OR10J5

olfactory receptor family 10 subfamily J member 5, the group of Olfactory receptors, family 10

Basic information

Region (hg38): 1:159535078-159536007

Links

ENSG00000184155 ∙ NCBI:127385 ∙ OMIM:619546 ∙ HGNC:14993 ∙ Uniprot:Q8NHC4 ∙ 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 OR10J5 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR10J5 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			20	1	1	22
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	20	1	1

Variants in OR10J5

This is a list of pathogenic ClinVar variants found in the OR10J5 region.

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

Position	Type	Phenotype	Significance	ClinVar
1-159535127-T-C		not specified	Uncertain significance (Nov 28, 2023)
1-159535166-G-T		not specified	Uncertain significance (Jan 04, 2022)
1-159535173-T-C		not specified	Uncertain significance (Dec 18, 2023)
1-159535212-A-T		not specified	Uncertain significance (Jun 01, 2023)
1-159535227-G-A		not specified	Uncertain significance (Aug 28, 2023)
1-159535328-A-G		not specified	Uncertain significance (Dec 03, 2021)
1-159535367-A-T		not specified	Uncertain significance (Aug 10, 2021)
1-159535410-C-G		not specified	Uncertain significance (Feb 10, 2023)
1-159535412-T-A			Benign (May 08, 2018)
1-159535422-T-C		not specified	Uncertain significance (Apr 15, 2024)
1-159535445-C-T		not specified	Uncertain significance (Oct 14, 2021)
1-159535466-T-C		not specified	Uncertain significance (Jan 23, 2023)
1-159535470-T-C		not specified	Uncertain significance (Feb 11, 2022)
1-159535614-A-G		not specified	Uncertain significance (Jan 31, 2024)
1-159535656-T-C		not specified	Uncertain significance (May 31, 2023)
1-159535673-C-T		not specified	Uncertain significance (Aug 21, 2023)
1-159535678-A-T		not specified	Uncertain significance (Jan 10, 2023)
1-159535734-T-C		not specified	Uncertain significance (Dec 16, 2023)
1-159535748-A-G		not specified	Uncertain significance (Feb 14, 2023)
1-159535779-T-G		not specified	Uncertain significance (Oct 29, 2021)
1-159535796-G-A		not specified	Likely benign (Aug 17, 2021)
1-159535860-A-C		not specified	Uncertain significance (Jun 27, 2023)
1-159535931-G-T		not specified	Uncertain significance (Jan 05, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR10J5	protein_coding	protein_coding	ENST00000334857	1	1050

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0272	0.807	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.263	157	167	0.943	0.00000775	2022
Missense in Polyphen		43	46.687	0.92103		655
Synonymous	-1.43	77	62.6	1.23	0.00000295	649
Loss of Function	1.05	3	5.71	0.525	3.35e-7	84

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: 0.590
• rvis_EVS: -0.23
• rvis_percentile_EVS: 37.32

Haploinsufficiency Scores

• pHI: 0.304
• hipred: N
• hipred_score: 0.234
• ghis: 0.423

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.121

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr16
• Phenotype: craniofacial phenotype; growth/size/body region phenotype; taste/olfaction phenotype; respiratory system phenotype; nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan)

Gene ontology

• Biological process: G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger;chemical synaptic transmission;detection of chemical stimulus involved in sensory perception of smell;G protein-coupled serotonin receptor signaling pathway
• Cellular component: plasma membrane;integral component of plasma membrane;dendrite
• Molecular function: G protein-coupled receptor activity;olfactory receptor activity;G protein-coupled serotonin receptor activity;neurotransmitter receptor activity