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NM_015141.4(GPD1L):c.8del (p.Ala3fs) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Aug 20, 2014
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:
RCV000170924.3

Allele description [Variation Report for NM_015141.4(GPD1L):c.8del (p.Ala3fs)]

NM_015141.4(GPD1L):c.8del (p.Ala3fs)

Genes:
LOC129936414:ATAC-STARR-seq lymphoblastoid silent region 14165 [Gene]
GPD1L:glycerol-3-phosphate dehydrogenase 1 like [Gene - OMIM - HGNC]
Variant type:
Deletion
Cytogenetic location:
3p22.3
Genomic location:
Preferred name:
NM_015141.4(GPD1L):c.8del (p.Ala3fs)
HGVS:
  • NC_000003.12:g.32106719del
  • NG_023375.1:g.5209del
  • NM_015141.4:c.8delMANE SELECT
  • NP_055956.1:p.Ala3fs
  • LRG_419:g.5209del
  • NC_000003.11:g.32148211del
  • NM_015141.3:c.8delC
  • p.A3GfsX4
Protein change:
A3fs
Links:
dbSNP: rs786205800
NCBI 1000 Genomes Browser:
rs786205800
Molecular consequence:
  • NM_015141.4:c.8del - frameshift variant - [Sequence Ontology: SO:0001589]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: CN517202

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000223482GeneDx
criteria provided, single submitter

(GeneDx Variant Classification (06012015))
Uncertain significance
(Aug 20, 2014)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing

Details of each submission

From GeneDx, SCV000223482.10

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

Description

Although the c.8delC variant in the GPD1L gene has not been reported to our knowledge, this variant causes a shift in reading frame starting at codon Alanine 3, changing it to a Glycine, and creating a premature stop codon at position 4 of the new reading frame, denoted p.Ala3GlyfsX4. This variant is expected to result in either an abnormal, truncated protein product or loss of protein from this allele through nonsense-mediated mRNA decay. Furthermore, the c.8delC variant was not observed in approximately 6,400 individuals of European and African American ancestry in the NHLBI Exome Sequencing Project, indicating it is not a common benign variant in these populations. However, frameshift mutations in the GPD1L gene have not been reported. Therefore, based on the currently available information, it is unclear whether this variant is a pathogenic mutation or a rare benign variant.

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

Last Updated: Oct 14, 2023