Or2t1 (olfactory receptor family 2 subfamily T member 1) - 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   new 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
Gene: Or2t1 (olfactory receptor family 2 subfamily T member 1) Rattus norvegicus
Analyze
Symbol: Or2t1
Name: olfactory receptor family 2 subfamily T member 1
RGD ID: 1334361
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 active in plasma membrane. Orthologous to human OR2T1 (olfactory receptor family 2 subfamily T member 1); INTERACTS WITH bisphenol A; copper atom; copper(0).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: olfactory receptor 1606; olfactory receptor gene Olr1606; olfactory receptor Olr1606; Olr1606; tpcr38
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81513,391,080 - 13,392,033 (-)NCBIGRCr8
mRatBN7.21510,960,562 - 10,961,515 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1510,954,685 - 10,966,743 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1513,087,941 - 13,088,894 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01514,019,713 - 14,020,666 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01512,301,220 - 12,302,173 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01512,261,122 - 12,262,075 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1512,261,028 - 12,262,164 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01516,294,146 - 16,295,099 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41512,472,119 - 12,473,072 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11512,472,118 - 12,473,072 (-)NCBI
Celera1510,968,306 - 10,969,259 (-)NCBICelera
Cytogenetic Map15p16NCBI
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

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. 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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. 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.

Genomics

Comparative Map Data
Or2t1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81513,391,080 - 13,392,033 (-)NCBIGRCr8
mRatBN7.21510,960,562 - 10,961,515 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1510,954,685 - 10,966,743 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1513,087,941 - 13,088,894 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01514,019,713 - 14,020,666 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01512,301,220 - 12,302,173 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01512,261,122 - 12,262,075 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1512,261,028 - 12,262,164 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01516,294,146 - 16,295,099 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41512,472,119 - 12,473,072 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11512,472,118 - 12,473,072 (-)NCBI
Celera1510,968,306 - 10,969,259 (-)NCBICelera
Cytogenetic Map15p16NCBI
OR2T1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381248,403,048 - 248,408,020 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1248,403,048 - 248,408,020 (+)EnsemblGRCh38hg38GRCh38
GRCh371248,566,349 - 248,571,321 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361246,635,919 - 246,637,028 (+)NCBINCBI36Build 36hg18NCBI36
Build 341244,895,336 - 244,896,446NCBI
Celera1221,855,733 - 221,856,842 (+)NCBICelera
Cytogenetic Map1q44NCBI
HuRef1218,956,300 - 218,957,409 (+)NCBIHuRef
CHM1_11249,841,494 - 249,842,603 (+)NCBICHM1_1
T2T-CHM13v2.01247,828,076 - 247,833,646 (+)NCBIT2T-CHM13v2.0
Or2t1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39148,140,697 - 8,141,650 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl148,137,972 - 8,146,935 (-)EnsemblGRCm39 Ensembl
GRCm381414,328,113 - 14,329,066 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1414,322,828 - 14,331,791 (+)EnsemblGRCm38mm10GRCm38
MGSCv371415,160,627 - 15,161,580 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361413,121,380 - 13,122,333 (+)NCBIMGSCv36mm8
Celera1410,004,247 - 10,005,200 (+)NCBICelera
Cytogenetic Map14A1NCBI
cM Map147.08NCBI
LOC102021128
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541830,198,087 - 30,199,043 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541830,198,087 - 30,199,058 (-)NCBIChiLan1.0ChiLan1.0
LOC100972936
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21579,291 - 585,402 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11855,639 - 861,338 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01224,108,483 - 224,109,592 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11229,552,860 - 229,553,969 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1229,552,860 - 229,553,969 (+)Ensemblpanpan1.1panPan2
OR2T1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1142,613,861 - 2,614,946 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl142,613,990 - 2,614,946 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha142,264,145 - 2,265,101 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0142,346,746 - 2,347,702 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl142,346,746 - 2,347,702 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1142,510,348 - 2,511,304 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0142,310,991 - 2,311,947 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0142,251,859 - 2,252,815 (-)NCBIUU_Cfam_GSD_1.0
LOC100623502
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1254,339,010 - 54,340,093 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22161,489,632 - 161,502,693 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103231065
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12585,325,169 - 85,330,931 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605588,114,469 - 88,115,290 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Or2t1
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:37
Count of miRNA genes:36
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000008798
Prediction methods:Miranda, Rnahybrid, Targetscan
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
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15105825014481294Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)colorectal tumor number (CMO:0001794)15226636822711984Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15226636822711984Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat


