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NM_004563.4(PCK2):c.1468+2T>C AND Phosphoenolpyruvate carboxykinase deficiency, mitochondrial

Germline classification:
Uncertain significance (2 submissions)
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:
RCV000509359.3

Allele description [Variation Report for NM_004563.4(PCK2):c.1468+2T>C]

NM_004563.4(PCK2):c.1468+2T>C

Genes:
NRL:neural retina leucine zipper [Gene - OMIM - HGNC]
PCK2:phosphoenolpyruvate carboxykinase 2, mitochondrial [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
14q12
Genomic location:
Preferred name:
NM_004563.4(PCK2):c.1468+2T>C
HGVS:
  • NC_000014.9:g.24103257T>C
  • NG_008162.2:g.13984T>C
  • NG_011697.2:g.16758A>G
  • NM_001291556.2:c.1066+2T>C
  • NM_001308054.2:c.1066+2T>C
  • NM_001354768.3:c.-28+11465A>GMANE SELECT
  • NM_001354770.2:c.-28+11465A>G
  • NM_004563.4:c.1468+2T>CMANE SELECT
  • NM_006177.5:c.-254+11465A>G
  • NC_000014.8:g.24572466T>C
  • NM_004563.2:c.1468+2T>C
Links:
dbSNP: rs148019349
NCBI 1000 Genomes Browser:
rs148019349
Molecular consequence:
  • NM_001354768.3:c.-28+11465A>G - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001354770.2:c.-28+11465A>G - intron variant - [Sequence Ontology: SO:0001627]
  • NM_006177.5:c.-254+11465A>G - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001291556.2:c.1066+2T>C - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_001308054.2:c.1066+2T>C - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_004563.4:c.1468+2T>C - splice donor variant - [Sequence Ontology: SO:0001575]

Condition(s)

Name:
Phosphoenolpyruvate carboxykinase deficiency, mitochondrial
Synonyms:
PCK2 DEFICIENCY; PEPCK2 DEFICIENCY
Identifiers:
MONDO: MONDO:0009864; MedGen: C1849821; Orphanet: 2880; OMIM: 261650

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000607049GenomeConnect, ClinGen
no classification provided
not providedunknownphenotyping only

SCV001528231Baylor Genetics
criteria provided, single submitter

(ACMG Guidelines, 2015)
Uncertain significanceunknownclinical testing

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing, phenotyping only

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From GenomeConnect, ClinGen, SCV000607049.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedphenotyping onlynot provided

Description

GenomeConnect assertions are reported exactly as they appear on the patient-provided report from the testing laboratory. GenomeConnect staff make no attempt to reinterpret the clinical significance of the variant.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1unknownunknownnot providednot providedvalidationnot providednot providednot providednot provided

From Baylor Genetics, SCV001528231.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1unknownunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Feb 20, 2024