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Variant: NM_024675.3(PALB2):c.2524_2535delinsTCAGA (p.Ala842fs)

CA196418

186990 (ClinVar)

Gene: PALB2
Condition: hereditary breast cancer
Inheritance Mode: Autosomal dominant inheritance
UUID: 2fc9b89e-52aa-42d9-a62b-83460b2bf89b
Approved on: 2023-04-05
Published on: 2023-04-07

HGVS expressions

NM_024675.3:c.2524_2535delinsTCAGA
NM_024675.3(PALB2):c.2524_2535delinsTCAGA (p.Ala842fs)
NC_000016.10:g.23629255_23629266delinsTCTGA
CM000678.2:g.23629255_23629266delinsTCTGA
NC_000016.9:g.23640576_23640587delinsTCTGA
CM000678.1:g.23640576_23640587delinsTCTGA
NC_000016.8:g.23548077_23548088delinsTCTGA
NG_007406.1:g.17092_17103delinsTCAGA
ENST00000261584.9:c.2524_2535delinsTCAGA
ENST00000261584.8:c.2524_2535delinsTCAGA
ENST00000565038.1:n.96_107delinsTCAGA
ENST00000568219.5:c.1639_1650delinsTCAGA
NM_024675.4:c.2524_2535delinsTCAGA
NM_024675.4(PALB2):c.2524_2535delinsTCAGA (p.Ala842fs)
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Pathogenic

Met criteria codes 3
PM2_Supporting PVS1 PM5_Supporting

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen Hereditary Breast, Ovarian and Pancreatic Cancer Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for PALB2 Version 1.0.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Hereditary Breast, Ovarian and Pancreatic Cancer VCEP
The c.2524_2535delinsTCAGA (p.Ala842Serfs*7) variant in PALB2 is a frameshift variant predicted to cause a premature stop codon in biologically-relevant-exon 6 leading to nonsense mediated decay in a gene in which loss-of-function is an established disease mechanism. This variant is absent from gnomAD v2.1.1. This alteration results in a termination codon upstream of the most C-terminus pathogenic alteration (PALB2 p.Tyr1183*) as classified by the HBOP VCEP, and is expected to be more deleterious. In summary, this variant meets criteria to be classified as pathogenic for autosomal dominant hereditary breast and pancreatic cancer and autosomal recessive FANCN based on the ACMG/AMP criteria applied as specified by the HBOP VCEP. (PVS1, PM2_Supporting, PM5_Supporting)
Met criteria codes
PM2_Supporting
This variant is absent from gnomAD v2.1.1.
PVS1
The c.2524_2535delinsTCAGA (p.Ala842Serfs*7) variant in PALB2 is a frameshift variant predicted to cause a premature stop codon in biologically-relevant-exon 6/13 leading to nonsense mediated decay in a gene in which loss-of-function is an established disease mechanism.
PM5_Supporting
This alteration results in a termination codon upstream of the most C-terminus pathogenic alteration (PALB2 p.Tyr1183*) as classified by the ClinGen HBOP Variant Curation Expert Panel, and is expected to be more deleterious (PM5_Supporting)
Curation History
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