OR13D1

Summary

OR13D1 (olfactory receptor family 13 subfamily D member 1, HGNC:14695) is a protein-coding gene on chromosome 9q31.1, encoding Olfactory receptor 13D1 (Q8NGV5). 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 286365 — RefSeq curated summary.

At a glance

• GWAS associations: 2
• Clinical variants (ClinVar): 43 total
• MANE Select transcript: NM_001004484

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:14695
Approved symbol	OR13D1
Name	olfactory receptor family 13 subfamily D member 1
Location	9q31.1
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000179055
Ensembl biotype	protein_coding
Entrez	286365

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000641530

RefSeq mRNA: 1 — MANE Select: NM_001004484 NM_001004484

CCDS: CCDS35094

Canonical transcript exons

ENST00000641530 — 1 exons

Exon	Start	End
ENSE00003989330	104694518	104695462

Expression profiles

Bgee: expression breadth tissue_specific, 3 present calls, max score 51.13.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
sural nerve	UBERON:0015488	51.13	silver quality
adrenal tissue	UBERON:0018303	47.41	silver quality
bone marrow cell	CL:0002092	43.80	gold quality
colonic epithelium	UBERON:0000397	42.21	gold quality
apex of heart	UBERON:0002098	42.03	silver quality
lower esophagus mucosa	UBERON:0035834	39.18	gold quality
ventricular zone	UBERON:0003053	36.48	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
bone marrow	UBERON:0002371	35.64	gold quality
ganglionic eminence	UBERON:0004023	35.49	gold quality
skeletal muscle tissue	UBERON:0001134	35.25	gold quality
right uterine tube	UBERON:0001302	35.14	gold quality
urinary bladder	UBERON:0001255	32.55	gold quality
muscle tissue	UBERON:0002385	32.44	gold quality
hindlimb stylopod muscle	UBERON:0004252	32.15	gold quality
tonsil	UBERON:0002372	32.02	gold quality
primary visual cortex	UBERON:0002436	31.14	gold quality
right lobe of liver	UBERON:0001114	30.27	gold quality
prefrontal cortex	UBERON:0000451	29.98	gold quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
monocyte	CL:0000576	29.57	gold quality
cortex of kidney	UBERON:0001225	29.47	gold quality
leukocyte	CL:0000738	29.40	gold quality
kidney	UBERON:0002113	29.08	gold quality
blood	UBERON:0000178	29.05	gold quality
duodenum	UBERON:0002114	28.14	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	27.69	silver quality
lymph node	UBERON:0000029	27.57	gold quality
superior frontal gyrus	UBERON:0002661	27.26	gold quality
endocervix	UBERON:0000458	26.69	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.96

Regulation

Is transcription factor: no

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Or13d1	ENSMUSG00000070983
rattus_norvegicus	Or13d1	ENSRNOG00000072622

Paralogs (92): OR2B6 (ENSG00000124657), OR13C9 (ENSG00000136839), OR13C4 (ENSG00000148136), OR2M5 (ENSG00000162727), OR10A5 (ENSG00000166363), OR2D2 (ENSG00000166368), OR2B2 (ENSG00000168131), OR2C1 (ENSG00000168158), OR13J1 (ENSG00000168828), OR10G3 (ENSG00000169208), OR10A3 (ENSG00000170683), OR10A4 (ENSG00000170782), OR10A2 (ENSG00000170790), OR13H1 (ENSG00000171054), OR2K2 (ENSG00000171133), OR2M4 (ENSG00000171180), OR10H2 (ENSG00000171942), OR10H5 (ENSG00000172519), OR10AD1 (ENSG00000172640), OR2Y1 (ENSG00000174339), OR10AG1 (ENSG00000174970), OR2T1 (ENSG00000175143), OR10P1 (ENSG00000175398), OR2T35 (ENSG00000177151), OR2M7 (ENSG00000177186), OR2T12 (ENSG00000177201), OR2T33 (ENSG00000177212), OR2AJ1 (ENSG00000177275), OR2T8 (ENSG00000177462), OR2G3 (ENSG00000177476), OR2G2 (ENSG00000177489), OR2B11 (ENSG00000177535), OR2D3 (ENSG00000178358), OR10A7 (ENSG00000179919), OR2Z1 (ENSG00000181733), OR2V2 (ENSG00000182613), OR10G7 (ENSG00000182634), OR2T29 (ENSG00000182783), OR2T34 (ENSG00000183310), OR2T10 (ENSG00000184022)

