Or13c9 (olfactory receptor family 13 subfamily C member 9) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Or13c9 (olfactory receptor family 13 subfamily C member 9) Rattus norvegicus
Analyze
Symbol: Or13c9
Name: olfactory receptor family 13 subfamily C member 9
RGD ID: 1333551
Description: Predicted to enable olfactory receptor activity. Predicted to be involved in detection of chemical stimulus involved in sensory perception of smell. Predicted to be located in nucleoplasm. Predicted to be active in plasma membrane. Orthologous to several human genes including OR13C9 (olfactory receptor family 13 subfamily C member 9); INTERACTS WITH atrazine; bisphenol A; cadmium atom (ortholog).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: olfactory receptor 852; olfactory receptor gene Olr852; olfactory receptor Olr852; Olr852
RGD Orthologs
Human
Mouse
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8572,351,109 - 72,352,059 (-)NCBIGRCr8
mRatBN7.2567,555,718 - 67,556,668 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl567,552,266 - 67,560,535 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx569,463,773 - 69,464,723 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0571,255,753 - 71,256,703 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0571,252,583 - 71,253,533 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0569,751,364 - 69,752,314 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl569,751,364 - 69,752,314 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0573,915,317 - 73,916,267 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4570,366,726 - 70,367,676 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1570,371,838 - 70,372,789 (-)NCBI
Celera566,463,128 - 66,464,078 (-)NCBICelera
Cytogenetic Map5q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Or13c9Ratatrazine affects methylationEXP 6480464Atrazine affects the methylation of OR13C9 geneCTDPMID:35440735
Or13c9Ratbisphenol A decreases expressionEXP 6480464bisphenol A results in decreased expression of OR13C9 mRNACTDPMID:25181051
Or13c9Ratcadmium atom multiple interactionsISOOR13C9 (Homo sapiens)6480464[Cadmium Chloride results in increased abundance of Cadmium] which results in decreased expression of OR13C9 mRNACTDPMID:35301059
Or13c9Ratcadmium dichloride multiple interactionsISOOR13C9 (Homo sapiens)6480464[Cadmium Chloride results in increased abundance of Cadmium] which results in decreased expression of OR13C9 mRNACTDPMID:35301059
Or13c9RatCGP 52608 multiple interactionsISOOR13C9 (Homo sapiens)6480464CGP 52608 promotes the reaction [RORA protein binds to OR13C9 gene]CTDPMID:28238834
Or13c9Ratvalproic acid decreases methylationISOOR13C9 (Homo sapiens)6480464Valproic Acid results in decreased methylation of OR13C9 geneCTDPMID:29154799


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Or13c9Ratdetection of chemical stimulus involved in sensory perception of smell involved_inIBAMGI:106182 and PANTHER:PTN0028180001600115GO_REF:0000033GO_CentralGO_REF:0000033
Or13c9Ratdetection of chemical stimulus involved in sensory perception of smell  IEA (All species)1303377CREATED_DATE field changed to comply with GOC standards. Original CREATED_DATE: 2005-02-17RGD 
Or13c9RatG protein-coupled receptor signaling pathway involved_inIEAUniProtKB-KW:KW-02971600115GO_REF:0000043UniProtGO_REF:0000043
Or13c9RatG protein-coupled receptor signaling pathway  IEA (All species)1303377CREATED_DATE field changed to comply with GOC standards. Original CREATED_DATE: 2005-02-17RGD 
Or13c9RatG protein-coupled receptor signaling pathway involved_inIEAInterPro:IPR000276 and InterPro:IPR0007251600115GO_REF:0000002InterProGO_REF:0000002
Or13c9Ratsensory perception of smell involved_inIEAUniProtKB-KW:KW-05521600115GO_REF:0000043UniProtGO_REF:0000043
Or13c9Ratsignal transduction involved_inIEAUniProtKB-KW:KW-08071600115GO_REF:0000043UniProtGO_REF:0000043

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Or13c9Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Or13c9Ratmembrane located_inIEAInterPro:IPR000276 more ...1600115GO_REF:0000002InterProGO_REF:0000002
Or13c9Ratnucleoplasm located_inISOOR13C9 (Homo sapiens)1624291 RGDGO_REF:0000052
Or13c9Ratplasma membrane located_inIEAUniProtKB-SubCell:SL-00391600115GO_REF:0000044UniProtGO_REF:0000044
Or13c9Ratplasma membrane located_inIEAUniProtKB-KW:KW-10031600115GO_REF:0000043UniProtGO_REF:0000043
Or13c9Ratplasma membrane located_inISOOR13C9 (Homo sapiens)1624291 RGDGO_REF:0000052
Or13c9Ratplasma membrane is_active_inIBAMGI:106648 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Or13c9RatG protein-coupled receptor activity enablesIEAUniProtKB-KW:KW-02971600115GO_REF:0000043UniProtGO_REF:0000043
Or13c9RatG protein-coupled receptor activity enablesIEAInterPro:IPR0002761600115GO_REF:0000002InterProGO_REF:0000002
Or13c9Ratolfactory receptor activity enablesIBAMGI:106182 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Or13c9Ratolfactory receptor activity  IEA (All species)1303377CREATED_DATE field changed to comply with GOC standards. Original CREATED_DATE: 2005-02-17RGD 
Or13c9Ratolfactory receptor activity enablesIEAInterPro:IPR0007251600115GO_REF:0000002InterProGO_REF:0000002

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Or13c9Rattaste/olfaction phenotype  IEA 1303377 RGD 

