OR5AC2

olfactory receptor family 5 subfamily AC member 2, the group of Olfactory receptors, family 5

Basic information

Region (hg38): 3:98087173-98088102

Links

ENSG00000196578 ∙ NCBI:81050 ∙ ∙ HGNC:15431 ∙ Uniprot:Q9NZP5 ∙ 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 OR5AC2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR5AC2 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			22	1	1	24
nonsense						0
start loss						0
frameshift					1	1
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	22	1	2

Variants in OR5AC2

This is a list of pathogenic ClinVar variants found in the OR5AC2 region.

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

Position	Type	Phenotype	Significance	ClinVar
3-98087189-G-A		not specified	Uncertain significance (Jan 19, 2024)
3-98087215-G-C		not specified	Uncertain significance (Sep 26, 2023)
3-98087242-T-C		not specified	Uncertain significance (Aug 30, 2022)
3-98087254-C-T		not specified	Uncertain significance (Oct 28, 2023)
3-98087372-G-C		not specified	Uncertain significance (Mar 20, 2023)
3-98087372-G-T		not specified	Uncertain significance (Apr 20, 2023)
3-98087405-C-G		not specified	Uncertain significance (Dec 19, 2022)
3-98087411-C-T		not specified	Uncertain significance (Oct 10, 2023)
3-98087454-AT-A			Benign (Jul 06, 2017)
3-98087483-A-C		not specified	Uncertain significance (Apr 06, 2023)
3-98087532-G-A		not specified	Uncertain significance (Jan 04, 2024)
3-98087534-C-T		not specified	Uncertain significance (Jun 07, 2022)
3-98087542-C-T		not specified	Uncertain significance (Dec 05, 2022)
3-98087554-A-G		not specified	Uncertain significance (Feb 16, 2023)
3-98087602-G-A		not specified	Likely benign (Jan 30, 2024)
3-98087607-G-T			Benign (Jul 06, 2017)
3-98087630-T-C		not specified	Uncertain significance (Dec 12, 2023)
3-98087641-C-A		not specified	Uncertain significance (Jun 04, 2024)
3-98087647-C-G		not specified	Uncertain significance (Nov 13, 2023)
3-98087699-T-C		not specified	Uncertain significance (Sep 22, 2022)
3-98087820-C-G		not specified	Uncertain significance (Oct 05, 2023)
3-98087837-G-T		not specified	Uncertain significance (Jun 30, 2022)
3-98087902-G-A		Malignant tumor of prostate	Uncertain significance (-)
3-98087959-C-T		not specified	Uncertain significance (Apr 13, 2023)
3-98087991-C-A		not specified	Uncertain significance (Mar 23, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR5AC2	protein_coding	protein_coding	ENST00000358642	1	930

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0133	0.681	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.04	206	168	1.22	0.00000856	2010
Missense in Polyphen		50	47.683	1.0486		627
Synonymous	-3.08	93	62.2	1.50	0.00000334	629
Loss of Function	0.565	3	4.26	0.704	3.33e-7	42

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: 0.700
• rvis_EVS: 0.71
• rvis_percentile_EVS: 85.63

Haploinsufficiency Scores

• pHI: 0.0626
• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0443

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr198

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