NM_001250.6(CD40):c.257-7_257-3del AND not provided

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Sep 1, 2021
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

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:: RCV001891355.5

Allele description [Variation Report for NM_001250.6(CD40):c.257-7_257-3del]

NM_001250.6(CD40):c.257-7_257-3del

Gene:

CD40:CD40 molecule [Gene - OMIM - HGNC]

Variant type:

Microsatellite

Cytogenetic location:

20q13.12

Genomic location:

Preferred name:

NM_001250.6(CD40):c.257-7_257-3del

HGVS:

NC_000020.11:g.46122598TTCTC[1]
NG_007279.1:g.9332TTCTC[1]
NM_001250.6:c.257-7_257-3delMANE SELECT
NM_001302753.2:c.257-7_257-3del
NM_001322421.2:c.257-7_257-3del
NM_001322422.2:c.257-7_257-3del
NM_001362758.2:c.257-7_257-3del
NM_152854.4:c.257-7_257-3del
LRG_40:g.9332TTCTC[1]
NC_000020.10:g.44751236_44751240del
NC_000020.10:g.44751237TTCTC[1]

Links:

dbSNP: rs751182588

NCBI 1000 Genomes Browser:

rs751182588

Molecular consequence:

NM_001250.6:c.257-7_257-3del - intron variant - [Sequence Ontology: SO:0001627]
NM_001302753.2:c.257-7_257-3del - intron variant - [Sequence Ontology: SO:0001627]
NM_001322421.2:c.257-7_257-3del - intron variant - [Sequence Ontology: SO:0001627]
NM_001322422.2:c.257-7_257-3del - intron variant - [Sequence Ontology: SO:0001627]
NM_001362758.2:c.257-7_257-3del - intron variant - [Sequence Ontology: SO:0001627]
NM_152854.4:c.257-7_257-3del - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002160462	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Sep 1, 2021)	germline	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

SCV002160462

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Sep 1, 2021)

germline

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

Citations

PubMed

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

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV002160462.2

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

Description

This sequence change falls in intron 3 of the CD40 gene. It does not directly change the encoded amino acid sequence of the CD40 protein. This variant is present in population databases (rs751182588, ExAC 0.009%). This variant has not been reported in the literature in individuals affected with CD40-related conditions. Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may disrupt the consensus splice site. 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

Last Updated: Sep 29, 2024

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