Human Gene OR2S2 (ENST00000341959.2) from GENCODE V44
  Description: Homo sapiens olfactory receptor family 2 subfamily S member 2 (OR2S2), mRNA. (from RefSeq NM_019897)
RefSeq Summary (NM_019897): Olfactory receptors interact with odorant molecules in the nose, to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. This olfactory receptor gene is a segregating pseudogene, where some individuals have an allele that encodes a functional olfactory receptor, while other individuals have an allele encoding a protein that is predicted to be non-functional. [provided by RefSeq, Jul 2015]. Sequence Note: This gene is a segregating pseudogene. This RefSeq represents the protein encoded by the reference genome allele, which is predicted to be functional according to the Classifier for Olfactory Receptor Pseudogenes. CCDS Note: This olfactory receptor gene is a segregating pseudogene (PMID:22908908), where some individuals have an allele that encodes a functional olfactory receptor, while other individuals have an allele that is predicted to be non-functional. This CCDS is being retained because the Classifier for Olfactory Receptor Pseudogenes (CORP) predicts the reference genome allele to be functional.
Gencode Transcript: ENST00000341959.2
Gencode Gene: ENSG00000278889.4
Transcript (Including UTRs)
   Position: hg38 chr9:35,957,108-35,958,154 Size: 1,047 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg38 chr9:35,957,139-35,958,098 Size: 960 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:35,957,108-35,958,154)mRNA (may differ from genome)Protein (319 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGIneXtProtPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: OR2S1_HUMAN
DESCRIPTION: RecName: Full=Olfactory receptor 2S2; AltName: Full=Olfactory receptor OR9-3;
FUNCTION: Odorant receptor (Potential).
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein.
SIMILARITY: Belongs to the G-protein coupled receptor 1 family.
WEB RESOURCE: Name=Human Olfactory Receptor Data Exploratorium (HORDE); URL="http://bip.weizmann.ac.il/cgi-bin/HORDE/showGene.pl?key=symbol&value=OR2S2";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -15.1056-0.270 Picture PostScript Text
3' UTR -5.9031-0.190 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000276 - 7TM_GPCR_Rhodpsn
IPR017452 - GPCR_Rhodpsn_supfam
IPR000725 - Olfact_rcpt

ModBase Predicted Comparative 3D Structure on Q9NQN1
FrontTopSide
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGI     
Protein Sequence     
Alignment     

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004871 signal transducer activity
GO:0004930 G-protein coupled receptor activity
GO:0004984 olfactory receptor activity

Biological Process:
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007608 sensory perception of smell
GO:0050896 response to stimulus
GO:0050911 detection of chemical stimulus involved in sensory perception of smell

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC104869 - Homo sapiens olfactory receptor, family 2, subfamily S, member 2, mRNA (cDNA clone MGC:132529 IMAGE:8143872), complete cds.
BC113651 - Homo sapiens olfactory receptor, family 2, subfamily S, member 2, mRNA (cDNA clone MGC:142211 IMAGE:8322703), complete cds.
HQ258184 - Synthetic construct Homo sapiens clone IMAGE:100072493 olfactory receptor, family 2, subfamily S, member 2 (OR2S2) gene, encodes complete protein.
KJ894339 - Synthetic construct Homo sapiens clone ccsbBroadEn_03733 OR2S2 gene, encodes complete protein.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04740 - Olfactory transduction

Reactome (by CSHL, EBI, and GO)

Protein Q9NQN1 (Reactome details) participates in the following event(s):

R-HSA-381750 Olfactory Receptor - G Protein olfactory trimer complex formation
R-HSA-381753 Olfactory Signaling Pathway
R-HSA-418555 G alpha (s) signalling events
R-HSA-388396 GPCR downstream signalling
R-HSA-372790 Signaling by GPCR
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000341959.1, NM_019897, OR2S1_HUMAN, Q2M3L0, Q6IF19, Q96R42, Q9NQN1, uc011lpi.1, uc011lpi.2
UCSC ID: ENST00000341959.2
RefSeq Accession: NM_019897
Protein: Q9NQN1 (aka OR2S1_HUMAN or O2S2_HUMAN)
CCDS: CCDS6596.2

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.