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 renal system reproductive system
High
Medium
Low 2
Below cutoff 1 1 3 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000008798   ⟹   ENSRNOP00000008798
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1512,261,028 - 12,262,164 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097072   ⟹   ENSRNOP00000088504
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1510,954,685 - 10,966,743 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103426   ⟹   ENSRNOP00000094235
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1510,954,694 - 10,966,743 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104048   ⟹   ENSRNOP00000094543
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1510,954,685 - 10,966,743 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117014   ⟹   ENSRNOP00000078522
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1510,954,685 - 10,966,743 (-)Ensembl
RefSeq Acc Id: NM_001000502   ⟹   NP_001000502
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81513,391,080 - 13,392,033 (-)NCBI
mRatBN7.21510,960,562 - 10,961,515 (-)NCBI
Rnor_6.01512,261,122 - 12,262,075 (-)NCBI
Rnor_5.01516,294,146 - 16,295,099 (-)NCBI
RGSC_v3.41512,472,119 - 12,473,072 (-)RGD
Celera1510,968,306 - 10,969,259 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001000502 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA61852 (Get FASTA)   NCBI Sequence Viewer  
  EDL94114 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000078522.1
  ENSRNOP00000088504
  ENSRNOP00000088504.1
  ENSRNOP00000094235.1
  ENSRNOP00000094543.1
Reference Protein Sequences
RefSeq Acc Id: NP_001000502   ⟸   NM_001000502
- UniProtKB: G3V6T8 (UniProtKB/TrEMBL),   A6K067 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000008798   ⟸   ENSRNOT00000008798
RefSeq Acc Id: ENSRNOP00000078522   ⟸   ENSRNOT00000117014
RefSeq Acc Id: ENSRNOP00000094543   ⟸   ENSRNOT00000104048
RefSeq Acc Id: ENSRNOP00000094235   ⟸   ENSRNOT00000103426
RefSeq Acc Id: ENSRNOP00000088504   ⟸   ENSRNOT00000097072
Protein Domains
G-protein coupled receptors family 1 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V6T8-F1-model_v2 AlphaFold G3V6T8 1-317 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:1334361 AgrOrtholog
BioCyc Gene G2FUF-14384 BioCyc
Ensembl Genes ENSRNOG00000006734 Ensembl
  ENSRNOG00000068637 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000097072 ENTREZGENE
  ENSRNOT00000097072.1 UniProtKB/TrEMBL
  ENSRNOT00000103426.1 UniProtKB/TrEMBL
  ENSRNOT00000104048.1 UniProtKB/TrEMBL
  ENSRNOT00000117014.1 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:305711 UniProtKB/TrEMBL
NCBI Gene 305711 ENTREZGENE
PANTHER OLFACTORY RECEPTOR UniProtKB/TrEMBL
  OLFACTORY RECEPTOR 2T1 UniProtKB/TrEMBL
Pfam 7tm_4 UniProtKB/TrEMBL
PhenoGen Or2t1 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  OLFACTORYR UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006734 RatGTEx
  ENSRNOG00000068637 RatGTEx
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt A6K067 ENTREZGENE, UniProtKB/TrEMBL
  G3V6T8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-08-16 Or2t1  olfactory receptor family 2 subfamily T member 1  Olr1606  olfactory receptor 1606  Symbol and Name Changed 1299863 APPROVED
2005-02-04 Olr1606  olfactory receptor 1606      Symbol and Name status set to approved 70820 APPROVED