NM_025137.4(SPG11):c.5564T>C (p.Leu1855Ser) AND Inborn genetic diseases

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: May 4, 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:: RCV002343899.2

Allele description [Variation Report for NM_025137.4(SPG11):c.5564T>C (p.Leu1855Ser)]

NM_025137.4(SPG11):c.5564T>C (p.Leu1855Ser)

Gene:

SPG11:SPG11 vesicle trafficking associated, spatacsin [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

15q21.1

Genomic location:

Preferred name:

NM_025137.4(SPG11):c.5564T>C (p.Leu1855Ser)

HGVS:

NC_000015.10:g.44584116A>G
NG_008885.1:g.84563T>C
NM_001160227.2:c.5564T>C
NM_025137.4:c.5564T>CMANE SELECT
NP_001153699.1:p.Leu1855Ser
NP_079413.3:p.Leu1855Ser
NC_000015.9:g.44876314A>G
NM_025137.3:c.5564T>C

Protein change:

L1855S

Links:

dbSNP: rs138009927

NCBI 1000 Genomes Browser:

rs138009927

Molecular consequence:

NM_001160227.2:c.5564T>C - missense variant - [Sequence Ontology: SO:0001583]
NM_025137.4:c.5564T>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Inborn genetic diseases
Identifiers:: MeSH: D030342; MedGen: C0950123

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002650890	Ambry Genetics	criteria provided, single submitter (Ambry Variant Classification Scheme 2023)	Uncertain significance (May 4, 2021)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV002650890

Ambry Genetics

criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)

Uncertain significance
(May 4, 2021)

germline

clinical testing

Citation Link

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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

Details of each submission

From Ambry Genetics, SCV002650890.2

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

Description

The p.L1855S variant (also known as c.5564T>C), located in coding exon 30 of the SPG11 gene, results from a T to C substitution at nucleotide position 5564. The leucine at codon 1855 is replaced by serine, an amino acid with dissimilar properties. This amino acid position is highly conserved in available vertebrate species. In addition, this alteration is predicted to be deleterious by in silico analysis. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.

#	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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