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NM_001031803.2(LLGL2):c.3000C>T (p.Ser1000=) AND not specified

Germline classification:
Likely benign (1 submission)
Last evaluated:
Jan 9, 2024
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:
RCV004407524.1

Allele description [Variation Report for NM_001031803.2(LLGL2):c.3000C>T (p.Ser1000=)]

NM_001031803.2(LLGL2):c.3000C>T (p.Ser1000=)

Gene:
LLGL2:LLGL scribble cell polarity complex component 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
17q25.1
Genomic location:
Preferred name:
NM_001031803.2(LLGL2):c.3000C>T (p.Ser1000=)
HGVS:
  • NC_000017.11:g.75574613C>T
  • NM_001031803.2:c.3000C>TMANE SELECT
  • NM_004524.3:c.2957C>T
  • NP_001026973.1:p.Ser1000=
  • NP_004515.2:p.Ala986Val
  • NC_000017.10:g.73570694C>T
  • NM_001031803.1:c.3000C>T
Protein change:
A986V
Molecular consequence:
  • NM_004524.3:c.2957C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001031803.2:c.3000C>T - synonymous variant - [Sequence Ontology: SO:0001819]

Condition(s)

Synonyms:
AllHighlyPenetrant
Identifiers:
MedGen: CN169374

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004897742Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Likely benign
(Jan 9, 2024) 		germlineclinical testing

Citation Link

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Summary from all submissions

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

Details of each submission

From Ambry Genetics, SCV004897742.1

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

Description

This alteration is classified as likely benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity.

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

Last Updated: May 7, 2024