OR4K17

olfactory receptor family 4 subfamily K member 17, the group of Olfactory receptors, family 4

Basic information

Region (hg38): 14:20110739-20122199

Links

ENSG00000176230 ∙ NCBI:390436 ∙ ∙ HGNC:15355 ∙ Uniprot:Q8NGC6 ∙ 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 OR4K17 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR4K17 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			24	1		25
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding			5			5
Total	0	0	29	1	0

Variants in OR4K17

This is a list of pathogenic ClinVar variants found in the OR4K17 region.

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

Position	Type	Phenotype	Significance	ClinVar
14-20117442-G-C		not specified	Uncertain significance (Feb 13, 2023)
14-20117444-G-A		not specified	Uncertain significance (Jan 09, 2024)
14-20117471-A-G		not specified	Uncertain significance (Jun 06, 2023)
14-20117479-G-A		not specified	Uncertain significance (Sep 13, 2023)
14-20117494-G-A		not specified	Uncertain significance (Dec 18, 2023)
14-20117516-A-T		not specified	Uncertain significance (Sep 07, 2022)
14-20117530-G-A		not specified	Uncertain significance (Oct 26, 2021)
14-20117548-C-A		not specified	Uncertain significance (Nov 14, 2023)
14-20117594-C-T		not specified	Uncertain significance (Mar 26, 2024)
14-20117621-G-A		not specified	Uncertain significance (Mar 02, 2023)
14-20117678-A-G		not specified	Uncertain significance (Mar 29, 2023)
14-20117690-G-A		not specified	Uncertain significance (Apr 04, 2024)
14-20117740-G-T		not specified	Uncertain significance (May 29, 2024)
14-20117771-T-G		not specified	Uncertain significance (Mar 07, 2024)
14-20117810-T-C		not specified	Uncertain significance (Feb 16, 2023)
14-20117825-G-A		not specified	Uncertain significance (May 28, 2024)
14-20117830-G-A		not specified	Uncertain significance (Jul 26, 2022)
14-20117876-T-C		not specified	Uncertain significance (Jan 19, 2024)
14-20117879-G-T		not specified	Uncertain significance (Feb 06, 2023)
14-20117891-A-G		not specified	Uncertain significance (Dec 05, 2022)
14-20117917-G-C		not specified	Uncertain significance (Feb 16, 2023)
14-20117971-T-C		not specified	Likely benign (Sep 25, 2023)
14-20118014-A-G		not specified	Uncertain significance (Jan 19, 2024)
14-20118041-T-C		not specified	Uncertain significance (Jun 02, 2023)
14-20118068-T-C		not specified	Uncertain significance (Jan 24, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR4K17	protein_coding	protein_coding	ENST00000315543	1	1032

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00176	0.491	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.97	247	174	1.42	0.00000777	2259
Missense in Polyphen		69	50.926	1.3549		716
Synonymous	-2.08	85	63.8	1.33	0.00000296	704
Loss of Function	0.0630	4	4.14	0.967	1.73e-7	74

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)

Recessive Scores

• pRec: 0.0813

Intolerance Scores

• loftool: 0.552
• rvis_EVS: 0.35
• rvis_percentile_EVS: 74.37

Haploinsufficiency Scores

• pHI: 0.0641
• hipred: N
• hipred_score: 0.123

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0166

Gene Damage Prediction

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

Gene ontology

• Biological process: G protein-coupled receptor signaling pathway;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