#
Reference Title
Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Gibbs RA, etal., Nature 2004 Apr 1;428(6982):493-521.
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions


Or13c9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8572,351,109 - 72,352,059 (-)NCBIGRCr8
mRatBN7.2567,555,718 - 67,556,668 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl567,552,266 - 67,560,535 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx569,463,773 - 69,464,723 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0571,255,753 - 71,256,703 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0571,252,583 - 71,253,533 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0569,751,364 - 69,752,314 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl569,751,364 - 69,752,314 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0573,915,317 - 73,916,267 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4570,366,726 - 70,367,676 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1570,371,838 - 70,372,789 (-)NCBI
Celera566,463,128 - 66,464,078 (-)NCBICelera
Cytogenetic Map5q23NCBI
OR13C9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389104,617,248 - 104,618,204 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9104,617,248 - 104,618,204 (-)EnsemblGRCh38hg38GRCh38
GRCh379107,379,529 - 107,380,485 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369106,419,350 - 106,420,306 (-)NCBINCBI36Build 36hg18NCBI36
Build 349104,459,083 - 104,460,040NCBI
Celera977,885,142 - 77,886,098 (-)NCBICelera
Cytogenetic Map9q31.1NCBI
HuRef976,982,330 - 76,983,286 (-)NCBIHuRef
CHM1_19107,526,412 - 107,527,368 (-)NCBICHM1_1
T2T-CHM13v2.09116,792,032 - 116,792,988 (-)NCBIT2T-CHM13v2.0
Or13c9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39452,935,430 - 52,936,381 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl452,935,430 - 52,936,381 (-)EnsemblGRCm39 Ensembl
GRCm38452,935,430 - 52,936,381 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl452,935,430 - 52,936,381 (-)EnsemblGRCm38mm10GRCm38
MGSCv37452,948,302 - 52,949,253 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36452,956,530 - 52,957,481 (-)NCBIMGSCv36mm8
Celera452,910,154 - 52,911,105 (-)NCBICelera
Cytogenetic Map4B2NCBI
cM Map428.57NCBI
LOC100154900
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11245,961,394 - 245,964,479 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21275,289,962 - 275,290,939 (+)NCBISscrofa10.2Sscrofa10.2susScr3

.

.
Variants in Or13c9
6 total Variants

Predicted Target Of
Summary Value
Count of predictions:113
Count of miRNA genes:88
Interacting mature miRNAs:92
Transcripts:ENSRNOT00000024724
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


1 to 10 of 41 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
1598814Mcs13Mammary carcinoma susceptibility QTL 130.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)56319089069927503Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)56029343498603051Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat

1 to 10 of 41 rows





RefSeq Transcripts NM_001000399 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000024724   ⟹   ENSRNOP00000024724
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl569,751,364 - 69,752,314 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110413   ⟹   ENSRNOP00000080783
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl567,552,266 - 67,560,535 (-)Ensembl
RefSeq Acc Id: NM_001000399   ⟹   NP_001000399
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,351,109 - 72,352,059 (-)NCBI
mRatBN7.2567,555,718 - 67,556,668 (-)NCBI
Rnor_6.0569,751,364 - 69,752,314 (-)NCBI
Rnor_5.0573,915,317 - 73,916,267 (-)NCBI
RGSC_v3.4570,366,726 - 70,367,676 (-)RGD
Celera566,463,128 - 66,464,078 (-)RGD
Sequence:
Protein RefSeqs NP_001000399 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL91722 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000080783.1
  ENSRNOP00000112801
RefSeq Acc Id: NP_001000399   ⟸   NM_001000399
- UniProtKB: D3ZD42 (UniProtKB/TrEMBL),   A6KDN3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000024724   ⟸   ENSRNOT00000024724
Ensembl Acc Id: ENSRNOP00000080783   ⟸   ENSRNOT00000110413
G-protein coupled receptors family 1 profile

Name Modeler Protein Id AA Range Protein Structure
AF-D3ZD42-F1-model_v2 AlphaFold D3ZD42 1-316 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen



1 to 25 of 25 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-41288 BioCyc
Ensembl Genes ENSRNOG00000018362 Ensembl
  ENSRNOG00000067134 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000080507 ENTREZGENE
Ensembl Transcript ENSRNOT00000110413.1 UniProtKB/TrEMBL
  ENSRNOT00000173998 ENTREZGENE
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/TrEMBL
InterPro 7TM_GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_supfam UniProtKB/TrEMBL
  Olfact_rcpt UniProtKB/TrEMBL
KEGG Report rno:298039 UniProtKB/TrEMBL
NCBI Gene 298039 ENTREZGENE
PANTHER OLFACTORY RECEPTOR UniProtKB/TrEMBL
Pfam 7tm_4 UniProtKB/TrEMBL
PhenoGen Or13c9 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  OLFACTORYR UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018362 RatGTEx
  ENSRNOG00000067134 RatGTEx
  ENSRNOG00000080507 RatGTEx
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt A6KDN3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZD42 ENTREZGENE, UniProtKB/TrEMBL
1 to 25 of 25 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-08-16 Or13c9  olfactory receptor family 13 subfamily C member 9  Olr852  olfactory receptor 852  Symbol and Name Changed 1299863 APPROVED
2008-04-30 Olr852  olfactory receptor 852   Olr852_predicted  olfactory receptor 852 (predicted)  'predicted' is removed 2292626 APPROVED
2005-02-04 Olr852_predicted  olfactory receptor 852 (predicted)      Symbol and Name status set to approved 70820 APPROVED