NM_000465.4(BARD1):c.1844A>G (p.Gln615Arg) AND Familial cancer of breast

Germline classification:: Uncertain significance (2 submissions)
Last evaluated:: Oct 18, 2023
Review status:: 2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts

Somatic classification of clinical impact:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Somatic classification of oncogenicity:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Record status:: current
Accession:: RCV000549991.12

Allele description [Variation Report for NM_000465.4(BARD1):c.1844A>G (p.Gln615Arg)]

NM_000465.4(BARD1):c.1844A>G (p.Gln615Arg)

Gene:

BARD1:BRCA1 associated RING domain 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

2q35

Genomic location:

Preferred name:

NM_000465.4(BARD1):c.1844A>G (p.Gln615Arg)

HGVS:

NC_000002.12:g.214745126T>C
NG_012047.3:g.69586A>G
NM_000465.4:c.1844A>GMANE SELECT
NM_001282543.2:c.1787A>G
NM_001282545.2:c.491A>G
NM_001282548.2:c.434A>G
NM_001282549.2:c.365-14618A>G
NP_000456.2:p.Gln615Arg
NP_001269472.1:p.Gln596Arg
NP_001269474.1:p.Gln164Arg
NP_001269477.1:p.Gln145Arg
LRG_297t1:c.1844A>G
LRG_297:g.69586A>G
LRG_297p1:p.Gln615Arg
NC_000002.11:g.215609850T>C
NG_012047.2:g.69579A>G
NM_000465.2:c.1844A>G
NM_000465.3:c.1844A>G
NR_104212.2:n.1809A>G
NR_104215.2:n.1752A>G
NR_104216.2:n.1008A>G

Protein change:

Q145R

Links:

dbSNP: rs764418221

NCBI 1000 Genomes Browser:

rs764418221

Molecular consequence:

NM_001282549.2:c.365-14618A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_000465.4:c.1844A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001282543.2:c.1787A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001282545.2:c.491A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001282548.2:c.434A>G - missense variant - [Sequence Ontology: SO:0001583]
NR_104212.2:n.1809A>G - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_104215.2:n.1752A>G - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_104216.2:n.1008A>G - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:: Familial cancer of breast
Synonyms:: Breast cancer, familial; Hereditary breast cancer
Identifiers:: MONDO: MONDO:0016419; MedGen: C0346153; OMIM: 114480

Recent activity

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Homo sapiens mRNA; cDNA DKFZp434F083 (from clone DKFZp434F083)
Homo sapiens mRNA; cDNA DKFZp434F083 (from clone DKFZp434F083)
gi|5262572|emb|AL080132.1|

Nucleotide
RecName: Full=Zinc finger C2HC domain-containing protein 1B
RecName: Full=Zinc finger C2HC domain-containing protein 1B
gi|81905246|sp|Q9D534.1|ZC21B_MOUSE

Protein
MULTISPECIES: type III secretion system chaperone IpgA [Enterobacteriaceae]
MULTISPECIES: type III secretion system chaperone IpgA [Enterobacteriaceae]
gi|499224124|ref|WP_010921664.1|

Protein
nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1 [Canis lupus fa...
nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1 [Canis lupus familiaris]
gi|545499402|ref|XP_005620577.1|

Protein
PREDICTED: Canis lupus familiaris nicotinamide nucleotide adenylyltransferase 1 ...
PREDICTED: Canis lupus familiaris nicotinamide nucleotide adenylyltransferase 1 (NMNAT1), transcript variant X4, mRNA
gi|1953390542|ref|XM_038666674.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000632988	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Oct 18, 2023)	germline	clinical testing	PubMed (2) [See all records that cite these PMIDs] 36243179, 28492532
SCV004217205	Baylor Genetics	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain significance (Aug 6, 2023)	unknown	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000632988

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Oct 18, 2023)

germline

clinical testing

PubMed (2)
[See all records that cite these PMIDs]

SCV004217205

Baylor Genetics

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain significance
(Aug 6, 2023)

unknown

clinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing
not provided	unknown	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Hereditary cancer variants and homologous recombination deficiency in biliary tract cancer.

Okawa Y, Iwasaki Y, Johnson TA, Ebata N, Inai C, Endo M, Maejima K, Sasagawa S, Fujita M, Matsuda K, Murakami Y, Nakamura T, Hirano S, Momozawa Y, Nakagawa H.

J Hepatol. 2023 Feb;78(2):333-342. doi: 10.1016/j.jhep.2022.09.025. Epub 2022 Oct 13.

PubMed [citation]

PMID:: 36243179

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

See all PubMed Citations (3)

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV000632988.6

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (2)

Description

This sequence change replaces glutamine, which is neutral and polar, with arginine, which is basic and polar, at codon 615 of the BARD1 protein (p.Gln615Arg). This variant is present in population databases (rs764418221, gnomAD 0.01%). This missense change has been observed in individual(s) with BARD1-related conditions (PMID: 36243179). ClinVar contains an entry for this variant (Variation ID: 460725). An algorithm developed to predict the effect of missense changes on protein structure and function (PolyPhen-2) suggests that this variant¬†is likely to be tolerated. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

From Baylor Genetics, SCV004217205.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (1)

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	unknown	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Sep 29, 2024

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