IGF1R

protein-coding

insulin like growth factor 1 receptor, the group of Fibronectin type III domain containing|MicroRNA protein coding host genes|CD molecules|Receptor tyrosine kinases

Gene summary

This receptor binds insulin-like growth factor with a high affinity. It has tyrosine kinase activity. The insulin-like growth factor I receptor plays a critical role in transformation events. Cleavage of the precursor generates alpha and beta subunits. It is highly overexpressed in most malignant tissues where it functions as an anti-apoptotic agent by enhancing cell survival. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. [provided by RefSeq, May 2014]

MANE transcript

NM_000875.5

Inheritance

AD, AR, SD

ClinVar variants

P:94U:574B:301

Top phenotype

Insulin-like growth factor I, resistance to

gnomAD constraint

pLI —, LoF o/e 0.19

Max pathogenic AF

—

Genomic locus

chr15:98,648,539-98,964,530

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~316.0 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

growth delay due to insulin-like growth factor I resistanceSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0010038

Submitter: Labcorp Genetics (formerly Invitae)

growth delay due to insulin-like growth factor I resistanceDEFINITIVE

Inheritance Pattern: AR

Disease ID:MONDO:0010038

Submitter: G2P

growth delay due to insulin-like growth factor I resistanceSTRONG

Inheritance Pattern: SD

Disease ID:MONDO:0010038

Submitter: PanelApp Australia

growth delay due to insulin-like growth factor I resistanceSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0010038

Submitter: Orphanet

growth delay due to insulin-like growth factor I resistanceSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0010038

Submitter: Labcorp Genetics (formerly Invitae)

growth delay due to insulin-like growth factor I resistanceDEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0010038

Submitter: G2P

Clinical Genomic Database (CGD)

Insulin-like growth factor I, resistance toAD/AR

Manifestation: Endocrine

Intervention: Endocrine

Rationale: Individuals may manifest with severe growth deficiency, and growth hormone therapy (starting at a relatively early age) can be beneficial

Comments: Bi-allelic variants have been described as resulting in a more severe phenotype

Refs: 14657428; 22998174; 22130793; 23045302Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to IGF1R variants in ClinVar

16 Conditions Cataloged
not providedTotal: 846
Growth delay due to insulin-like growth factor I resistanceTotal: 219
not specifiedTotal: 135
Inborn genetic diseasesTotal: 96
IGF1R-related disorderTotal: 87
Monogenic short statueTotal: 6
Neurodevelopmental disorderTotal: 4
Intellectual disabilityTotal: 3

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_000875.5. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
1
clinvar
17
clinvar
267
clinvar
11
clinvar
296
missense
3
clinvar
25
clinvar
539
clinvar
21
clinvar
2
clinvar
590
nonsense
14
clinvar
11
clinvar
6
clinvar
31
start loss
1
clinvar
1
frameshift
15
clinvar
12
clinvar
7
clinvar
34
splice donor/acceptor (+/-2bp)
3
clinvar
9
clinvar
5
clinvar
17
Total365857428813969

Highest pathogenic variant AF is 0.000007436308

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 14 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_000875.5RefSeqNP_000866.121MANE Select
ENST00000650285.1EnsemblENSP00000497069.121MANE Select
NM_001291858.2RefSeqNP_001278787.121Standard
ENST00000558355.1EnsemblENSP00000453630.12Standard

Model Organisms & Knockout Phenotypes

Observed phenotypic effects in mouse and zebrafish models

Gene / ModelOrganismObserved Phenotype
igf1rbDanio rerio

Structure: retinal ganglion cell

Quality: absent

abnormal

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • PI3K-Akt signaling pathway - Homo sapiens (human)
  • Focal adhesion - Homo sapiens (human)
  • mTOR signaling pathway - Homo sapiens (human)
  • Adherens junction - Homo sapiens (human)
  • Melanoma - Homo sapiens (human)

Biological Process

  • immune response
  • signal transduction
  • transmembrane receptor protein tyrosine kinase signaling pathway
  • positive regulation of cell population proliferation
  • insulin receptor signaling pathway

Molecular Function

  • protein tyrosine kinase activity
  • transmembrane receptor protein tyrosine kinase activity
  • insulin-activated receptor activity
  • insulin-like growth factor-activated receptor activity
  • insulin receptor binding

Cellular Component

  • plasma membrane
  • integral component of plasma membrane
  • insulin receptor complex
  • membrane
  • axon

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000268035
Coding exons
21
Length
315560
Individuals with no LoFs
125715
Homozygous LoFs
0
Heterozygous LoFs
33
Defined
125748
p
0.000131
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense2.736098300.7340.00005709025
Missense (PolyPhen)130332.690.390753823
Synonymous-2.083993501.140.00002722638
Loss of Function5.991263.60.1890.00000343738

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000310.00031rare
Latino/Admixed American0.0000880.000087rare
Ashkenazi Jewish00.0absent
East Asian0.000160.00016rare
Finnish0.000190.00018rare
European (Non-Finnish)0.000120.00011rare
South Asian0.000160.00016rare
Other0.000160.00016rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Receptor tyrosine kinase which mediates actions of insulin-like growth factor 1 (IGF1). Binds IGF1 with high affinity and IGF2 and insulin (INS) with a lower affinity. The activated IGF1R is involved in cell growth and survival control. IGF1R is crucial for tumor transformation and survival of malignant cell. Ligand binding activates the receptor kinase, leading to receptor autophosphorylation, and tyrosines phosphorylation of multiple substrates, that function as signaling adapter proteins including, the insulin-receptor substrates (IRS1/2), Shc and 14-3-3 proteins. Phosphorylation of IRSs proteins lead to the activation of two main signaling pathways: the PI3K-AKT/PKB pathway and the Ras-MAPK pathway. The result of activating the MAPK pathway is increased cellular proliferation, whereas activating the PI3K pathway inhibits apoptosis and stimulates protein synthesis. Phosphorylated IRS1 can activate the 85 kDa regulatory subunit of PI3K (PIK3R1), leading to activation of several downstream substrates, including protein AKT/PKB. AKT phosphorylation, in turn, enhances protein synthesis through mTOR activation and triggers the antiapoptotic effects of IGFIR through phosphorylation and inactivation of BAD. In parallel to PI3K- driven signaling, recruitment of Grb2/SOS by phosphorylated IRS1 or Shc leads to recruitment of Ras and activation of the ras-MAPK pathway. In addition to these two main signaling pathways IGF1R signals also through the Janus kinase/signal transducer and activator of transcription pathway (JAK/STAT). Phosphorylation of JAK proteins can lead to phosphorylation/activation of signal transducers and activators of transcription (STAT) proteins. In particular activation of STAT3, may be essential for the transforming activity of IGF1R. The JAK/STAT pathway activates gene transcription and may be responsible for the transforming activity. JNK kinases can also be activated by the IGF1R. IGF1 exerts inhibiting activities on JNK activation via phosphorylation and inhibition of MAP3K5/ASK1, which is able to directly associate with the IGF1R.;
Disease
DISEASE: Insulin-like growth factor 1 resistance (IGF1RES) [MIM:270450]: A disorder characterized by intrauterine growth retardation, poor postnatal growth and increased plasma IGF1 levels. {ECO:0000269|PubMed:14657428, ECO:0000269|PubMed:15928254, ECO:0000269|PubMed:25040157}. Note=The disease is caused by mutations affecting the gene represented in this entry.;

Recessive Scores

pRec
0.862

Intolerance Scores

LoFtool
0.107
RVIS EVS
-1.72
RVIS percentile EVS
2.49

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
S
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.998

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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