OR1M1

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

Basic information

Region (hg38): 19:9087061-9095669

Links

ENSG00000170929 ∙ NCBI:125963 ∙ ∙ HGNC:8220 ∙ Uniprot:Q8NGA1 ∙ 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 OR1M1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR1M1 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	2		26
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	24	2	0

Variants in OR1M1

This is a list of pathogenic ClinVar variants found in the OR1M1 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-9093327-T-C		not specified	Uncertain significance (Jan 26, 2023)
19-9093366-G-A		not specified	Uncertain significance (Aug 23, 2021)
19-9093393-G-A		not specified	Uncertain significance (Oct 25, 2023)
19-9093411-A-C		not specified	Uncertain significance (Oct 26, 2022)
19-9093416-C-T		not specified	Uncertain significance (Dec 04, 2023)
19-9093435-C-T		not specified	Uncertain significance (Mar 11, 2024)
19-9093444-C-T		not specified	Uncertain significance (May 02, 2024)
19-9093449-G-A		not specified	Uncertain significance (Jan 10, 2023)
19-9093482-A-C		not specified	Uncertain significance (Aug 21, 2023)
19-9093548-T-C		not specified	Uncertain significance (Aug 08, 2022)
19-9093571-C-G		not specified	Uncertain significance (Mar 25, 2024)
19-9093593-A-G		not specified	Likely benign (Aug 08, 2023)
19-9093595-G-A		not specified	Uncertain significance (Oct 10, 2023)
19-9093641-G-A		not specified	Likely benign (Jan 06, 2023)
19-9093659-C-T		not specified	Uncertain significance (Nov 15, 2021)
19-9093660-G-A		not specified	Uncertain significance (Mar 02, 2023)
19-9093669-G-T		not specified	Uncertain significance (Jul 14, 2021)
19-9093683-G-A		not specified	Uncertain significance (Dec 13, 2022)
19-9093714-T-C		not specified	Uncertain significance (Feb 06, 2023)
19-9093719-C-G		not specified	Uncertain significance (Nov 13, 2023)
19-9093770-C-T		not specified	Uncertain significance (Sep 17, 2021)
19-9093801-G-A		not specified	Uncertain significance (Dec 21, 2023)
19-9093813-C-G		not specified	Uncertain significance (Feb 27, 2023)
19-9093885-T-A		not specified	Uncertain significance (Jul 12, 2023)
19-9093921-T-A		not specified	Uncertain significance (Apr 26, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR1M1	protein_coding	protein_coding	ENST00000429566	1	1035

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.04	217	178	1.22	0.0000101	2034
Missense in Polyphen		97	73.855	1.3134		878
Synonymous	-0.760	86	77.5	1.11	0.00000500	673
Loss of Function

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish
East Asian
Finnish
European (Non-Finnish)
Middle Eastern
South Asian
Other

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: 0.0997

Intolerance Scores

• loftool: 0.834
• rvis_EVS: 0.71
• rvis_percentile_EVS: 85.68

Haploinsufficiency Scores

• pHI: 0.0858
• hipred: N
• hipred_score: 0.170

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0622

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr24

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