GPR158

G protein-coupled receptor 158, the group of G protein-coupled receptors, Class C orphans

Basic information

Region (hg38): 10:25174801-25602229

Links

ENSG00000151025 ∙ NCBI:57512 ∙ OMIM:614573 ∙ HGNC:23689 ∙ Uniprot:Q5T848 ∙ 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 GPR158 gene.

• Inborn genetic diseases (42 variants)
• not provided (2 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the GPR158 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				1		1
missense			41	1	1	43
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	41	2	1

Variants in GPR158

This is a list of pathogenic ClinVar variants found in the GPR158 region.

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

Position	Type	Phenotype	Significance	ClinVar
10-25175536-C-T		not specified	Uncertain significance (Oct 20, 2021)
10-25175566-C-T		not specified	Uncertain significance (Dec 20, 2023)
10-25175590-C-T		not specified	Uncertain significance (Nov 29, 2021)
10-25175689-A-C		not specified	Uncertain significance (Jan 22, 2024)
10-25175707-G-A		not specified	Uncertain significance (Mar 17, 2023)
10-25175748-G-A		not specified	Uncertain significance (Dec 01, 2022)
10-25175761-C-T		not specified	Uncertain significance (Apr 12, 2022)
10-25175800-A-T		not specified	Uncertain significance (Jan 04, 2024)
10-25175805-C-A		not specified	Uncertain significance (Mar 06, 2023)
10-25175830-A-G		not specified	Uncertain significance (Feb 09, 2022)
10-25175832-G-A		not specified	Likely benign (Nov 20, 2023)
10-25175904-T-C		not specified	Likely benign (Aug 04, 2023)
10-25175976-C-G		not specified	Uncertain significance (Jun 29, 2022)
10-25175986-A-T		not specified	Uncertain significance (Dec 27, 2022)
10-25176004-C-T		not specified	Uncertain significance (Aug 13, 2021)
10-25176132-G-A		not specified	Uncertain significance (Dec 14, 2021)
10-25176220-C-T		not specified	Uncertain significance (Feb 17, 2024)
10-25176269-T-C			Likely benign (Oct 01, 2022)
10-25176280-C-T		not specified	Uncertain significance (Aug 16, 2021)
10-25221111-A-G		not specified	Uncertain significance (Jan 27, 2022)
10-25395938-G-A		not specified	Uncertain significance (Jul 19, 2022)
10-25395969-C-A		not specified	Uncertain significance (Dec 20, 2023)
10-25412358-C-G		not specified	Uncertain significance (Feb 12, 2024)
10-25412412-C-G			Benign (Apr 07, 2021)
10-25466657-C-T		not specified	Uncertain significance (Oct 06, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
GPR158	protein_coding	protein_coding	ENST00000376351	11	427165

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000551	0.999	125710	0	38	125748	0.000151

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.377	645	672	0.959	0.0000357	7885
Missense in Polyphen		116	157.56	0.73624		1856
Synonymous	0.115	263	265	0.991	0.0000143	2442
Loss of Function	4.63	16	52.0	0.307	0.00000304	587

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000630	0.000629
Ashkenazi Jewish	0.000101	0.0000992
East Asian	0.0000544	0.0000544
Finnish	0.000324	0.000323
European (Non-Finnish)	0.0000798	0.0000791
Middle Eastern	0.0000544	0.0000544
South Asian	0.000163	0.000163
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Orphan receptor.

Recessive Scores

• pRec: 0.109

Intolerance Scores

• loftool: 0.225
• rvis_EVS: -0.41
• rvis_percentile_EVS: 25.85

Haploinsufficiency Scores

• pHI: 0.203
• hipred: Y
• hipred_score: 0.704
• ghis: 0.584

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.885

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	High	High	High
Primary Immunodeficiency	High	High	High
Cancer	High	High	High

Mouse Genome Informatics

• Gene name: Gpr158
• Phenotype: behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan); limbs/digits/tail phenotype; skeleton phenotype; homeostasis/metabolism phenotype

Gene ontology

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