OR5D18

olfactory receptor family 5 subfamily D member 18, the group of Olfactory receptors, family 5

Basic information

Region (hg38): 11:55819629-55820571

Links

ENSG00000186119 ∙ NCBI:219438 ∙ ∙ HGNC:15285 ∙ Uniprot:Q8NGL1 ∙ 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 OR5D18 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR5D18 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			20	3		23
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	20	3	0

Variants in OR5D18

This is a list of pathogenic ClinVar variants found in the OR5D18 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-55819661-C-T		not specified	Uncertain significance (Dec 19, 2023)
11-55819793-A-G		not specified	Uncertain significance (Dec 21, 2022)
11-55819796-T-C		not specified	Uncertain significance (Mar 25, 2024)
11-55819799-A-T		not specified	Uncertain significance (Feb 05, 2024)
11-55819804-C-T		not specified	Uncertain significance (Dec 03, 2021)
11-55819904-C-A		not specified	Uncertain significance (Oct 18, 2021)
11-55819955-T-C		not specified	Uncertain significance (Jun 03, 2024)
11-55819976-T-C		not specified	Uncertain significance (Jun 11, 2024)
11-55820005-G-A		not specified	Uncertain significance (Jan 16, 2024)
11-55820017-C-A		not specified	Uncertain significance (Feb 21, 2024)
11-55820036-A-C		not specified	Uncertain significance (Jul 14, 2021)
11-55820056-G-A		not specified	Uncertain significance (Jan 09, 2024)
11-55820115-C-G		not specified	Uncertain significance (Mar 20, 2024)
11-55820132-G-C		not specified	Likely benign (Apr 10, 2023)
11-55820134-T-A		not specified	Uncertain significance (Apr 08, 2022)
11-55820138-A-T		not specified	Uncertain significance (Jun 07, 2024)
11-55820185-C-T		not specified	Uncertain significance (Nov 01, 2022)
11-55820219-A-G		not specified	Uncertain significance (Sep 17, 2021)
11-55820307-C-G		not specified	Uncertain significance (Mar 27, 2023)
11-55820315-T-A		not specified	Uncertain significance (Dec 16, 2022)
11-55820316-G-T		not specified	Uncertain significance (Feb 12, 2024)
11-55820318-G-A		not specified	Likely benign (Nov 12, 2021)
11-55820332-C-A		not specified	Uncertain significance (Aug 12, 2021)
11-55820333-G-A		not specified	Uncertain significance (Oct 14, 2021)
11-55820439-C-A		not specified	Likely benign (Mar 01, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR5D18	protein_coding	protein_coding	ENST00000333976	1	988

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000459	0.444	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.456	177	161	1.10	0.00000856	2033
Missense in Polyphen		43	33.093	1.2994		497
Synonymous	0.0816	69	69.9	0.988	0.00000388	659
Loss of Function	0.0883	5	5.22	0.958	2.26e-7	85

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: 0.776
• rvis_EVS: 0.49
• rvis_percentile_EVS: 79.38

Haploinsufficiency Scores

• pHI: 0.111
• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0388

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr73
• Phenotype: 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)

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 membrane
• Molecular function: G protein-coupled receptor activity;olfactory receptor activity;odorant binding