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NM_016203.4(PRKAG2):c.477CTC[2] (p.Ser162del) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Jun 3, 2019
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:
RCV001562897.2

Allele description [Variation Report for NM_016203.4(PRKAG2):c.477CTC[2] (p.Ser162del)]

NM_016203.4(PRKAG2):c.477CTC[2] (p.Ser162del)

Gene:
PRKAG2:protein kinase AMP-activated non-catalytic subunit gamma 2 [Gene - OMIM - HGNC]
Variant type:
Microsatellite
Cytogenetic location:
7q36.1
Genomic location:
Preferred name:
NM_016203.4(PRKAG2):c.477CTC[2] (p.Ser162del)
HGVS:
  • NC_000007.14:g.151675619GAG[2]
  • NG_007486.2:g.206605CTC[2]
  • NM_001040633.2:c.345CTC[2]
  • NM_001304527.2:c.105CTC[2]
  • NM_001363698.2:c.105CTC[2]
  • NM_016203.4:c.477CTC[2]MANE SELECT
  • NP_001035723.1:p.Ser118del
  • NP_001291456.1:p.Ser38del
  • NP_001350627.1:p.Ser38del
  • NP_057287.2:p.Ser162del
  • LRG_430t1:c.477CTC[2]
  • LRG_430:g.206605CTC[2]
  • LRG_430p1:p.Ser162del
  • NC_000007.13:g.151372705GAG[2]
  • NC_000007.13:g.151372705_151372707del
  • NG_007486.1:g.206604CTC[2]
  • NM_016203.3:c.483_485delCTC
Protein change:
S118del
Links:
dbSNP: rs1002236859
NCBI 1000 Genomes Browser:
rs1002236859
Molecular consequence:
  • NM_001040633.2:c.345CTC[2] - inframe_deletion - [Sequence Ontology: SO:0001822]
  • NM_001304527.2:c.105CTC[2] - inframe_deletion - [Sequence Ontology: SO:0001822]
  • NM_001363698.2:c.105CTC[2] - inframe_deletion - [Sequence Ontology: SO:0001822]
  • NM_016203.4:c.477CTC[2] - inframe_deletion - [Sequence Ontology: SO:0001822]

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
SCV001785739GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Uncertain significance
(Jun 3, 2019)
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, SCV001785739.1

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

Description

Has not been previously published as pathogenic or benign to our knowledge; Reported in ClinVar as a variant of uncertain significance but additional evidence is not available (ClinVar Variant ID# 561419; Landrum et al., 2016); Variant results in an in-frame deletion of a single serine residue, denoted p.S162del; Not observed in large population cohorts (Lek et al., 2016); In silico analysis, which includes protein predictors and evolutionary conservation, supports that this variant does not alter protein structure/function

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

Last Updated: Sep 29, 2024