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NM_206937.2(LIG4):c.1798G>A (p.Glu600Lys) AND not specified

Germline classification:
Benign (2 submissions)
Last evaluated:
Oct 29, 2015
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:
RCV000194927.8

Allele description [Variation Report for NM_206937.2(LIG4):c.1798G>A (p.Glu600Lys)]

NM_206937.2(LIG4):c.1798G>A (p.Glu600Lys)

Gene:
LIG4:DNA ligase 4 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
13q33.3
Genomic location:
Preferred name:
NM_206937.2(LIG4):c.1798G>A (p.Glu600Lys)
HGVS:
  • NC_000013.11:g.108209471C>T
  • NG_007396.1:g.11064G>A
  • NM_001098268.2:c.1798G>A
  • NM_001330595.2:c.1597G>A
  • NM_001352598.2:c.1798G>A
  • NM_001352599.2:c.1798G>A
  • NM_001352600.2:c.1798G>A
  • NM_001352601.2:c.1798G>A
  • NM_001352602.2:c.1798G>A
  • NM_001352603.1:c.1798G>A
  • NM_001352604.2:c.1834G>A
  • NM_001379095.1:c.1798G>A
  • NM_002312.3:c.1798G>A
  • NM_206937.2:c.1798G>AMANE SELECT
  • NP_001091738.1:p.Glu600Lys
  • NP_001317524.1:p.Glu533Lys
  • NP_001339527.1:p.Glu600Lys
  • NP_001339528.1:p.Glu600Lys
  • NP_001339529.1:p.Glu600Lys
  • NP_001339530.1:p.Glu600Lys
  • NP_001339531.1:p.Glu600Lys
  • NP_001339532.1:p.Glu600Lys
  • NP_001339533.1:p.Glu612Lys
  • NP_001366024.1:p.Glu600Lys
  • NP_002303.2:p.Glu600Lys
  • NP_996820.1:p.Glu600Lys
  • LRG_79t1:c.1798G>A
  • LRG_79:g.11064G>A
  • LRG_79p1:p.Glu600Lys
  • NC_000013.10:g.108861819C>T
  • NM_206937.1:c.1798G>A
Protein change:
E533K
Links:
dbSNP: rs61731910
NCBI 1000 Genomes Browser:
rs61731910
Molecular consequence:
  • NM_001098268.2:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001330595.2:c.1597G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001352598.2:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001352599.2:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001352600.2:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001352601.2:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001352602.2:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001352603.1:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001352604.2:c.1834G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001379095.1:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_002312.3:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_206937.2:c.1798G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Synonyms:
AllHighlyPenetrant
Identifiers:
MedGen: CN169374

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV000247837Genetic Services Laboratory, University of Chicago
criteria provided, single submitter

(ACMG Guidelines, 2015)		Benign
(Oct 29, 2015) 		germlineclinical testing

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

SCV000513484GeneDx
criteria provided, single submitter

(GeneDx Variant Classification (06012015))		Benign
(Aug 28, 2015) 		germlineclinical testing

Citation Link

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenonot providednot providednot providednot providednot providedclinical testing
not providedgermlineyesnot providednot 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 Genetic Services Laboratory, University of Chicago, SCV000247837.2

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

From GeneDx, SCV000513484.4

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

Description

This variant is considered likely benign or benign based on one or more of the following criteria: it is a conservative change, it occurs at a poorly conserved position in the protein, it is predicted to be benign by multiple in silico algorithms, and/or has population frequency not consistent with disease.

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

Last Updated: Sep 29, 2024