AGTR2

protein-coding

angiotensin II receptor type 2, the group of Angiotensin receptors

Gene summary

The protein encoded by this gene belongs to the G-protein coupled receptor 1 family, and functions as a receptor for angiotensin II. It is an intergral membrane protein that is highly expressed in fetus and in neonates, but scantily in adult tissues, except brain, adrenal medulla, and atretic ovary. This receptor has been shown to mediate programmed cell death and this apoptotic function may play an important role in developmental biology and pathophysiology. Mutations in this gene are been associated with X-linked cognitive disability. Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV) and SARS-CoV-2 infection results in down-regulation of angiotensin converting enzyme-2 (ACE2) receptors, the effects of which, triggers serious inflammatory lesions in the tissues involved, primarily in the lungs. The inflammatory reaction appears to be mediated by angiotensin II derivatives, including the angiotensin AT2 receptor which has been found to be upregulated in bronchoalveolar lavage samples from Coronavirus disease 2019 (COVID19) patients. [provided by RefSeq, Jul 2020]

MANE transcript

NM_000686.5

Inheritance

XL

ClinVar variants

U:54B:17

Top phenotype

Mental retardation, X-linked 88

gnomAD constraint

pLI —, LoF o/e 0.58

Max pathogenic AF

—

Genomic locus

chrX:116,170,744-116,174,974

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~4.2 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

non-syndromic X-linked intellectual disabilitySUPPORTIVE

Inheritance Pattern: XL

Disease ID:MONDO:0019181

Submitter: Orphanet

X-linked complex neurodevelopmental disorderLIMITED

Inheritance Pattern: XL

Disease ID:MONDO:0100148

Submitter: PanelApp Australia

X-linked complex neurodevelopmental disorderNO_KNOWN

Inheritance Pattern: XL

Disease ID:MONDO:0100148

Submitter: ClinGen

Variants in *AGTR2* have been reported in individuals presenting various neurodevelopmental phenotypes, including intellectual disability, autistic features, epileptic seizures, speech delay, restlessness, and hyperactivity, as early as 2002. Per criteria outlined by the ClinGen Lumping and Splitting guidelines, we found no difference in molecular mechanism, inheritance pattern, or phenotypic variability. Therefore, for the purposes of this curation, all of these features have been lumped into one disease entity, X-linked complex neurodevelopmental disorder. Although eight unique variants, including missense and truncating, have been reported in affected humans, the majority (six) have been ruled out from disease-causality based on high frequency in control populations (Piton et al., PMID 23871722), occurrence in unaffected males (Erdmann et al., PMID 14722754), non-segregation within a family (Bienvenu et al., PMID 12746399), and lack of enrichment in patients in a case-control study (Huang et al., PMID 16283672). Given that the two remaining variants are missense with no supporting functional evidence, and *AGTR2* was the only gene sequenced in each case, these variants were awarded 0 points. There are two *Agtr2* mouse models which collectively show altered neuronal spine morphology, spatial memory impairment, delayed learning, and reduced exploratory behavior (PMIDs: 18335189, 7477267). However, due to the scarcity of plausible reports of disease-causing variants in humans, the experimental evidence was not scored. In summary, the evidence supporting the relationship between *AGTR2* and X-linked complex neurodevelopmental disorder has been disputed and no valid evidence remains to support the claim. More evidence is needed to either support or entirely refute the role *AGTR2* plays in this disease. This classification was approved by the ClinGen Intellectual Disability and Autism Gene Curation Expert Panel on June 2, 2020 (SOP Version 7).

Clinical Genomic Database (CGD)

Mental retardation, X-linked 88XL

Manifestation: Neurologic

Intervention: General

Rationale: Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing

Comments: The evidence of variants as related to disease causation has been questioned due to subsequent population-based studies

Refs: 12089445; 12746399; 14598163; 14722754; 16463274; 22269148; 23871722Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to AGTR2 variants in ClinVar

4 Conditions Cataloged
not specifiedTotal: 41
not providedTotal: 31
AGTR2-related disorderTotal: 6
Intellectual disability, X-linked 88Total: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_000686.5. 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
4
clinvar
3
clinvar
7
missense
49
clinvar
7
clinvar
2
clinvar
58
nonsense
2
clinvar
2
start loss
0
frameshift
3
clinvar
1
clinvar
4
splice donor/acceptor (+/-2bp)
0
Total005412571
Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 7 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_000686.5RefSeqNP_000677.21MANE Select
ENST00000371906.5EnsemblENSP00000360973.41MANE Select
NM_001385624.1RefSeqNP_001372553.11Standard
ENST00000681852.1EnsemblENSP00000505750.11Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Agents Acting on the Renin-Angiotensin System Pathway, Pharmacodynamics
  • Renin-angiotensin system - Homo sapiens (human)
  • Adrenergic signaling in cardiomyocytes - Homo sapiens (human)
  • Neuroactive ligand-receptor interaction - Homo sapiens (human)
  • ACE Inhibitor Pathway, Pharmacodynamics

Biological Process

  • blood vessel remodeling
  • regulation of systemic arterial blood pressure by circulatory renin-angiotensin
  • renin-angiotensin regulation of aldosterone production
  • angiotensin-mediated vasodilation involved in regulation of systemic arterial blood pressure
  • brain renin-angiotensin system

Molecular Function

  • angiotensin type II receptor activity
  • protein binding
  • transcription factor binding
  • peptide hormone binding
  • receptor antagonist activity

Cellular Component

  • extracellular region
  • plasma membrane
  • integral component of plasma membrane
  • perinuclear region of cytoplasm

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000371906
Coding exons
1
Length
4251
Individuals with no LoFs
125444
Homozygous LoFs
72
Heterozygous LoFs
138
Defined
125654
p
0.000836
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense-0.07231391371.020.00001012386
Missense (PolyPhen)5042.991.163826
Synonymous-0.2875249.41.050.00000371722
Loss of Function1.0346.930.5774.96e-7129

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000530.00043rare
Latino/Admixed American0.000330.00026rare
Ashkenazi Jewish0.000130.000099rare
East Asian0.00320.0024notable
Finnish0.000130.000092rare
European (Non-Finnish)0.00170.0012notable
South Asian0.000470.00029rare
Other0.000440.00033rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Receptor for angiotensin II. Cooperates with MTUS1 to inhibit ERK2 activation and cell proliferation. {ECO:0000269|PubMed:15123706}.;

Recessive Scores

pRec
0.425

Intolerance Scores

LoFtool
0.659
RVIS EVS
0.31
RVIS percentile EVS
72.23

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.659

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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