OR9A2

Summary

OR9A2 (olfactory receptor family 9 subfamily A member 2, HGNC:15093) is a protein-coding gene on chromosome 7q34, encoding Olfactory receptor 9A2 (Q8NGT5). Odorant receptor.

Olfactory receptors interact with odorant molecules in the nose, to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome.

Source: NCBI Gene 135924 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 58 total
• MANE Select transcript: NM_001001658

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:15093
Approved symbol	OR9A2
Name	olfactory receptor family 9 subfamily A member 2
Location	7q34
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000179468
Ensembl biotype	protein_coding
Entrez	135924

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000350513

RefSeq mRNA: 1 — MANE Select: NM_001001658 NM_001001658

CCDS: CCDS34767

Canonical transcript exons

ENST00000350513 — 1 exons

Exon	Start	End
ENSE00004472044	143026200	143027132

Expression profiles

Bgee: expression breadth broad, 18 present calls, max score 93.04.

Top tissues by expression

121 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	93.04	gold quality
corpus callosum	UBERON:0002336	73.55	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	48.71	gold quality
colonic epithelium	UBERON:0000397	41.74	gold quality
skeletal muscle tissue	UBERON:0001134	38.61	gold quality
tonsil	UBERON:0002372	37.82	gold quality
granulocyte	CL:0000094	37.41	gold quality
substantia nigra	UBERON:0002038	37.05	silver quality
ventricular zone	UBERON:0003053	36.48	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
bone marrow cell	CL:0002092	36.16	gold quality
prefrontal cortex	UBERON:0000451	35.81	gold quality
ganglionic eminence	UBERON:0004023	35.49	gold quality
muscle tissue	UBERON:0002385	34.91	gold quality
primary visual cortex	UBERON:0002436	34.80	gold quality
adrenal tissue	UBERON:0018303	33.48	gold quality
Ammon’s horn	UBERON:0001954	32.62	silver quality
hindlimb stylopod muscle	UBERON:0004252	32.15	gold quality
bone marrow	UBERON:0002371	31.74	gold quality
urinary bladder	UBERON:0001255	31.52	gold quality
sural nerve	UBERON:0015488	30.93	gold quality
frontal cortex	UBERON:0001870	30.48	gold quality
superior frontal gyrus	UBERON:0002661	30.42	gold quality
placenta	UBERON:0001987	30.18	silver quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
blood	UBERON:0000178	29.27	gold quality
liver	UBERON:0002107	29.19	gold quality
temporal lobe	UBERON:0001871	28.98	silver quality
lymph node	UBERON:0000029	28.97	gold quality
amygdala	UBERON:0001876	28.93	silver quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.00

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• This publication uses ‘GPR139’ as a name for this gene. (PMID:12732197)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Or9a2	ENSMUSG00000045479
rattus_norvegicus	Or9a2	ENSRNOG00000069338

Paralogs (33): TACR2 (ENSG00000075073), PROKR2 (ENSG00000101292), GPR50 (ENSG00000102195), TACR1 (ENSG00000115353), GPR75 (ENSG00000119737), PRLHR (ENSG00000119973), GPR83 (ENSG00000123901), MCHR1 (ENSG00000128285), OR11H1 (ENSG00000130538), MTNR1B (ENSG00000134640), MCHR2 (ENSG00000152034), NPY1R (ENSG00000164128), NPY5R (ENSG00000164129), MTNR1A (ENSG00000168412), PROKR1 (ENSG00000169618), TACR3 (ENSG00000169836), OR9G1 (ENSG00000174914), OR11H4 (ENSG00000176198), OR11H6 (ENSG00000176219), GPR88 (ENSG00000181656), GPR19 (ENSG00000183150), NPY2R (ENSG00000185149), OR11G2 (ENSG00000196832), NPY4R (ENSG00000204174), OR11A1 (ENSG00000204694), OR9A1P (ENSG00000237621), OR11H12 (ENSG00000257115), OR9A4 (ENSG00000258083), OR11H2 (ENSG00000258453), OR11H7 (ENSG00000258806), NPY4R2 (ENSG00000264717), OR10X1 (ENSG00000279111), OR51F1 (ENSG00000280021)

Protein

Protein identifiers

Olfactory receptor 9A2 — Q8NGT5 (reviewed: Q8NGT5)

Alternative names: Olfactory receptor OR7-2

All UniProt accessions (1): Q8NGT5

UniProt curated annotations — full annotation on UniProt →

Function. Odorant receptor.

Subcellular location. Cell membrane.

Similarity. Belongs to the G-protein coupled receptor 1 family.

