GNAS

protein-coding

GNAS complex locus, the group of Granins|G protein subunits alpha, group s

Gene summary

This locus has a highly complex imprinted expression pattern. It gives rise to maternally, paternally, and biallelically expressed transcripts that are derived from four alternative promoters and 5' exons. Some transcripts contain a differentially methylated region (DMR) at their 5' exons, and this DMR is commonly found in imprinted genes and correlates with transcript expression. An antisense transcript is produced from an overlapping locus on the opposite strand. One of the transcripts produced from this locus, and the antisense transcript, are paternally expressed noncoding RNAs, and may regulate imprinting in this region. In addition, one of the transcripts contains a second overlapping ORF, which encodes a structurally unrelated protein - Alex. Alternative splicing of downstream exons is also observed, which results in different forms of the stimulatory G-protein alpha subunit, a key element of the classical signal transduction pathway linking receptor-ligand interactions with the activation of adenylyl cyclase and a variety of cellular reponses. Multiple transcript variants encoding different isoforms have been found for this gene. Mutations in this gene result in pseudohypoparathyroidism type 1a, pseudohypoparathyroidism type 1b, Albright hereditary osteodystrophy, pseudopseudohypoparathyroidism, McCune-Albright syndrome, progressive osseus heteroplasia, polyostotic fibrous dysplasia of bone, and some pituitary tumors. [provided by RefSeq, Aug 2012]

Previous symbols:
  • GNAS1

MANE transcript

NM_000516.7

Inheritance

AD

ClinVar variants

P:253U:223B:135

Top phenotype

Pseudohypoparathyroidism, type IA; Pseudohypoparathyroidism, type IB; Pseudohypoparathyroidism, type IC; Progressive osseous heteroplasia; McCune-Albright syndrome

gnomAD constraint

pLI —, LoF o/e 0.21

Max pathogenic AF

—

Genomic locus

chr20:58,839,718-58,911,192

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~71.5 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

pseudohypoparathyroidism type 1BSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0011301

Submitter: Genomics England PanelApp

McCune-Albright syndromeSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0018919

Submitter: Labcorp Genetics (formerly Invitae)

pseudohypoparathyroidism type 1BSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0011301

Submitter: Orphanet

McCune-Albright syndromeSUPPORTIVE

Inheritance Pattern: Unknown

Disease ID:MONDO:0018919

Submitter: Orphanet

progressive osseous heteroplasiaNO_KNOWN

Inheritance Pattern: AD

Disease ID:MONDO:0008153

Submitter: Ambry Genetics

pseudohypoparathyroidism type 1CSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0012911

Submitter: Genomics England PanelApp

pseudohypoparathyroidism type 1CSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0012911

Submitter: Orphanet

pseudohypoparathyroidism type 1ASUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0007078

Submitter: Orphanet

pseudohypoparathyroidism type 1ASTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0007078

Submitter: Labcorp Genetics (formerly Invitae)

pseudopseudohypoparathyroidismSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0012912

Submitter: Orphanet

progressive osseous heteroplasiaSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0008153

Submitter: Orphanet

progressive osseous heteroplasiaSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0008153

Submitter: Labcorp Genetics (formerly Invitae)

pseudopseudohypoparathyroidismSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0012912

Submitter: Labcorp Genetics (formerly Invitae)

pseudohypoparathyroidism type 1ADEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0007078

Submitter: Ambry Genetics

pseudohypoparathyroidism type 1ASTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0007078

Submitter: Genomics England PanelApp

McCune-Albright syndromeDEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0018919

Submitter: G2P

disorder of GNAS inactivationSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0800466

Submitter: PanelApp Australia

pseudohypoparathyroidismDEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0019992

Submitter: G2P

pseudopseudohypoparathyroidismMODERATE

Inheritance Pattern: AD

Disease ID:MONDO:0012912

Submitter: Ambry Genetics

progressive osseous heteroplasiaDEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0008153

Submitter: G2P

McCune-Albright syndromeSTRONG

Inheritance Pattern: Unknown

Disease ID:MONDO:0018919

Submitter: Ambry Genetics

Clinical Genomic Database (CGD)

Pseudohypoparathyroidism, type IA; Pseudohypoparathyroidism, type IB; Pseudohypoparathyroidism, type IC; Progressive osseous heteroplasia; McCune-Albright syndromeAD

Manifestation: Dermatologic; Endocrine; Musculoskeletal; Oncologic; Renal

Intervention: Endocrine; Oncologic; Renal

Rationale: In Pseudohypoparathyroidism, medical treatment (eg, with calcium and vitamin D therapy) of electrolyte abnormalities and related complications such as osteitis fibrosa cystica can be effective, and complications; Surveillance and early treatment of endocrinological manifestations (eg, hypothyroidism, hypogonadism) can be beneficial; In McCune-Albright syndrome, medical (eg, related to estrogen production, hyperthyroidism, growth hormone production) and surgical (eg, to treat adrenal pathology, hyperthyroidism) treatment of endocrinopathies may be beneficial, and surveillance and early and specific treatment for manifestations such as a number of types of neoplasms, including GH-producing tumors (eg, with long-acting octreotide, GHR antagonists) can be beneficial, as well as surveillance for and treatment of Cushing syndrome (some patients require adrenalectomy)

Comments: Mosaic variants have been described; PPHP occurs with paternal inheritance

