OR56B1

olfactory receptor family 56 subfamily B member 1, the group of Olfactory receptors, family 56

Basic information

Region (hg38): 11:5736448-5738523

Previous symbols: [ "OR56B1P" ]

Links

ENSG00000181023 ∙ NCBI:387748 ∙ ∙ HGNC:15245 ∙ Uniprot:Q8NGI3 ∙ 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 OR56B1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR56B1 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			17	1		18
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	17	1	0

Variants in OR56B1

This is a list of pathogenic ClinVar variants found in the OR56B1 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-5736584-T-C		not specified	Uncertain significance (Aug 11, 2022)
11-5736634-C-G		not specified	Uncertain significance (Dec 16, 2023)
11-5736662-C-T		not specified	Uncertain significance (Jan 19, 2024)
11-5736674-T-C		not specified	Uncertain significance (Jun 29, 2022)
11-5736710-A-C		not specified	Uncertain significance (Dec 16, 2023)
11-5736719-T-C		not specified	Uncertain significance (Sep 12, 2023)
11-5736738-C-T			Likely benign (Jul 01, 2024)
11-5736739-C-T		not specified	Uncertain significance (Jun 01, 2023)
11-5736764-C-G		not specified	Uncertain significance (Oct 26, 2021)
11-5736883-A-G		not specified	Uncertain significance (Oct 29, 2021)
11-5736944-C-T		not specified	Uncertain significance (Feb 23, 2023)
11-5737037-A-G		not specified	Uncertain significance (May 23, 2023)
11-5737064-T-C		not specified	Uncertain significance (Apr 04, 2024)
11-5737214-C-G		not specified	Uncertain significance (Feb 13, 2023)
11-5737391-C-T		not specified	Uncertain significance (Jul 19, 2023)
11-5737393-C-G		not specified	Uncertain significance (Feb 01, 2023)
11-5737411-G-C		not specified	Uncertain significance (Jul 25, 2023)
11-5737424-A-G		not specified	Likely benign (Jun 24, 2022)
11-5737468-C-T		not specified	Uncertain significance (Apr 25, 2023)
11-5737484-G-C		not specified	Uncertain significance (Apr 13, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
OR56B1	protein_coding	protein_coding	ENST00000317121	1	1088

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.06e-9	0.0137	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.923	193	160	1.21	0.00000741	2100
Missense in Polyphen		44	40.444	1.0879		624
Synonymous	-1.57	78	62.3	1.25	0.00000286	689
Loss of Function	-1.75	11	6.27	1.75	2.71e-7	89

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: 0.772
• rvis_EVS: 1.89
• rvis_percentile_EVS: 97.27

Haploinsufficiency Scores

• pHI: 0.0722
• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.107

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Olfr657

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