OR5H6

olfactory receptor family 5 subfamily H member 6, the group of Olfactory receptors, family 5

Basic information

Region (hg38): 3:98263251-98265356

Links

ENSG00000230301 ∙ NCBI:79295 ∙ ∙ HGNC:14767 ∙ Uniprot:Q8NGV6 ∙ 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 OR5H6 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR5H6 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			25	5		30
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding				1		1
Total	0	0	25	6	0

Variants in OR5H6

This is a list of pathogenic ClinVar variants found in the OR5H6 region.

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

Position	Type	Phenotype	Significance	ClinVar
3-98264332-G-C		not specified	Likely benign (Mar 17, 2023)
3-98264379-G-T		not specified	Uncertain significance (Sep 16, 2021)
3-98264400-G-A		not specified	Uncertain significance (Mar 29, 2024)
3-98264441-A-C		not specified	Uncertain significance (Sep 29, 2023)
3-98264451-T-C		not specified	Uncertain significance (Aug 02, 2021)
3-98264486-G-A		not specified	Uncertain significance (Apr 01, 2024)
3-98264568-C-T		not specified	Uncertain significance (Dec 06, 2021)
3-98264572-G-T		not specified	Uncertain significance (Mar 06, 2023)
3-98264607-T-C		not specified	Uncertain significance (May 31, 2023)
3-98264609-T-G		not specified	Uncertain significance (Oct 06, 2021)
3-98264624-A-G		not specified	Uncertain significance (May 17, 2023)
3-98264628-T-C		not specified	Uncertain significance (Apr 13, 2022)
3-98264642-C-T		not specified	Likely benign (Aug 08, 2022)
3-98264649-C-T		not specified	Likely benign (Aug 08, 2022)
3-98264652-C-G		not specified	Likely benign (Aug 08, 2022)
3-98264681-A-T		not specified	Likely benign (Dec 28, 2022)
3-98264685-T-A		not specified	Uncertain significance (Jun 14, 2022)
3-98264693-G-A		not specified	Uncertain significance (Sep 25, 2023)
3-98264696-C-T		not specified	Uncertain significance (Nov 29, 2023)
3-98264789-C-T		not specified	Uncertain significance (Dec 02, 2022)
3-98264798-G-A		not specified	Uncertain significance (Mar 07, 2023)
3-98264812-A-C		not specified	Uncertain significance (Mar 29, 2023)
3-98264863-T-G		not specified	Uncertain significance (Jul 15, 2021)
3-98264865-A-T		not specified	Uncertain significance (Jan 16, 2024)
3-98264939-G-A		not specified	Uncertain significance (Aug 30, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR5H6	protein_coding	protein_coding	ENST00000383696	1	1113

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000274	0.349	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-2.07	239	164	1.45	0.00000757	2102
Missense in Polyphen		59	40.376	1.4613		554
Synonymous	-2.70	87	60.3	1.44	0.00000289	631
Loss of Function	-0.229	5	4.48	1.12	1.86e-7	74

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: 0.905
• rvis_EVS: 2.71
• rvis_percentile_EVS: 98.93

Haploinsufficiency Scores

• pHI: 0.118
• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0383

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr187

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