OR6M1

olfactory receptor family 6 subfamily M member 1, the group of Olfactory receptors, family 6

Basic information

Region (hg38): 11:123805407-123806349

Links

ENSG00000196099 ∙ NCBI:390261 ∙ ∙ HGNC:14711 ∙ Uniprot:Q8NGM8 ∙ 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 OR6M1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR6M1 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			18	2		20
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	18	2	0

Variants in OR6M1

This is a list of pathogenic ClinVar variants found in the OR6M1 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-123805439-C-T		not specified	Uncertain significance (May 25, 2022)
11-123805451-T-C		not specified	Uncertain significance (Dec 15, 2022)
11-123805610-A-G		not specified	Uncertain significance (Oct 12, 2021)
11-123805659-G-C		not specified	Uncertain significance (Aug 04, 2023)
11-123805677-T-C		not specified	Uncertain significance (Nov 17, 2022)
11-123805704-C-T		not specified	Uncertain significance (May 29, 2024)
11-123805775-A-G		not specified	Uncertain significance (May 30, 2023)
11-123805834-A-T		not specified	Uncertain significance (May 03, 2023)
11-123805871-A-G		not specified	Likely benign (Jun 16, 2023)
11-123805948-C-G		not specified	Uncertain significance (Jul 06, 2021)
11-123805964-T-G		not specified	Uncertain significance (Oct 17, 2023)
11-123805992-G-A		not specified	Uncertain significance (Aug 28, 2023)
11-123806030-G-A		not specified	Uncertain significance (Jul 14, 2021)
11-123806036-A-T		not specified	Uncertain significance (Nov 10, 2022)
11-123806039-A-G		not specified	Uncertain significance (May 31, 2023)
11-123806121-G-C		not specified	Uncertain significance (Dec 03, 2021)
11-123806127-T-C		not specified	Likely benign (Apr 17, 2023)
11-123806150-A-G		not specified	Uncertain significance (Jan 06, 2023)
11-123806166-T-G		not specified	Uncertain significance (Jan 04, 2024)
11-123806168-A-C		not specified	Uncertain significance (Nov 07, 2023)
11-123806271-C-T		not specified	Uncertain significance (Oct 10, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR6M1	protein_coding	protein_coding	ENST00000309154	1	1053

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0000824	0.335	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.161	165	171	0.965	0.00000846	2029
Missense in Polyphen		52	41.425	1.2553		569
Synonymous	-1.37	82	67.7	1.21	0.00000342	672
Loss of Function	-0.0807	6	5.79	1.04	3.10e-7	69

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: 0.0905

Intolerance Scores

• loftool: 0.529
• rvis_EVS: 1.11
• rvis_percentile_EVS: 91.99

Haploinsufficiency Scores

• hipred: N
• hipred_score: 0.146

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0252

Gene Damage Prediction

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

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