Or6c2 (olfactory receptor family 6 subfamily C member 2) - Rat Genome Database

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Gene: Or6c2 (olfactory receptor family 6 subfamily C member 2) Rattus norvegicus
Analyze
Symbol: Or6c2 (Ensembl: Olr892)
Name: olfactory receptor family 6 subfamily C member 2 (Ensembl:olfactory receptor 892)
RGD ID: 1334254
Description: Predicted to enable olfactory receptor activity. Predicted to be involved in G protein-coupled receptor signaling pathway and detection of chemical stimulus involved in sensory perception of smell. Predicted to be located in plasma membrane. Orthologous to human OR6C2 (olfactory receptor family 6 subfamily C member 2); INTERACTS WITH bisphenol A; aflatoxin B1 (ortholog); dextran sulfate (ortholog).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: olfactory receptor 892; olfactory receptor gene Olr892; olfactory receptor Olr892; Olr892
RGD Orthologs
Human
Mouse
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr872,817,089 - 2,818,027 (+)NCBIGRCr8
mRatBN7.272,188,601 - 2,189,539 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx75,016,674 - 5,017,612 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.076,892,335 - 6,893,273 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.077,176,080 - 7,177,018 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.075,105,770 - 5,106,708 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl75,105,770 - 5,106,708 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.075,096,898 - 5,097,836 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.473,231,280 - 3,232,218 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.173,231,279 - 3,232,218 (-)NCBI
Celera711,126,352 - 11,127,290 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# 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

Genomics

Comparative Map Data
Or6c2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr872,817,089 - 2,818,027 (+)NCBIGRCr8
mRatBN7.272,188,601 - 2,189,539 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx75,016,674 - 5,017,612 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.076,892,335 - 6,893,273 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.077,176,080 - 7,177,018 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.075,105,770 - 5,106,708 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl75,105,770 - 5,106,708 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.075,096,898 - 5,097,836 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.473,231,280 - 3,232,218 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.173,231,279 - 3,232,218 (-)NCBI
Celera711,126,352 - 11,127,290 (+)NCBICelera
Cytogenetic Map7q11NCBI
OR6C2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381255,444,076 - 55,453,347 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1255,444,069 - 55,453,347 (+)EnsemblGRCh38hg38GRCh38
GRCh371255,837,860 - 55,847,131 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,132,265 - 54,133,203 (+)NCBINCBI36Build 36hg18NCBI36
Celera1255,498,203 - 55,499,132 (+)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1252,884,762 - 52,885,700 (+)NCBIHuRef
CHM1_11255,812,785 - 55,813,723 (+)NCBICHM1_1
T2T-CHM13v2.01255,410,625 - 55,419,895 (+)NCBIT2T-CHM13v2.0
Or6c2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910129,362,098 - 129,363,036 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10129,357,661 - 129,364,222 (+)EnsemblGRCm39 Ensembl
GRCm3810129,526,229 - 129,527,167 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10129,521,792 - 129,528,353 (+)EnsemblGRCm38mm10GRCm38
MGSCv3710128,963,285 - 128,964,223 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610128,929,178 - 128,930,116 (+)NCBIMGSCv36mm8
Celera10131,912,187 - 131,913,125 (+)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1077.37NCBI
OR6C2D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1331,362,116 - 31,363,497 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl331,362,550 - 31,363,488 (+)EnsemblCanFam3.1canFam3CanFam3.1
LOC100154719
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl520,387,216 - 20,388,154 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1520,387,216 - 20,388,574 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2521,541,747 - 21,542,694 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103238469
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11151,440,151 - 51,442,888 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1151,441,023 - 51,441,961 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037194,565,631 - 194,573,414 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Or6c2
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:12
Count of miRNA genes:12
Interacting mature miRNAs:12
Transcripts:ENSRNOT00000046001
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system appendage
High
Medium
Low
Below cutoff 2 1 2 1 2 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000046001   ⟹   ENSRNOP00000040375
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl75,105,770 - 5,106,708 (-)Ensembl
RefSeq Acc Id: NM_001000060   ⟹   NP_001000060
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr872,817,089 - 2,818,027 (+)NCBI
mRatBN7.272,188,601 - 2,189,539 (+)NCBI
Rnor_6.075,105,770 - 5,106,708 (-)NCBI
Rnor_5.075,096,898 - 5,097,836 (-)NCBI
RGSC_v3.473,231,280 - 3,232,218 (-)RGD
Celera711,126,352 - 11,127,290 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001000060 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000093044.1
Reference Protein Sequences
RefSeq Acc Id: NP_001000060   ⟸   NM_001000060
- UniProtKB: A0A8I6AIS6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000040375   ⟸   ENSRNOT00000046001
Protein Domains
G-protein coupled receptors family 1 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADN5-F1-model_v2 AlphaFold D4ADN5 1-312 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1334254 AgrOrtholog
BioCyc Gene G2FUF-35290 BioCyc
Ensembl Genes ENSRNOG00000029961 Ensembl
  ENSRNOG00000065284 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000110903.1 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/TrEMBL
InterPro GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/TrEMBL
  Olfact_rcpt UniProtKB/TrEMBL
  Olfact_rcpt_6C-like UniProtKB/TrEMBL
NCBI Gene 288816 ENTREZGENE
PANTHER OLFACTORY RECEPTOR UniProtKB/TrEMBL
  OLFACTORY RECEPTOR 6C2 UniProtKB/TrEMBL
Pfam 7tm_4 UniProtKB/TrEMBL
PhenoGen Or6c2 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  OLFACTORYR UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029961 RatGTEx
  ENSRNOG00000065284 RatGTEx
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt A0A8I6AIS6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-08-16 Or6c2  olfactory receptor family 6 subfamily C member 2  Olr892  olfactory receptor 892  Symbol and Name Changed 1299863 APPROVED
2008-04-30 Olr892  olfactory receptor 892   Olr892_predicted  olfactory receptor 892 (predicted)  'predicted' is removed 2292626 APPROVED
2005-02-04 Olr892_predicted  olfactory receptor 892 (predicted)      Symbol and Name status set to approved 70820 APPROVED