OR2A25
Basic information
Region (hg38): 7:144069811-144075870
Previous symbols: [ "OR2A25P", "OR2A27" ]
Links
Phenotypes
GenCC
Source:
ClinVar
This is a list of variants' phenotypes submitted to
Variants pathogenicity by type
Statistics on ClinVar variants can assist in determining whether a specific variant type in the OR2A25 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 | 1 | |||||
missense | 18 | 21 | ||||
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 | 3 | 1 |
Variants in OR2A25
This is a list of pathogenic ClinVar variants found in the OR2A25 region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
Position | Type | Phenotype | Significance | ClinVar |
---|---|---|---|---|
7-144074272-T-C | not specified | Uncertain significance (Mar 20, 2024) | ||
7-144074347-C-T | not specified | Uncertain significance (May 26, 2024) | ||
7-144074430-G-C | not specified | Uncertain significance (Mar 12, 2024) | ||
7-144074434-G-A | not specified | Likely benign (May 03, 2023) | ||
7-144074455-A-G | not specified | Uncertain significance (May 03, 2023) | ||
7-144074484-A-G | not specified | Uncertain significance (Jun 10, 2024) | ||
7-144074542-A-G | not specified | Uncertain significance (Dec 07, 2021) | ||
7-144074547-G-C | not specified | Uncertain significance (Apr 27, 2023) | ||
7-144074565-G-T | not specified | Likely benign (Jul 21, 2021) | ||
7-144074589-G-A | not specified | Uncertain significance (Oct 12, 2022) | ||
7-144074670-G-A | not specified | Uncertain significance (Feb 07, 2023) | ||
7-144074693-T-G | not specified | Uncertain significance (Sep 16, 2021) | ||
7-144074740-A-G | not specified | Uncertain significance (Mar 07, 2024) | ||
7-144074766-G-T | not specified | Uncertain significance (Aug 02, 2021) | ||
7-144074785-C-T | not specified | Likely benign (Oct 26, 2021) | ||
7-144074809-T-A | not specified | Uncertain significance (Jun 01, 2023) | ||
7-144074811-G-C | not specified | Uncertain significance (Mar 31, 2024) | ||
7-144074827-T-C | not specified | Uncertain significance (Oct 26, 2022) | ||
7-144074883-T-C | not specified | Uncertain significance (Jul 16, 2021) | ||
7-144074884-G-T | not specified | Uncertain significance (May 24, 2023) | ||
7-144074995-T-C | not specified | Uncertain significance (Feb 27, 2024) | ||
7-144075058-T-C | not specified | Uncertain significance (Mar 01, 2023) | ||
7-144075090-C-T | not specified | Uncertain significance (Aug 20, 2023) | ||
7-144075125-G-A | Benign (Mar 29, 2018) | |||
7-144075144-A-T | not specified | Uncertain significance (Jun 09, 2022) |
GnomAD
Source:
Gene | Type | Bio Type | Transcript | Coding Exons | Length |
---|---|---|---|---|---|
OR2A25 | protein_coding | protein_coding | ENST00000408898 | 1 | 1014 |
pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
---|---|---|---|---|---|---|
0.00100 | 0.608 | 0 | 0 | 0 | 0 | 0.00 |
Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
---|---|---|---|---|---|---|
Missense | -0.749 | 186 | 159 | 1.17 | 0.00000803 | 2010 |
Missense in Polyphen | 62 | 55.564 | 1.1158 | 759 | ||
Synonymous | -1.78 | 86 | 67.4 | 1.28 | 0.00000372 | 658 |
Loss of Function | 0.532 | 5 | 6.46 | 0.774 | 3.68e-7 | 90 |
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:
- 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
- 0.460
- rvis_EVS
- 0.4
- rvis_percentile_EVS
- 76.31
Haploinsufficiency Scores
- pHI
- hipred
- N
- hipred_score
- 0.131
- ghis
Essentials
- essential_gene_CRISPR
- essential_gene_CRISPR2
- N
- essential_gene_gene_trap
- N
- gene_indispensability_pred
- N
- gene_indispensability_score
- 0.0702
Gene Damage Prediction
All | Recessive | Dominant | |
---|---|---|---|
Mendelian | Medium | Medium | Medium |
Primary Immunodeficiency | Medium | Medium | Medium |
Cancer | Medium | Medium | Medium |
Mouse Genome Informatics
- Gene name
- Olfr447
- Phenotype
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