Protein

Protein identifiers

Olfactory receptor 13D1 — Q8NGV5 (reviewed: Q8NGV5)

Alternative names: Olfactory receptor OR9-15

All UniProt accessions (1): A0A286YF94

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_001004484* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000276	GPCR_Rhodpsn	Family
IPR000725	Olfact_rcpt	Family
IPR017452	GPCR_Rhodpsn_7TM	Domain

Pfam: PF13853

UniProt features (23 total): topological domain 8, transmembrane region 7, sequence variant 4, glycosylation site 2, chain 1, disulfide bond 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8NGV5-F1	80.50	0.41

Functional residue map

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

Disulfide bonds (1): 129–221

Glycosylation sites (2): 37, 300

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

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

MSigDB gene sets: 16 (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, GOBP_DETECTION_OF_CHEMICAL_STIMULUS, GOMF_MOLECULAR_TRANSDUCER_ACTIVITY, chr9q31

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

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

GO Cellular Component (3): nucleoplasm (GO:0005654), 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
cellular anatomical structure	2
sensory perception of smell	1
detection of chemical stimulus involved in sensory perception	1
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
G protein-coupled receptor signaling pathway	1
detection of chemical stimulus involved in sensory perception of smell	1
nuclear lumen	1
membrane	1
cell periphery	1

Protein interactions and networks

STRING

78 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
OR13D1	NIPSNAP3A	Q9UFN0	571
OR13D1	VPS33B	Q9H267	368
OR13D1	VWDE	Q8N2E2	318
OR13D1	PRR14L	Q5THK1	305
OR13D1	EPB41L3	Q9Y2J2	305
OR13D1	JAZF1	Q86VZ6	288
OR13D1	WFS1	O76024	269
OR13D1	GALNTL6	Q49A17	247
OR13D1	NIPAL2	Q9H841	224
OR13D1	SHISA9	B4DS77	223
OR13D1	DGCR2	P98153	222
OR13D1	HNRNPCL1	O60812	222
OR13D1	IGF2BP2	Q9Y6M1	215
OR13D1	AFG1L	Q8WV93	201
OR13D1	PARD3B	Q8TEW8	197

IntAct

0 interactions, top by confidence:

BioGRID (1): OR13D1 (Cross-Linking-MS (XL-MS))

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: A0A096LPK9, A0A0X1KG70, A6NHA9, A6NMZ5, O60412, O76099, O95013, P0C604, P0C623, P0C645, P0DN82, P23270, P23275, P58173, P58180, P58182, Q15615, Q60878, Q60881, Q60888, Q6IEV9, Q6IEY1, Q6IF82, Q7TQQ0, Q8IXE1, Q8N0Y3, Q8N628, Q8NGA8, Q8NGB2, Q8NGB4, Q8NGB6, Q8NGB8, Q8NGB9, Q8NGC2, Q8NGC3, Q8NGC4, Q8NGC6, Q8NGD0, Q8NGD1, Q8NGD2

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	37
Likely benign	6
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

175 predictions. Top by Δscore:

