OR5AR1

olfactory receptor family 5 subfamily AR member 1, the group of Olfactory receptors, family 5

Basic information

Region (hg38): 11:56663686-56664618

Links

ENSG00000172459 ∙ NCBI:219493 ∙ ∙ HGNC:15260 ∙ Uniprot:Q8NGP9 ∙ 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 OR5AR1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR5AR1 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			29		1	30
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	29	0	1

Variants in OR5AR1

This is a list of pathogenic ClinVar variants found in the OR5AR1 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-56663710-G-A		not specified	Uncertain significance (Nov 10, 2022)
11-56663753-T-A		not specified	Uncertain significance (Mar 31, 2024)
11-56663768-T-C		not specified	Uncertain significance (Aug 10, 2021)
11-56663770-G-A		not specified	Uncertain significance (Nov 18, 2022)
11-56663812-A-G		not specified	Likely benign (Aug 28, 2024)
11-56663849-T-C		not specified	Uncertain significance (Nov 20, 2024)
11-56663857-C-G		not specified	Uncertain significance (Jun 01, 2023)
11-56663863-T-A		not specified	Uncertain significance (Dec 15, 2022)
11-56663917-G-T		not specified	Uncertain significance (Aug 02, 2021)
11-56663918-C-T		not specified	Uncertain significance (Oct 22, 2024)
11-56663935-G-C		not specified	Uncertain significance (Nov 09, 2024)
11-56664022-T-C		not specified	Uncertain significance (Aug 15, 2023)
11-56664031-G-A		not specified	Uncertain significance (Oct 25, 2023)
11-56664039-G-T		not specified	Uncertain significance (Dec 20, 2023)
11-56664049-C-T		not specified	Uncertain significance (Dec 17, 2023)
11-56664080-A-G		not specified	Uncertain significance (Jun 07, 2023)
11-56664115-C-T		not specified	Uncertain significance (Jun 06, 2023)
11-56664118-A-C		not specified	Uncertain significance (Jan 23, 2024)
11-56664145-G-A		not specified	Uncertain significance (Oct 13, 2023)
11-56664191-G-A			Benign (Feb 24, 2021)
11-56664200-A-G		not specified	Uncertain significance (May 11, 2022)
11-56664215-T-A		not specified	Uncertain significance (Aug 12, 2021)
11-56664296-G-C		not specified	Uncertain significance (Sep 14, 2022)
11-56664316-A-G		not specified	Uncertain significance (May 05, 2023)
11-56664325-A-G		not specified	Uncertain significance (Nov 17, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR5AR1	protein_coding	protein_coding	ENST00000302969	1	1026

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
7.69e-8	0.0454	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.28	210	164	1.28	0.00000832	2048
Missense in Polyphen		79	51.009	1.5488		683
Synonymous	-1.75	78	60.7	1.29	0.00000295	624
Loss of Function	-1.28	9	5.70	1.58	3.10e-7	76

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
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	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Odorant receptor. {ECO:0000305}.
• Pathway: Olfactory transduction - Homo sapiens (human);Olfactory receptor activity;Signaling by GPCR;Signal Transduction;Olfactory Signaling Pathway;G alpha (s) signalling events;GPCR downstream signalling (Consensus)

Intolerance Scores

• loftool: 0.692
• rvis_EVS: 0.11
• rvis_percentile_EVS: 61.91

Haploinsufficiency Scores

• pHI: 0.193
• hipred: N
• hipred_score: 0.144
• ghis: 0.384

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.000313

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr1019

Gene ontology

• Biological process: G protein-coupled receptor signaling pathway;sensory perception of smell;detection of chemical stimulus involved in sensory perception of smell
• Cellular component: plasma membrane;integral component of plasma membrane
• Molecular function: G protein-coupled receptor activity;olfactory receptor activity;copper ion binding;odorant binding