Refs: 13005676; 5906056; 1083395; 198661; 219790; 431133; 6265935; 3126297; 2829196; 2273209; 2109828; 3093862; 2122458; 1955519; 1944469; 1400888; 1621772; 1424186; 1594625; 1346061; 8421479; 7980957; 8126048; 8126161; 7739708; 7671486; 9226216; 9506752; 0614538; 10356155; 10190480; 11073544; 10646121; 11067869; 11095461; 10998448; 11600516; 11406605; 11297617; 11583302; 11397863; 11029463; 12414879; 12024004; 12407707; 11788646; 11784876; 14561710; 12605446; 12727968; 12858292; 14557424; 12624854; 15001590; 15126527; 15711092; 16060910; 15537666; 16984995; 17405850; 17651445; 18553568; 18416659; 18397987; 20480732; 19858129; 21816789; 21488135; 21357941; 22640971Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to GNAS variants in ClinVar

37 Conditions Cataloged
not providedTotal: 524
GNAS-related disorderTotal: 265
Pseudohypoparathyroidism type I ATotal: 117
PseudopseudohypoparathyroidismTotal: 83
Pseudohypoparathyroidism type 1BTotal: 68
McCune-Albright syndromeTotal: 67
Pseudohypoparathyroidism type 1CTotal: 66
Progressive osseous heteroplasiaTotal: 63

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_000516.7. 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
11
clinvar
134
clinvar
1
clinvar
146
missense
29
clinvar
70
clinvar
200
clinvar
299
nonsense
28
clinvar
5
clinvar
33
start loss
6
clinvar
4
clinvar
10
frameshift
47
clinvar
21
clinvar
1
clinvar
69
splice donor/acceptor (+/-2bp)
26
clinvar
17
clinvar
11
clinvar
54
Total1361172231341611

Highest pathogenic variant AF is 0.000024797006

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 97 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_000516.7RefSeqNP_000507.113MANE Select
ENST00000371085.8EnsemblENSP00000360126.313MANE Select
NM_001077488.5RefSeqNP_001070956.113Standard
NM_001077489.4RefSeqNP_001070957.112Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Inflammatory mediator regulation of TRP channels - Homo sapiens (human)
  • Platelet activation - Homo sapiens (human)
  • Cortisol synthesis and secretion - Homo sapiens (human)
  • Relaxin signaling pathway - Homo sapiens (human)
  • Aldosterone synthesis and secretion - Homo sapiens (human)

Biological Process

  • tissue homeostasis
  • endochondral ossification
  • energy reserve metabolic process
  • DNA methylation
  • adenylate cyclase-modulating G protein-coupled receptor signaling pathway

Molecular Function

  • G protein-coupled receptor binding
  • GTPase activity
  • insulin-like growth factor receptor binding
  • protein binding
  • GTP binding

Cellular Component

  • cytosol
  • heterotrimeric G-protein complex
  • membrane
  • apical plasma membrane
  • dendrite

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000371100
Coding exons
13
Length
71475
Individuals with no LoFs
124575
Homozygous LoFs
1
Heterozygous LoFs
38
Defined
124614
p
0.000157
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense2.654606510.7070.00004366674
Missense (PolyPhen)42196.770.213452112
Synonymous-0.1742752711.010.00002112131
Loss of Function4.59838.90.2060.00000209426

Population LoF Frequency

PopulationCAFp-valueStatus
African0.0000670.000065rare
Latino/Admixed American0.0000910.000058rare
Ashkenazi Jewish00.0absent
East Asian0.000220.00022rare
Finnish00.0absent
European (Non-Finnish)0.000260.00024rare
South Asian0.000170.00013rare
Other0.000170.00017rare

dbNSFP Gene Annotations

Source: dbNSFP

Disease
DISEASE: ACTH-independent macronodular adrenal hyperplasia 1 (AIMAH1) [MIM:219080]: A rare adrenal defect characterized by multiple, bilateral, non-pigmented, benign, adrenocortical nodules. It results in excessive production of cortisol leading to ACTH-independent Cushing syndrome. Clinical manifestations of Cushing syndrome include facial and truncal obesity, abdominal striae, muscular weakness, osteoporosis, arterial hypertension, diabetes. {ECO:0000269|PubMed:12727968}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Pseudohypoparathyroidism 1B (PHP1B) [MIM:603233]: A disorder characterized by end-organ resistance to parathyroid hormone, hypocalcemia and hyperphosphatemia. Patients affected with PHP1B lack developmental defects characteristic of Albright hereditary osteodystrophy, and typically show no other endocrine abnormalities besides resistance to PTH. {ECO:0000269|PubMed:11029463, ECO:0000269|PubMed:11067869, ECO:0000269|PubMed:11294659, ECO:0000269|PubMed:12858292, ECO:0000269|PubMed:14561710, ECO:0000269|PubMed:15592469, ECO:0000269|PubMed:15800843}. Note=The disease is caused by mutations affecting the gene represented in this entry. Most affected individuals have defects in methylation of the gene. In some cases microdeletions involving the STX16 appear to cause loss of methylation at exon A/B of GNAS, resulting in PHP1B. Paternal uniparental isodisomy have also been observed.; DISEASE: GNAS hyperfunction (GNASHYP) [MIM:139320]: This condition is characterized by increased trauma-related bleeding tendency, prolonged bleeding time, brachydactyly and mental retardation. Both the XLas isoforms and the ALEX protein are mutated which strongly reduces the interaction between them and this may allow unimpeded activation of the XLas isoforms. Note=The disease is caused by mutations affecting the gene represented in this entry.;

Recessive Scores

pRec
0.800

Intolerance Scores

LoFtool
0.00834
RVIS EVS
-0.02
RVIS percentile EVS
52.32

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
N
Indispensability score
0.387

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
For research and educational, non-commercial use only. Not for clinical or diagnostic use. GeneBe does not provide medical advice. Data use for AI modeling is prohibited: if used, the cost is $0.001 per byte of downloaded uncompressed data.