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NM_000875.5(IGF1R):c.361G>A (p.Glu121Lys) AND Growth delay due to insulin-like growth factor I resistance

Germline classification:
Likely pathogenic (2 submissions)
Last evaluated:
Feb 23, 2023
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:
RCV000516173.3

Allele description [Variation Report for NM_000875.5(IGF1R):c.361G>A (p.Glu121Lys)]

NM_000875.5(IGF1R):c.361G>A (p.Glu121Lys)

Gene:
IGF1R:insulin like growth factor 1 receptor [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
15q26.3
Genomic location:
Preferred name:
NM_000875.5(IGF1R):c.361G>A (p.Glu121Lys)
HGVS:
  • NC_000015.10:g.98707828G>A
  • NG_009492.1:g.63297G>A
  • NM_000875.5:c.361G>AMANE SELECT
  • NM_001291858.2:c.361G>A
  • NP_000866.1:p.Glu121Lys
  • NP_001278787.1:p.Glu121Lys
  • LRG_1055t1:c.361G>A
  • LRG_1055t2:c.361G>A
  • LRG_1055:g.63297G>A
  • LRG_1055p1:p.Glu121Lys
  • LRG_1055p2:p.Glu121Lys
  • NC_000015.9:g.99251057G>A
  • NM_000875.4:c.361G>A
Protein change:
E121K; GLU121LYS
Links:
OMIM: 147370.0006; dbSNP: rs1555434208
NCBI 1000 Genomes Browser:
rs1555434208
Molecular consequence:
  • NM_000875.5:c.361G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001291858.2:c.361G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Growth delay due to insulin-like growth factor I resistance
Synonyms:
Insulin-like growth factor 1 resistance to; Somatomedin end-organ insensitivity to; Somatomedin-c resistance to; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0010038; MedGen: C1849157; Orphanet: 73273; OMIM: 270450

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000612185OMIM
no assertion criteria provided
protective
(Dec 12, 2017)
germlineliterature only

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

SCV0038418873billion, Medical Genetics
criteria provided, single submitter

(ACMG Guidelines, 2015)
Likely pathogenic
(Feb 23, 2023)
unknownclinical testing

PubMed (2)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only
not providedunknownyesnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Severe short stature caused by novel compound heterozygous mutations of the insulin-like growth factor 1 receptor (IGF1R).

Fang P, Cho YH, Derr MA, Rosenfeld RG, Hwa V, Cowell CT.

J Clin Endocrinol Metab. 2012 Feb;97(2):E243-7. doi: 10.1210/jc.2011-2142. Epub 2011 Nov 30.

PubMed [citation]
PMID:
22130793

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 OMIM, SCV000612185.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (1)

Description

In a Lebanese brother and sister with intrauterine growth retardation, short stature, microcephaly, dysmorphic facial features, mild developmental delay, and elevated IGF1 levels (IGF1RES; 270450), Fang et al. (2012) identified compound heterozygosity for missense mutations in the IGF1R gene: a c.361G-A transition in exon 2, resulting in a glu121-to-lys (E121K) substitution, and a c.700G-A transition in exon 3, resulting in a glu234-to-lys (E234K; 147370.0007) substitution. Their unaffected consanguineous parents were each heterozygous for 1 of the mutations. Analysis of patient fibroblasts showed an 80% reduction in processed alpha and beta subunits compared to controls; in contrast, IGF1R precursor and alpha and beta subunits in the fibroblasts of their mother, who was heterozygous for E121K, were indistinguishable from controls. In transfected HEK293 cells, ERK activation was significantly reduced with the E121K mutant compared to wildtype, and ERK activation was comparable to vector with the E234K mutant. Consistent with these findings, patient fibroblasts responded poorly to IGF1 stimulation, showing an 85% reduction in AKT activation compared to control fibroblasts. The brother developed insulin-requiring diabetes mellitus in adolescence (see 222100), whereas the sister died at age 5 years from Burkitt lymphoma (see 113970).

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

From 3billion, Medical Genetics, SCV003841887.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (2)

Description

The variant is not observed in the gnomAD v2.1.1 dataset. Functional studies provide strong evidence of the variant having a damaging effect on the gene or gene product (PMID: 22130793). In silico tool predictions suggest damaging effect of the variant on gene or gene product (REVEL: 0.86). Same nucleotide change resulting in same amino acid change has been previously reported to be associated with IGF1R related disorder . Therefore, this variant is classified as Likely pathogenic according to the recommendation of ACMG/AMP guideline.

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

Last Updated: Feb 25, 2025