RefSeq proteins (1): NP_001001658* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000276	GPCR_Rhodpsn	Family
IPR000725	Olfact_rcpt	Family
IPR017452	GPCR_Rhodpsn_7TM	Domain
IPR047132	Olfact_rcpt_6C-like	Family

Pfam: PF13853

UniProt features (17 total): topological domain 8, transmembrane region 6, chain 1, glycosylation site 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8NGT5-F1	85.26	0.43

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Glycosylation sites (1): 4

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-9752946	Expression and translocation of olfactory receptors

MSigDB gene sets: 17 (showing top): GOBP_SENSORY_PERCEPTION_OF_CHEMICAL_STIMULUS, KEGG_OLFACTORY_TRANSDUCTION, GOBP_DETECTION_OF_STIMULUS, GOBP_SENSORY_PERCEPTION, GOMF_OLFACTORY_RECEPTOR_ACTIVITY, GOMF_TRANSMEMBRANE_SIGNALING_RECEPTOR_ACTIVITY, GOMF_G_PROTEIN_COUPLED_RECEPTOR_ACTIVITY, GOBP_SENSORY_PERCEPTION_OF_SMELL, GOBP_G_PROTEIN_COUPLED_RECEPTOR_SIGNALING_PATHWAY, GOBP_DETECTION_OF_STIMULUS_INVOLVED_IN_SENSORY_PERCEPTION, REACTOME_OLFACTORY_SIGNALING_PATHWAY, REACTOME_SENSORY_PERCEPTION, chr7q34, GOBP_DETECTION_OF_CHEMICAL_STIMULUS, GOMF_MOLECULAR_TRANSDUCER_ACTIVITY

GO Biological Process (4): signal transduction (GO:0007165), G protein-coupled receptor signaling pathway (GO:0007186), sensory perception of smell (GO:0007608), detection of chemical stimulus involved in sensory perception of smell (GO:0050911)

GO Molecular Function (2): G protein-coupled receptor activity (GO:0004930), olfactory receptor activity (GO:0004984)

GO Cellular Component (2): plasma membrane (GO:0005886), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-1 pathways:

Category	Pathways
Olfactory Signaling Pathway	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
transmembrane signaling receptor activity	2
cell communication	1
cellular process	1
signaling	1
regulation of cellular process	1
cellular response to stimulus	1
G protein-coupled receptor activity	1
signal transduction	1
sensory perception of chemical stimulus	1
sensory perception of smell	1
detection of chemical stimulus involved in sensory perception	1
G protein-coupled receptor signaling pathway	1
detection of chemical stimulus involved in sensory perception of smell	1
membrane	1
cell periphery	1
cellular anatomical structure	1

Protein interactions and networks

STRING

58 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
OR9A2	OTOL1	A6NHN0	524
OR9A2	ADGB	Q8N7X0	476
OR9A2	NKAP	Q8N5F7	348
OR9A2	AIMP2	Q13155	327
OR9A2	IFIT1B	Q5T764	325
OR9A2	EPN1	Q9Y6I3	321
OR9A2	TAS2R50	P59544	252
OR9A2	GRM2	Q14416	252
OR9A2	MAP3K8	P41279	213
OR9A2	PODXL	O00592	207
OR9A2	PHB1	P35232	200
OR9A2	OR51B6	Q9H340	198
OR9A2	OR52K2	Q8NGK3	196
OR9A2	XPNPEP1	Q9NQW7	193
OR9A2	DNAJC27	Q9NZQ0	159

IntAct

0 interactions, top by confidence:

ESM2 similar proteins: B2RN74, O43869, O60431, P0C617, P23272, P47883, Q5JRS4, Q6IF36, Q6IFN5, Q8NG75, Q8NG78, Q8NG84, Q8NG94, Q8NGC0, Q8NGC1, Q8NGC5, Q8NGC7, Q8NGC9, Q8NGE7, Q8NGG2, Q8NGG3, Q8NGG7, Q8NGH3, Q8NGI9, Q8NGK9, Q8NGL3, Q8NGP2, Q8NGQ1, Q8NGQ3, Q8NGR1, Q8NGR2, Q8NGS6, Q8NGT5, Q8NGV5, Q8NGW1, Q8NGW6, Q8NGX6, Q8NGX8, Q8NGY0, Q8NGZ0

Diamond homologs: A4D2G3, A6NCV1, A6NDL8, A6NF89, A6NIJ9, A6NJZ3, A6NL08, A6NM76, O43749, O60403, O60431, O76099, O95007, O95221, O95222, P0C629, P0C7N1, P0C7N5, P0DN82, P23266, P23267, P23270, P23272, P23274, P34986, P58173, P58181, P58182, P70526, Q15619, Q60889, Q6IEU7, Q6IFH4, Q6UXT6, Q8N148, Q8N628, Q8NGA1, Q8NGA6, Q8NGC1, Q8NGC5

