
NM_007294.3 MANE Select
Total Exons
Reference Sequence
NC_000017.10
Alternative Transcripts
IDStatusDetails
NM_007294.4 MANE Select 7088 nt | 114–5705
NM_007294.2 Alternative 7191 nt | 201–5792
NM_007294.3 RefSeq Select 7224 nt | 233–5824

Variant Details

HGVS Notation
NM_007294.3:c.68_69del
Protein Change
E23Vfs*17
Location
Exon 2 (Exon 2 of )
2
5'Exon Structure3'
Functional Consequence
Loss of Function
Alternate Identifiers

Clinical & Population Data

Population Frequency

gnomAD
Global Frequency
0.0205 in 100,000
Extremely Rare
ACMG Criteria Applied PM2
This variant is absent or extremely rare in population databases (PM2 criteria applies).

ClinVar

Open
Classification
Unknown
0 publications
Clinical Statement

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COSMIC Somatic Evidence

Open
COSMIC ID
COSM3190163
Recurrence
5 occurrences
PM1 Criteria
Not Applied
COSMIC Database Preview
COSMIC Preview
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Functional Impact & Domains

Functional Domain

Hotspot Status
Not a hotspot
Domain Summary
This variant is not located in a mutational hotspot or critical domain.
Related Variants in This Domain
No evidence of other pathogenic variants at this position in gene BRCA1.

Functional Studies & Therapeutic Relevance

Functional Summary

Error in OpenAI Consolidation. OncoKB: BRCA1E23Vfs*17BRCA1E23Vfs*17SomaticNCBI Gene:672|Show additional gene information Variant OverviewBRCA1, a tumor suppressor involved in the DNA damage response, is mutated in various cancer types.The BRCA1 E23Vfs*17 mutation is known to be oncogenic.Hide mutation effect description The mutation effect description for E23fs in BRCA1 is: The BRCA1 E23fs mutation is located in the RING domain of the protein. It is a known deleterious mutation in BRCA1 that abolishes the RING-domain of the protein (PMID: 23867111, 15569676, 14729053). BRCA1 E23fs carries an associated risk of 56% for breast cancer, 16% for ovarian cancer and 16% for prostate cancer by age 70 (PMID: 9145676) and is one of the most common Ashkenazi Jewish BRCA1 founder mutations (PMID: 14576434). Modeling of this variant in mice via a BRCA1 185stop mutation demonstrated that this variant not only predisposed animals to mammary tumors but also compromised response to treatment with platinum drugs and PARP inhibitors (PMID: 27454287). In vitro studies with MCF-10A cells expressing this mutation have demonstrated that it is inactivating as measured by increased radiosensitivity, chromosomal instability, polyploid fractions and centrosome number compared to wildtype (PMID: 26246475). In vitro studies in cancer cells harboring RING-less BRCA1 also demonstrated that loss of the RING domain can confer resistance to PARP inhibitors and platinum agents (PMID: 27454289). JAX-CKB: No results found

Database Previews
OncoKB
OncoKB Preview
JAX-CKB
JAX-CKB Preview

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Computational Analysis

Pathogenicity Predictions

SpliceAI
Predictor Consensus
Mixed/VUS
PP3 Applied
No
REVEL Score
0.0
Threshold: ≥0.75 = PP3 applied

SpliceAI Scores

Window: ±500bp
Effect Type Score Position
- Acceptor Loss (AL) 0.05 88 bp
- Donor Loss (DL) 0.0 488 bp
+ Acceptor Gain (AG) 0.01 75 bp
+ Donor Gain (DG) 0.03 -10 bp
High impact (≥0.5) Medium impact (0.2-0.49) Low impact (<0.2)

VCEP Guidelines

Applied ACMG/AMP Criteria (VCEP Specific)

Filter Criteria:
PVS1

PVS1 (Unknown (Pre-LLM))

From pre-LLM assessment (LLM Failed)

PM2

PM2 (Unknown (Pre-LLM))

From pre-LLM assessment (LLM Failed)