Evidence Repository - Clinical Genome Resources

The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]

Variant: NM_007294.4(BRCA1):c.5557T>A (p.Tyr1853Asn)

CA10590209

433738 (ClinVar)

Gene: BRCA1 (HGNC:672)

Condition: BRCA1-related cancer predisposition (MONDO:0700268)

Inheritance Mode: Autosomal dominant inheritance

UUID: 0dbcecdb-4f0a-4373-b58e-1cba681281ed

Approved on: 2026-07-15

Published on: 2026-07-15

HGVS expressions

NM_007294.4:c.5557T>A

NM_007294.4(BRCA1):c.5557T>A (p.Tyr1853Asn)

NC_000017.11:g.43045713A>T

CM000679.2:g.43045713A>T

NC_000017.10:g.41197730A>T

CM000679.1:g.41197730A>T

NC_000017.9:g.38451256A>T

NG_005905.2:g.172271T>A

ENST00000461574.2:c.5554T>A

ENST00000470026.6:c.5557T>A

ENST00000473961.6:c.5431T>A

ENST00000476777.6:c.5551T>A

ENST00000477152.6:c.5479T>A

ENST00000478531.6:c.2245T>A

ENST00000489037.2:c.5479T>A

ENST00000493919.6:c.2107T>A

ENST00000494123.6:c.5557T>A

ENST00000497488.2:c.4669T>A

ENST00000618469.2:c.5557T>A

ENST00000634433.2:c.5434T>A

ENST00000644379.2:c.5623T>A

ENST00000644555.2:c.2107T>A

ENST00000652672.2:c.5416T>A

ENST00000484087.6:c.2119T>A

ENST00000700081.1:n.1440T>A

ENST00000700082.1:n.921T>A

ENST00000357654.9:c.5557T>A

ENST00000471181.7:c.5620T>A

ENST00000644379.1:c.1944T>A

ENST00000352993.7:c.2131T>A

ENST00000357654.7:c.5557T>A

ENST00000461221.5:c.*5340T>A

ENST00000468300.5:c.*71T>A

ENST00000471181.6:c.5620T>A

ENST00000491747.6:c.2245T>A

ENST00000493795.5:c.5416T>A

ENST00000586385.5:c.487T>A

ENST00000591534.5:c.1030T>A

ENST00000591849.5:c.256T>A

NM_007294.3:c.5557T>A

NM_007297.3:c.5416T>A

NM_007298.3:c.2245T>A

NM_007299.3:c.*71T>A

NM_007300.3:c.5620T>A

NR_027676.1:n.5693T>A

NM_007297.4:c.5416T>A

NM_007299.4:c.*71T>A

NM_007300.4:c.5620T>A

NR_027676.2:n.5734T>A

Likely Pathogenic

PS3 PP3 PM2_Supporting

Evidence Links 0

Expert Panel

ENIGMA BRCA1 and BRCA2 VCEP

Criteria Specification Information

Criteria Specification: ClinGen ENIGMA BRCA1 and BRCA2 Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for BRCA1 Version 1.2.0

Criteria Specification Approval History

Criteria Specifications for this VCEP

Evidence submitted by expert panel

ENIGMA BRCA1 and BRCA2 VCEP

The c.5557T>A variant in BRCA1 is a missense variant predicted to cause substitution of Tyrosine by Asparagine at amino acid 1853 (p.(Tyr1853Asn)). This variant is absent from gnomAD v4.1 (read depth ≥25x in >90% samples, PM2_Supporting met). This BRCA1 missense variant is within a key functional domain and a SpliceAI score of 0 predicts no impact on splicing (score threshold ≤0.1). The computational predictor BayesDel (noAF) gives a score of 0.48, above the recommended threshold of 0.28 for prediction of impact on BRCA1 function via protein change (PP3 met). Reported by one calibrated study to exhibit protein function similar to pathogenic control variants (PMID: 30209399) (PS3 met). In summary, this variant meets the criteria to be classified as a Likely pathogenic variant for BRCA1-related cancer predisposition based on the ACMG/AMP criteria applied as specified by the ENIGMA BRCA1/2 VCEP (v1.2) (PM2_Supporting, PP3, PS3).

PS3

Reported by one calibrated study to exhibit protein function similar to pathogenic control variants (PMID: 30209399) (PS3 met).

PP3

This BRCA1 missense variant is within a key functional domain and a SpliceAI score of 0 predicts no impact on splicing (score threshold ≤0.1). The computational predictor BayesDel (noAF) gives a score of 0.48, above the recommended threshold of 0.28 for prediction of impact on BRCA1 function via protein change (PP3 met).

PM2_Supporting

This variant is absent from gnomAD v4.1 (read depth ≥25x in >90% samples, PM2_Supporting met).

Curation History

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