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

58 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	50
Likely benign	8
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

273 predictions. Top by Δscore:

Variant	Effect	Δscore
7:143026503:C:CT	acceptor_gain	0.9500
7:143026521:A:T	acceptor_gain	0.9300
7:143026520:CAA:C	acceptor_gain	0.8900
7:143026513:A:T	acceptor_gain	0.8300
7:143026512:C:CT	acceptor_gain	0.8000
7:143026483:A:AC	acceptor_gain	0.7900
7:143026504:G:C	acceptor_gain	0.7800
7:143026480:A:AC	acceptor_gain	0.7600
7:143026442:T:TA	donor_gain	0.7500
7:143026483:A:C	acceptor_gain	0.7500
7:143026485:G:C	acceptor_gain	0.7200
7:143026267:C:CT	acceptor_gain	0.7100
7:143026491:G:C	acceptor_gain	0.7000
7:143026480:A:C	acceptor_gain	0.6900
7:143026504:G:GC	acceptor_gain	0.6900
7:143026268:G:T	acceptor_gain	0.6800
7:143026504:G:T	acceptor_gain	0.6700
7:143026522:A:AC	acceptor_gain	0.6600
7:143026474:G:GC	acceptor_gain	0.6400
7:143026539:C:CT	acceptor_gain	0.6300
7:143026489:G:C	acceptor_gain	0.6100
7:143026491:G:GC	acceptor_gain	0.6100
7:143026345:C:CA	donor_gain	0.6000
7:143026474:G:C	acceptor_gain	0.6000
7:143026485:G:GC	acceptor_gain	0.6000
7:143026500:A:T	acceptor_gain	0.6000
7:143027074:TGGG:T	donor_gain	0.6000
7:143026471:A:C	acceptor_gain	0.5900
7:143026520:C:T	acceptor_gain	0.5900
7:143026541:T:TC	acceptor_gain	0.5900

AlphaMissense

2037 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
7:143026275:A:C	F286L	0.898
7:143026275:A:T	F286L	0.898
7:143026277:A:G	F286L	0.898
7:143026809:A:C	F108L	0.855
7:143026809:A:T	F108L	0.855
7:143026811:A:G	F108L	0.855
7:143026614:A:C	F173L	0.835
7:143026614:A:T	F173L	0.835
7:143026616:A:G	F173L	0.835
7:143027085:G:C	F16L	0.829
7:143027085:G:T	F16L	0.829
7:143027087:A:G	F16L	0.829
7:143026431:G:C	F234L	0.805
7:143026431:G:T	F234L	0.805
7:143026433:A:G	F234L	0.805
7:143026383:G:C	S250R	0.791
7:143026383:G:T	S250R	0.791
7:143026385:T:G	S250R	0.791
7:143027100:G:C	F11L	0.777
7:143027100:G:T	F11L	0.777
7:143027102:A:G	F11L	0.777
7:143026641:G:C	F164L	0.769
7:143026641:G:T	F164L	0.769
7:143026643:A:G	F164L	0.769
7:143026953:G:C	F60L	0.764
7:143026953:G:T	F60L	0.764
7:143026955:A:G	F60L	0.764
7:143026700:A:G	W145R	0.762
7:143026700:A:T	W145R	0.762
7:143026950:G:C	F61L	0.746

dbSNP variants (sampled 300 via entrez): RS1000047391 (7:143028576 T>C), RS1001219728 (7:143028996 C>T), RS1003134805 (7:143028120 G>T), RS1003187063 (7:143028457 T>A), RS1004513140 (7:143025860 T>A), RS1005514532 (7:143027751 G>A), RS1005981470 (7:143027474 T>C), RS1006173887 (7:143026749 G>A), RS1006252920 (7:143027959 A>C), RS1006314593 (7:143026961 T>G), RS1007011804 (7:143028477 C>T), RS1012420507 (7:143028502 A>G), RS1014446166 (7:143027714 G>A), RS1016091539 (7:143026745 T>C), RS1016646838 (7:143028544 A>G)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

1 associations (top):

Study	Trait	p-value
GCST004860_10	Alcoholic chronic pancreatitis	3.000000e-06

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

6 total (human), top 6 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
fluorene-9-bisphenol	increases expression	1
arsenite	decreases methylation	1
CGP 52608	affects binding, increases reaction	1
Air Pollutants	increases expression	1
Benzo(a)pyrene	increases methylation	1
Tretinoin	decreases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.