OR13F1

olfactory receptor family 13 subfamily F member 1, the group of Olfactory receptors, family 13

Basic information

Region (hg38): 9:104504263-104505222

Links

ENSG00000186881 ∙ NCBI:138805 ∙ ∙ HGNC:14723 ∙ Uniprot:Q8NGS4 ∙ 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 OR13F1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR13F1 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			23	1		24
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	23	1	0

Variants in OR13F1

This is a list of pathogenic ClinVar variants found in the OR13F1 region.

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

Position	Type	Phenotype	Significance	ClinVar
9-104504282-C-T		not specified	Uncertain significance (Sep 22, 2023)
9-104504293-G-C		not specified	Uncertain significance (Feb 21, 2024)
9-104504302-T-C		not specified	Uncertain significance (Dec 13, 2021)
9-104504435-C-T		not specified	Uncertain significance (Oct 20, 2023)
9-104504449-C-T		not specified	Uncertain significance (Mar 30, 2024)
9-104504489-C-T		not specified	Uncertain significance (Jul 26, 2022)
9-104504494-C-T		not specified	Likely benign (Feb 05, 2024)
9-104504554-G-A		not specified	Uncertain significance (Jun 03, 2024)
9-104504560-C-G		not specified	Uncertain significance (Jul 13, 2021)
9-104504573-C-T		not specified	Uncertain significance (Jul 19, 2023)
9-104504594-A-T		not specified	Uncertain significance (Nov 22, 2023)
9-104504615-T-C		not specified	Uncertain significance (Dec 19, 2022)
9-104504617-G-A		not specified	Uncertain significance (Sep 16, 2021)
9-104504621-A-G		not specified	Uncertain significance (Apr 04, 2024)
9-104504626-C-T		not specified	Uncertain significance (Apr 10, 2023)
9-104504629-T-C		not specified	Uncertain significance (Jan 29, 2024)
9-104504639-T-G		not specified	Uncertain significance (Jul 26, 2021)
9-104504684-G-C		not specified	Uncertain significance (Sep 27, 2021)
9-104504689-C-A		not specified	Uncertain significance (May 08, 2023)
9-104504699-C-T		not specified	Uncertain significance (Mar 07, 2023)
9-104504825-T-C		not specified	Uncertain significance (Jun 06, 2023)
9-104504882-T-A		not specified	Uncertain significance (Jun 21, 2023)
9-104504891-C-T		not specified	Uncertain significance (Dec 19, 2023)
9-104504902-A-C		not specified	Uncertain significance (Jan 31, 2023)
9-104504925-C-G		not specified	Uncertain significance (Jun 02, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR13F1	protein_coding	protein_coding	ENST00000334726	1	1093

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0000128	0.228	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.364	183	170	1.08	0.00000841	2083
Missense in Polyphen		53	54.325	0.97562		709
Synonymous	-0.494	74	68.8	1.08	0.00000365	666
Loss of Function	-0.284	7	6.23	1.12	3.33e-7	79

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: 0.863
• rvis_EVS: 1.6
• rvis_percentile_EVS: 95.87

Haploinsufficiency Scores

• pHI: 0.170
• hipred: N
• hipred_score: 0.170

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0412

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr275

Gene ontology

• Biological process: synaptic transmission, dopaminergic;adenylate cyclase-modulating G protein-coupled receptor signaling pathway;adenylate cyclase-inhibiting dopamine receptor signaling pathway;regulation of dopamine secretion;response to drug;behavioral response to cocaine;detection of chemical stimulus involved in sensory perception of smell;adenylate cyclase-activating adrenergic receptor signaling pathway
• Cellular component: plasma membrane;integral component of plasma membrane
• Molecular function: dopamine neurotransmitter receptor activity, coupled via Gi/Go;adrenergic receptor activity;olfactory receptor activity;dopamine binding