Or2c1 (olfactory receptor family 2 subfamily C member 1) - Rat Genome Database

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Gene: Or2c1 (olfactory receptor family 2 subfamily C member 1) Rattus norvegicus
Analyze
Symbol: Or2c1
Name: olfactory receptor family 2 subfamily C member 1
RGD ID: 1334376
Description: Predicted to enable odorant binding activity and olfactory receptor activity. Predicted to be involved in detection of chemical stimulus involved in sensory perception of smell. Predicted to be located in cell cortex and membrane. Predicted to be active in plasma membrane. Orthologous to human OR2C1 (olfactory receptor family 2 subfamily C member 1); INTERACTS WITH acrylamide; ammonium chloride; atrazine.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: olfactory receptor 1356; olfactory receptor gene Olr1356; olfactory receptor Olr1356; olfactory receptor, family 2, subfamily C, member 1; Olr1356
RGD Orthologs
Human
Mouse
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81012,189,254 - 12,190,192 (-)NCBIGRCr8
mRatBN7.21011,682,890 - 11,683,828 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1011,681,001 - 11,692,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1016,390,427 - 16,391,365 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01015,879,259 - 15,880,197 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01011,548,105 - 11,549,043 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01011,941,947 - 11,942,885 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1011,941,947 - 11,942,885 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01010,698,257 - 10,699,195 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41011,951,294 - 11,952,232 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11011,951,293 - 11,952,232 (-)NCBI
Celera1010,639,353 - 10,640,291 (-)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Specific repertoire of olfactory receptor genes in the male germ cells of several mammalian species. Vanderhaeghen P, etal., Genomics 1997 Feb 1;39(3):239-46.
Additional References at PubMed
PMID:16805845   PMID:25901328   PMID:29659735  


Genomics

Comparative Map Data
Or2c1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81012,189,254 - 12,190,192 (-)NCBIGRCr8
mRatBN7.21011,682,890 - 11,683,828 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1011,681,001 - 11,692,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1016,390,427 - 16,391,365 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01015,879,259 - 15,880,197 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01011,548,105 - 11,549,043 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01011,941,947 - 11,942,885 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1011,941,947 - 11,942,885 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01010,698,257 - 10,699,195 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41011,951,294 - 11,952,232 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11011,951,293 - 11,952,232 (-)NCBI
Celera1010,639,353 - 10,640,291 (-)NCBICelera
Cytogenetic Map10q12NCBI
OR2C1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38163,322,931 - 3,358,137 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl163,355,889 - 3,357,306 (+)EnsemblGRCh38hg38GRCh38
GRCh37163,405,889 - 3,407,306 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36163,345,890 - 3,346,925 (+)NCBINCBI36Build 36hg18NCBI36
Build 34163,345,941 - 3,346,880NCBI
Celera163,612,661 - 3,613,696 (+)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef163,375,443 - 3,376,478 (+)NCBIHuRef
CHM1_1163,406,099 - 3,407,134 (+)NCBICHM1_1
T2T-CHM13v2.0163,349,985 - 3,384,350 (+)NCBIT2T-CHM13v2.0
Or2c1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39163,656,839 - 3,657,777 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl163,648,742 - 3,662,611 (+)EnsemblGRCm39 Ensembl
GRCm38163,838,975 - 3,839,913 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl163,830,878 - 3,844,747 (+)EnsemblGRCm38mm10GRCm38
MGSCv37163,838,975 - 3,839,913 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36163,754,203 - 3,755,141 (+)NCBIMGSCv36mm8
Celera164,469,476 - 4,470,414 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map162.26NCBI
LOC102028688
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544214,000,372 - 14,001,310 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544214,000,372 - 14,005,737 (-)NCBIChiLan1.0ChiLan1.0
OR2C1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1637,844,712 - 37,846,121 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl637,844,712 - 37,845,650 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha641,788,092 - 41,789,030 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0638,060,012 - 38,060,950 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl638,060,012 - 38,060,950 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1637,842,830 - 37,843,768 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0637,815,268 - 37,816,206 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0638,146,816 - 38,147,754 (-)NCBIUU_Cfam_GSD_1.0
LOC101977328
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344105,806,135 - 105,808,055 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936694902,347 - 903,285 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936694901,542 - 905,354 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100516428
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl338,832,911 - 38,833,849 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1338,831,184 - 38,834,678 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2340,132,906 - 40,133,942 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103227360
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.153,032,514 - 3,071,413 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl53,069,895 - 3,070,824 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606827,749,997 - 27,751,696 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101704312
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248241,166,431 - 1,167,369 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248241,161,671 - 1,167,369 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Or2c1
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:106
Count of miRNA genes:92
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000061019
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat

