GPR19

G protein-coupled receptor 19, the group of G protein-coupled receptors, Class A orphans

Basic information

Region (hg38): 12:12660889-12696207

Links

ENSG00000183150 ∙ NCBI:2842 ∙ OMIM:602927 ∙ HGNC:4473 ∙ Uniprot:Q15760 ∙ 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 GPR19 gene.

• Inborn genetic diseases (12 variants)
• not provided (3 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the GPR19 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					2	2
missense			12		1	13
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	12	0	3

Variants in GPR19

This is a list of pathogenic ClinVar variants found in the GPR19 region.

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

Position	Type	Phenotype	Significance	ClinVar
12-12661269-C-T		not specified	Uncertain significance (Jan 18, 2022)
12-12661276-G-A		not specified	Likely benign (Dec 26, 2023)
12-12661285-C-T			Benign (Mar 02, 2018)
12-12661329-T-C		not specified	Uncertain significance (Apr 28, 2023)
12-12661397-T-C		not specified	Uncertain significance (May 25, 2022)
12-12661455-T-C		not specified	Uncertain significance (Mar 04, 2024)
12-12661542-G-T		not specified	Uncertain significance (Sep 13, 2023)
12-12661643-C-T		not specified	Uncertain significance (May 18, 2022)
12-12661673-G-A		not specified	Uncertain significance (Dec 07, 2021)
12-12661686-T-C		not specified	Uncertain significance (Jan 09, 2024)
12-12661764-A-T		not specified	Uncertain significance (Oct 20, 2023)
12-12661776-C-T		not specified	Uncertain significance (Jun 29, 2023)
12-12661947-C-T			Benign (Aug 20, 2018)
12-12661986-C-T		not specified	Uncertain significance (Oct 05, 2023)
12-12662044-A-G			Benign (Aug 20, 2018)
12-12662054-G-A		not specified	Uncertain significance (Nov 14, 2023)
12-12662085-C-T		not specified	Uncertain significance (Jul 30, 2023)
12-12662107-G-C		not specified	Uncertain significance (Aug 14, 2023)
12-12662240-A-G		not specified	Uncertain significance (Sep 13, 2023)
12-12662313-C-T		not specified	Uncertain significance (Nov 20, 2023)
12-12662357-G-A		not specified	Uncertain significance (Sep 12, 2023)
12-12662390-A-G		not specified	Uncertain significance (Dec 20, 2023)
12-12662439-C-G		not specified	Uncertain significance (Jun 01, 2023)
12-12662445-C-A		not specified	Uncertain significance (Apr 05, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
GPR19	protein_coding	protein_coding	ENST00000540510	1	35317

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.104	0.890	125728	0	20	125748	0.0000795

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.45	167	229	0.730	0.0000118	2743
Missense in Polyphen		34	70.405	0.48292		872
Synonymous	0.929	75	86.0	0.873	0.00000471	819
Loss of Function	2.39	4	13.4	0.297	8.25e-7	147

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000177	0.000177
Ashkenazi Jewish	0.00	0.00
East Asian	0.000109	0.000109
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.0000792	0.0000791
Middle Eastern	0.000109	0.000109
South Asian	0.0000653	0.0000653
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Orphan receptor.
• Pathway: GPCRs, Class A Rhodopsin-like (Consensus)

Recessive Scores

• pRec: 0.100

Intolerance Scores

• rvis_EVS: 0.37
• rvis_percentile_EVS: 75.29

Haploinsufficiency Scores

• pHI: 0.385
• hipred: N
• hipred_score: 0.319
• ghis: 0.479

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.557

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Gpr19
• Phenotype: behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan)

Gene ontology

• Biological process: G protein-coupled receptor signaling pathway
• Cellular component: integral component of plasma membrane
• Molecular function: G protein-coupled receptor activity