GPR20

G protein-coupled receptor 20, the group of G protein-coupled receptors, Class A orphans

Basic information

Region (hg38): 8:141356470-141367286

Links

ENSG00000204882 ∙ NCBI:2843 ∙ OMIM:601908 ∙ HGNC:4475 ∙ Uniprot:Q99678 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the GPR20 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the GPR20 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous				3	1	4
missense			51	3		54
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	51	6	1

Variants in GPR20

This is a list of pathogenic ClinVar variants found in the GPR20 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
8-141356855-C-T		not specified	Uncertain significance (Jan 21, 2025)
8-141356885-C-T		not specified	Uncertain significance (Dec 15, 2023)
8-141356886-G-A			Benign (May 21, 2018)
8-141356886-G-T		not specified	Uncertain significance (Jan 09, 2025)
8-141356951-C-T		not specified	Likely benign (Dec 28, 2023)
8-141356954-C-A		not specified	Uncertain significance (Jan 07, 2025)
8-141356971-C-A		not specified	Uncertain significance (Jan 15, 2025)
8-141356971-C-T		not specified	Uncertain significance (Jul 17, 2024)
8-141356978-C-T		not specified	Uncertain significance (Mar 01, 2024)
8-141356998-C-T		not specified	Uncertain significance (Feb 06, 2024)
8-141357002-C-T		not specified	Uncertain significance (Jun 06, 2023)
8-141357004-G-C		not specified	Uncertain significance (Aug 14, 2024)
8-141357041-T-C		not specified	Uncertain significance (Jun 17, 2024)
8-141357071-G-A		not specified	Uncertain significance (Mar 28, 2024)
8-141357095-C-T		not specified	Uncertain significance (Oct 09, 2024)
8-141357121-G-T		not specified	Uncertain significance (Oct 05, 2021)
8-141357134-C-T		not specified	Uncertain significance (Aug 14, 2024)
8-141357143-G-T		not specified	Uncertain significance (Jul 17, 2024)
8-141357145-C-T		not specified	Uncertain significance (Dec 20, 2024)
8-141357149-C-T		not specified	Uncertain significance (Nov 15, 2024)
8-141357159-C-T			Likely benign (Jan 01, 2023)
8-141357212-G-A		not specified	Uncertain significance (Nov 23, 2024)
8-141357215-C-G		not specified	Uncertain significance (May 24, 2023)
8-141357217-C-T		not specified	Uncertain significance (Sep 03, 2024)
8-141357226-C-T		not specified	Uncertain significance (May 09, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
GPR20	protein_coding	protein_coding	ENST00000377741	1	10768

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.441	0.532	124875	0	7	124882	0.0000280

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.750	226	260	0.869	0.0000193	2235
Missense in Polyphen		67	99.072	0.67628		929
Synonymous	0.227	123	126	0.974	0.0000101	838
Loss of Function	1.77	1	5.46	0.183	2.35e-7	54

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.000603	0.000599
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.000164	0.000164

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Orphan receptor with constitutive G(i) signaling activity that activate cyclic AMP. {ECO:0000269|PubMed:18347022}.
• Pathway: GPCRs, Class A Rhodopsin-like;Signaling by GPCR;Signal Transduction;G alpha (s) signalling events;GPCR downstream signalling (Consensus)

Recessive Scores

• pRec: 0.109

Intolerance Scores

• loftool: 0.219
• rvis_EVS: -0.31
• rvis_percentile_EVS: 32.15

Haploinsufficiency Scores

• pHI: 0.252
• hipred: N
• hipred_score: 0.279
• ghis: 0.493

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.229

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Gpr20

Gene ontology

• Biological process: G protein-coupled receptor signaling pathway;positive regulation of Rho protein signal transduction;positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G protein-coupled signaling pathway
• Cellular component: plasma membrane;integral component of plasma membrane;receptor complex
• Molecular function: G protein-coupled receptor activity