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NM_001003800.2(BICD2):c.1540G>A (p.Gly514Ser) AND not provided

Germline classification:
Uncertain significance (2 submissions)
Last evaluated:
Feb 1, 2022
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:
RCV000497977.18

Allele description [Variation Report for NM_001003800.2(BICD2):c.1540G>A (p.Gly514Ser)]

NM_001003800.2(BICD2):c.1540G>A (p.Gly514Ser)

Gene:
BICD2:BICD cargo adaptor 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
9q22.31
Genomic location:
Preferred name:
NM_001003800.2(BICD2):c.1540G>A (p.Gly514Ser)
HGVS:
  • NC_000009.12:g.92719105C>T
  • NG_033908.1:g.50697G>A
  • NM_001003800.2:c.1540G>AMANE SELECT
  • NM_015250.4:c.1540G>A
  • NP_001003800.1:p.Gly514Ser
  • NP_056065.1:p.Gly514Ser
  • NC_000009.11:g.95481387C>T
  • NM_001003800.1:c.1540G>A
Protein change:
G514S
Links:
dbSNP: rs200091763
NCBI 1000 Genomes Browser:
rs200091763
Molecular consequence:
  • NM_001003800.2:c.1540G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_015250.4:c.1540G>A - missense variant - [Sequence Ontology: SO:0001583]
Observations:
1

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000589976GeneDx
criteria provided, single submitter

(GeneDx Variant Classification (06012015))
Uncertain significance
(Jun 22, 2017)
germlineclinical testing

Citation Link,

SCV002498036CeGaT Center for Human Genetics Tuebingen
criteria provided, single submitter

(CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)
Uncertain significance
(Feb 1, 2022)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyes1not providednot providednot providednot providedclinical testing

Details of each submission

From GeneDx, SCV000589976.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

A variant of uncertain significance has been identified in the BICD2 gene. The G514S variant has been reported as a possible pathogenic variant in an individual with peripheral neuropathy; however no additional information was provided (Laššuthová et al.,2016). The G514S variant is observed in 5/16502 (0.03%) alleles from individuals of South Asian background, (Lek et al., 2016; 1000 Genomes Consortium et al., 2015; Exome Variant Server). The G514S variant is a non-conservative amino acid substitution, which is likely to impact secondary protein structure as these residues differ in polarity, charge, size and/or other properties. This substitution occurs at a position that is conserved across species. However, in silico analysis is inconsistent in its predictions as to whether or not the variant is damaging to the protein structure/function. Therefore, based on the currently available information, it is unclear whether this variant is a pathogenic variant or a rare benign variant.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot providednot providednot providednot providednot provided

From CeGaT Center for Human Genetics Tuebingen, SCV002498036.16

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testingnot provided
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot provided1not providednot providednot provided

Last Updated: Aug 4, 2024