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NM_001363118.2(SLC52A2):c.13A>T (p.Thr5Ser) AND not provided

Germline classification:
Uncertain significance (2 submissions)
Last evaluated:
Jan 5, 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:
RCV001508257.7

Allele description [Variation Report for NM_001363118.2(SLC52A2):c.13A>T (p.Thr5Ser)]

NM_001363118.2(SLC52A2):c.13A>T (p.Thr5Ser)

Gene:
SLC52A2:solute carrier family 52 member 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
8q24.3
Genomic location:
Preferred name:
NM_001363118.2(SLC52A2):c.13A>T (p.Thr5Ser)
HGVS:
  • NC_000008.11:g.144359306A>T
  • NG_032872.2:g.5750A>T
  • NM_001253815.2:c.13A>T
  • NM_001253816.2:c.13A>T
  • NM_001363118.2:c.13A>TMANE SELECT
  • NM_001363120.2:c.13A>T
  • NM_001363121.2:c.13A>T
  • NM_001363122.2:c.13A>T
  • NM_024531.5:c.13A>T
  • NP_001240744.1:p.Thr5Ser
  • NP_001240745.1:p.Thr5Ser
  • NP_001350047.1:p.Thr5Ser
  • NP_001350049.1:p.Thr5Ser
  • NP_001350050.1:p.Thr5Ser
  • NP_001350051.1:p.Thr5Ser
  • NP_078807.1:p.Thr5Ser
  • NC_000008.10:g.145582966A>T
  • NG_032872.1:g.5750A>T
  • NM_024531.3:c.13A>T
  • NM_024531.4:c.13A>T
  • NR_045600.2:n.576A>T
  • p.Thr5Ser
Protein change:
T5S
Links:
dbSNP: rs781993535
NCBI 1000 Genomes Browser:
rs781993535
Molecular consequence:
  • NM_001253815.2:c.13A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001253816.2:c.13A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001363118.2:c.13A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001363120.2:c.13A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001363121.2:c.13A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001363122.2:c.13A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_024531.5:c.13A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NR_045600.2:n.576A>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
Observations:
1

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV001714296Mayo Clinic Laboratories, Mayo Clinic
criteria provided, single submitter

(ACMG Guidelines, 2015)		Uncertain significance
(Nov 11, 2019) 		germlineclinical testing

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

SCV002546957GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)		Uncertain significance
(Jan 5, 2022) 		germlineclinical testing

Citation Link

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlineunknown1not providednot providednot providednot providedclinical testing

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 Mayo Clinic Laboratories, Mayo Clinic, SCV001714296.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot provided1not providednot providednot provided

From GeneDx, SCV002546957.2

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

Description

In silico analysis supports that this missense variant does not alter protein structure/function; Has not been previously published as pathogenic or benign to our knowledge

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

Last Updated: Sep 29, 2024