HCAR1

hydroxycarboxylic acid receptor 1, the group of Hydroxycarboxylic acid receptors

Basic information

Region (hg38): 12:122726076-122730844

Previous symbols: [ "GPR104", "GPR81" ]

Links

ENSG00000196917 ∙ NCBI:27198 ∙ OMIM:606923 ∙ HGNC:4532 ∙ Uniprot:Q9BXC0 ∙ 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 HCAR1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the HCAR1 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						0
missense			41		1	42
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	0	1

Variants in HCAR1

This is a list of pathogenic ClinVar variants found in the HCAR1 region.

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

Position	Type	Phenotype	Significance	ClinVar
12-122729337-C-T		not specified	Uncertain significance (Jan 08, 2024)
12-122729382-G-T		not specified	Uncertain significance (May 16, 2022)
12-122729388-G-A		not specified	Uncertain significance (Mar 11, 2022)
12-122729397-T-C		not specified	Uncertain significance (Oct 25, 2024)
12-122729411-G-A		not specified	Uncertain significance (Jan 23, 2023)
12-122729427-A-G		not specified	Uncertain significance (May 31, 2022)
12-122729460-T-C		not specified	Uncertain significance (Jun 25, 2024)
12-122729468-T-C		not specified	Uncertain significance (Apr 06, 2022)
12-122729480-T-C		not specified	Uncertain significance (Jul 19, 2023)
12-122729514-G-C		not specified	Uncertain significance (Nov 14, 2024)
12-122729544-A-G		not specified	Uncertain significance (Feb 07, 2025)
12-122729552-G-T		not specified	Uncertain significance (Dec 24, 2024)
12-122729576-G-A		not specified	Uncertain significance (Jan 19, 2024)
12-122729594-G-A		not specified	Uncertain significance (Apr 07, 2022)
12-122729631-C-T		not specified	Uncertain significance (Feb 01, 2025)
12-122729682-G-A		not specified	Uncertain significance (Dec 22, 2023)
12-122729682-G-C		not specified	Uncertain significance (Oct 28, 2023)
12-122729700-G-A		not specified	Uncertain significance (Jun 06, 2023)
12-122729714-A-C		not specified	Uncertain significance (Mar 14, 2025)
12-122729727-G-A		not specified	Uncertain significance (Dec 01, 2022)
12-122729762-A-G		not specified	Uncertain significance (Mar 01, 2023)
12-122729789-T-G		not specified	Uncertain significance (Jun 24, 2022)
12-122729792-A-G		not specified	Uncertain significance (Jan 24, 2024)
12-122729825-G-A			Benign (Oct 01, 2022)
12-122729858-G-A		not specified	Uncertain significance (Aug 22, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
HCAR1	protein_coding	protein_coding	ENST00000432564	1	110567

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000759	0.548	125711	0	37	125748	0.000147

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.173	223	216	1.03	0.0000131	2284
Missense in Polyphen		102	86.775	1.1754		1021
Synonymous	0.405	89	94.0	0.947	0.00000644	699
Loss of Function	0.378	5	6.00	0.833	3.42e-7	61

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000181	0.000181
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.000666	0.000647
European (Non-Finnish)	0.000159	0.000158
Middle Eastern	0.00	0.00
South Asian	0.0000396	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Acts as a receptor for L-lactate and mediates its anti- lipolytic effect through a G(i)-protein-mediated pathway. {ECO:0000269|PubMed:19047060}.
• Pathway: cAMP signaling pathway - Homo sapiens (human);GPCRs, Class A Rhodopsin-like;Signaling by GPCR;Signal Transduction;Hydroxycarboxylic acid-binding receptors;Class A/1 (Rhodopsin-like receptors);GPCR ligand binding;G alpha (i) signalling events;GPCR downstream signalling (Consensus)

Recessive Scores

• pRec: 0.0874

Intolerance Scores

• rvis_EVS: -0.36
• rvis_percentile_EVS: 29.31

Haploinsufficiency Scores

• pHI: 0.132
• hipred: N
• hipred_score: 0.170
• ghis: 0.438

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.114

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Hcar1
• Phenotype: homeostasis/metabolism phenotype

Gene ontology

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