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NM_000211.5(ITGB2):c.2077C>T (p.Arg693Ter) AND Leukocyte adhesion deficiency 1

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Oct 27, 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:
RCV001198593.2

Allele description [Variation Report for NM_000211.5(ITGB2):c.2077C>T (p.Arg693Ter)]

NM_000211.5(ITGB2):c.2077C>T (p.Arg693Ter)

Gene:
ITGB2:integrin subunit beta 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
21q22.3
Genomic location:
Preferred name:
NM_000211.5(ITGB2):c.2077C>T (p.Arg693Ter)
HGVS:
  • NC_000021.9:g.44888696G>A
  • NG_007270.2:g.45143C>T
  • NM_000211.5:c.2077C>TMANE SELECT
  • NM_001127491.3:c.2077C>T
  • NM_001303238.2:c.1870C>T
  • NP_000202.3:p.Arg693Ter
  • NP_001120963.2:p.Arg693Ter
  • NP_001290167.1:p.Arg624Ter
  • LRG_76t1:c.2077C>T
  • LRG_76:g.45143C>T
  • NC_000021.8:g.46308611G>A
  • NM_000211.3:c.2077C>T
Protein change:
R624*
Links:
dbSNP: rs2083734400
NCBI 1000 Genomes Browser:
rs2083734400
Molecular consequence:
  • NM_000211.5:c.2077C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_001127491.3:c.2077C>T - nonsense - [Sequence Ontology: SO:0001587]
  • NM_001303238.2:c.1870C>T - nonsense - [Sequence Ontology: SO:0001587]

Condition(s)

Name:
Leukocyte adhesion deficiency 1 (LAD1)
Synonyms:
LEUKOCYTE ADHESION DEFICIENCY, TYPE I; LAD 1; Lymphocyte function-associated antigen 1 immunodeficiency; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0007293; MedGen: C0398738; Orphanet: 2968; Orphanet: 99842; OMIM: 116920

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV001369583Centre for Mendelian Genomics, University Medical Centre Ljubljana
criteria provided, single submitter

(ACMG Guidelines, 2015)		Likely pathogenic
(Oct 27, 2019) 		unknownclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedunknownyesnot 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 Centre for Mendelian Genomics, University Medical Centre Ljubljana, SCV001369583.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

This variant was classified as: Likely pathogenic. The following ACMG criteria were applied in classifying this variant: PVS1,PM2.

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

Last Updated: Aug 5, 2023