Variant	Effect	Δscore
9:104695190:ATCCT:A	acceptor_gain	0.7300
9:104695191:T:G	acceptor_gain	0.7300
9:104695190:A:AG	acceptor_gain	0.7100
9:104695171:T:G	acceptor_gain	0.7000
9:104695194:T:TA	acceptor_gain	0.7000
9:104694693:T:G	donor_gain	0.6600
9:104695173:T:TA	acceptor_gain	0.6100
9:104695178:A:AG	acceptor_gain	0.5800
9:104695170:ATGT:A	acceptor_gain	0.5300
9:104695170:A:AG	acceptor_gain	0.5000
9:104695199:A:AG	acceptor_gain	0.4900
9:104695154:T:G	donor_gain	0.4800
9:104695164:T:G	acceptor_gain	0.4700
9:104694999:T:G	donor_gain	0.4600
9:104695194:TG:T	acceptor_gain	0.4600
9:104695277:TC:T	donor_gain	0.4600
9:104694618:T:G	donor_gain	0.4500
9:104695179:T:G	acceptor_gain	0.4400
9:104695200:T:G	acceptor_gain	0.4400
9:104695195:G:GC	acceptor_gain	0.4300
9:104695387:TAG:T	acceptor_gain	0.4200
9:104694932:GTGCT:G	donor_gain	0.4100
9:104695082:TG:T	acceptor_gain	0.4100
9:104695258:G:GA	donor_gain	0.4100
9:104695261:C:A	donor_gain	0.4100
9:104695273:C:CA	acceptor_gain	0.4100
9:104695191:TCCTG:T	acceptor_gain	0.4000
9:104695389:G:T	acceptor_gain	0.4000
9:104694564:GGC:G	donor_gain	0.3900
9:104695193:CTG:C	acceptor_gain	0.3900

AlphaMissense

2055 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
9:104694551:T:C	F44L	0.894
9:104694553:C:A	F44L	0.894
9:104694553:C:G	F44L	0.894
9:104695019:T:C	F200L	0.843
9:104695021:C:A	F200L	0.843
9:104695021:C:G	F200L	0.843
9:104694797:T:C	F126L	0.715
9:104694799:C:A	F126L	0.715
9:104694799:C:G	F126L	0.715
9:104695229:T:C	F270L	0.675
9:104695231:C:A	F270L	0.675
9:104695231:C:G	F270L	0.675
9:104695056:A:T	E212V	0.663
9:104695268:T:C	F283L	0.638
9:104695270:C:A	F283L	0.638
9:104695270:C:G	F283L	0.638
9:104694770:T:C	F117L	0.624
9:104694772:T:A	F117L	0.624
9:104694772:T:G	F117L	0.624
9:104694552:T:C	F44S	0.618
9:104694599:T:C	F60L	0.604
9:104694601:C:A	F60L	0.604
9:104694601:C:G	F60L	0.604
9:104694762:T:A	L114H	0.596
9:104694698:T:C	F93L	0.581
9:104694700:C:A	F93L	0.581
9:104694700:C:G	F93L	0.581
9:104695056:A:C	E212A	0.571
9:104694806:T:A	C129S	0.570
9:104694807:G:C	C129S	0.570

dbSNP variants (sampled 300 via entrez): RS1003724910 (9:104695714 C>G,T), RS1004078922 (9:104693737 A>C), RS1006015463 (9:104693822 G>C), RS1006482023 (9:104694092 C>T), RS1010776944 (9:104695740 G>A,C), RS1011903929 (9:104695350 A>G), RS1011969333 (9:104695123 A>G), RS1013904923 (9:104692590 C>T), RS1015534881 (9:104693329 C>A,T), RS1016615308 (9:104693833 C>T), RS1018703893 (9:104695777 G>C), RS1019622542 (9:104692905 C>T), RS1019854339 (9:104695047 T>C), RS1020025942 (9:104692591 C>A,T), RS1022023920 (9:104692847 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

2 associations (top):

Study	Trait	p-value
GCST010241_212	Apolipoprotein A1 levels	1.000000e-09
GCST010242_240	HDL cholesterol levels	1.000000e-08

EFO canonical traits (2, from GWAS)

EFO ID	Trait name
EFO:0004614	apolipoprotein A 1 measurement
EFO:0004612	high density lipoprotein cholesterol measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

3 total (human), top 3 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
CGP 52608	increases reaction, affects binding	1
Diethylhexyl Phthalate	decreases expression	1
Valproic Acid	decreases methylation	1

Clinical trials (associated diseases)

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