Markers in Region
Olfr15  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21011,682,903 - 11,683,828 (+)MAPPERmRatBN7.2
Rnor_6.01011,941,961 - 11,942,885NCBIRnor6.0
Rnor_5.01010,698,271 - 10,699,195UniSTSRnor5.0
RGSC_v3.41011,951,308 - 11,952,232UniSTSRGSC3.4
Celera1010,639,367 - 10,640,291UniSTS
Cytogenetic Map10q12UniSTS


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 hemolymphoid system integumental system musculoskeletal system reproductive system respiratory system appendage
High
Medium
Low 3
Below cutoff 1 1 1 1 7 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000061019   ⟹   ENSRNOP00000057735
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1011,681,682 - 11,684,180 (-)Ensembl
Rnor_6.0 Ensembl1011,941,947 - 11,942,885 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103988   ⟹   ENSRNOP00000080204
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1011,681,001 - 11,692,105 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106432   ⟹   ENSRNOP00000082718
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1011,681,481 - 11,686,459 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114913   ⟹   ENSRNOP00000080852
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1011,681,001 - 11,688,391 (-)Ensembl
RefSeq Acc Id: NM_001000493   ⟹   NP_001000493
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81012,189,254 - 12,190,192 (-)NCBI
mRatBN7.21011,682,890 - 11,683,828 (-)NCBI
Rnor_6.01011,941,947 - 11,942,885 (-)NCBI
Rnor_5.01010,698,257 - 10,699,195 (-)NCBI
RGSC_v3.41011,951,294 - 11,952,232 (-)RGD
Celera1010,639,353 - 10,640,291 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001000493 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA61853 (Get FASTA)   NCBI Sequence Viewer  
  EDL96325 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000057735
  ENSRNOP00000057735.1
  ENSRNOP00000080204.1
  ENSRNOP00000080852.1
  ENSRNOP00000082718.1
Reference Protein Sequences
RefSeq Acc Id: NP_001000493   ⟸   NM_001000493
- UniProtKB: G3V9S1 (UniProtKB/TrEMBL),   A6K4V0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000057735   ⟸   ENSRNOT00000061019
RefSeq Acc Id: ENSRNOP00000082718   ⟸   ENSRNOT00000106432
RefSeq Acc Id: ENSRNOP00000080852   ⟸   ENSRNOT00000114913
RefSeq Acc Id: ENSRNOP00000080204   ⟸   ENSRNOT00000103988
Protein Domains
G-protein coupled receptors family 1 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V9S1-F1-model_v2 AlphaFold G3V9S1 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:1334376 AgrOrtholog
BioCyc Gene G2FUF-25990 BioCyc
Ensembl Genes ENSRNOG00000039773 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061019 ENTREZGENE
  ENSRNOT00000061019.2 UniProtKB/TrEMBL
  ENSRNOT00000103988.1 UniProtKB/TrEMBL
  ENSRNOT00000106432.1 UniProtKB/TrEMBL
  ENSRNOT00000114913.1 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/TrEMBL
InterPro GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_supfam UniProtKB/TrEMBL
  Olfact_rcpt UniProtKB/TrEMBL
KEGG Report rno:302954 UniProtKB/TrEMBL
NCBI Gene 302954 ENTREZGENE
PANTHER OLFACTORY RECEPTOR UniProtKB/TrEMBL
  OLFACTORY RECEPTOR 2C1 UniProtKB/TrEMBL
Pfam 7tm_4 UniProtKB/TrEMBL
PhenoGen Or2c1 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  OLFACTORYR UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000039773 RatGTEx
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt A6K4V0 ENTREZGENE, UniProtKB/TrEMBL
  G3V9S1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-08-16 Or2c1  olfactory receptor family 2 subfamily C member 1  Olr1356  olfactory receptor 1356  Symbol and Name Changed 1299863 APPROVED
2005-02-04 Olr1356  olfactory receptor 1356      Symbol and Name status set to approved 70820 APPROVED