Gpr50 (G protein-coupled receptor 50) - Rat Genome Database

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Gene: Gpr50 (G protein-coupled receptor 50) Rattus norvegicus
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Symbol: Gpr50
Name: G protein-coupled receptor 50
RGD ID: 619863
Description: Predicted to enable melatonin receptor activity. Predicted to be involved in G protein-coupled receptor signaling pathway. Predicted to be located in nucleoplasm and plasma membrane. Orthologous to human GPR50 (G protein-coupled receptor 50); INTERACTS WITH all-trans-retinoic acid; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: H9; melatonin-related receptor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X154,413,592 - 154,419,236 (+)NCBIGRCr8
mRatBN7.2X149,368,900 - 149,373,486 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX149,368,900 - 149,373,486 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX151,563,088 - 151,567,674 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X155,097,283 - 155,101,869 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X152,638,841 - 152,643,427 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01736,771,578 - 36,776,225 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1736,771,639 - 36,776,225 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01738,076,056 - 38,080,642 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X157,101,726 - 157,106,312NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X157,178,160 - 157,178,517NCBI
Cytogenetic MapXq37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. Cloning of a melatonin-related receptor from human pituitary. Reppert SM, etal., FEBS Lett 1996 May 20;386(2-3):219-24.
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16778767   PMID:20109269   PMID:20210849   PMID:22512326  


Genomics

Comparative Map Data
Gpr50
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X154,413,592 - 154,419,236 (+)NCBIGRCr8
mRatBN7.2X149,368,900 - 149,373,486 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX149,368,900 - 149,373,486 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX151,563,088 - 151,567,674 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X155,097,283 - 155,101,869 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X152,638,841 - 152,643,427 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01736,771,578 - 36,776,225 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1736,771,639 - 36,776,225 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01738,076,056 - 38,080,642 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X157,101,726 - 157,106,312NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X157,178,160 - 157,178,517NCBI
Cytogenetic MapXq37NCBI
GPR50
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X151,176,584 - 151,182,856 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX151,176,584 - 151,181,465 (+)EnsemblGRCh38hg38GRCh38
GRCh37X150,345,056 - 150,349,937 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X150,095,717 - 150,100,588 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X150,015,692 - 150,020,505NCBI
CeleraX150,593,370 - 150,598,251 (+)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX139,204,459 - 139,209,328 (+)NCBIHuRef
CHM1_1X150,219,098 - 150,223,979 (+)NCBICHM1_1
T2T-CHM13v2.0X149,444,563 - 149,450,834 (+)NCBIT2T-CHM13v2.0
Gpr50
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X70,707,273 - 70,712,863 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX70,707,273 - 70,712,863 (+)EnsemblGRCm39 Ensembl
GRCm38X71,663,667 - 71,669,257 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX71,663,667 - 71,669,257 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X68,916,942 - 68,921,264 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X67,924,323 - 67,928,645 (+)NCBIMGSCv36mm8
CeleraX62,643,933 - 62,648,261 (+)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX36.98NCBI
Gpr50
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554986,707,630 - 6,711,854 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554986,707,630 - 6,711,854 (+)NCBIChiLan1.0ChiLan1.0
GPR50
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X151,272,799 - 151,279,096 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X151,276,404 - 151,282,701 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X140,785,028 - 140,791,325 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X150,743,304 - 150,749,627 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX150,742,959 - 150,749,652 (+)Ensemblpanpan1.1panPan2
GPR50
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X119,266,369 - 119,271,586 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX119,266,480 - 119,271,586 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX104,647,468 - 104,652,539 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X121,486,314 - 121,491,188 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX121,486,314 - 121,491,188 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X118,212,023 - 118,216,889 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X120,689,866 - 120,694,730 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X120,572,470 - 120,577,339 (+)NCBIUU_Cfam_GSD_1.0
Gpr50
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X116,834,675 - 116,840,785 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367141,417,044 - 1,421,782 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367141,417,044 - 1,421,782 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPR50
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX122,708,427 - 122,714,164 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X122,708,551 - 122,713,163 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X140,336,319 - 140,341,947 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GPR50
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X125,714,733 - 125,721,180 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX125,714,883 - 125,719,762 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606563,474,776 - 63,481,211 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gpr50
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249231,356,282 - 1,360,447 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249231,356,160 - 1,361,717 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gpr50
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:27
Count of miRNA genes:26
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000015147
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
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
5 30 92 41 40 15 9 15 4 94 55 77 19 49 25

Sequence


Ensembl Acc Id: ENSRNOT00000015147   ⟹   ENSRNOP00000015147
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX149,368,900 - 149,373,486 (+)Ensembl
Rnor_6.0 Ensembl1736,771,639 - 36,776,225 (+)Ensembl
RefSeq Acc Id: NM_001191915   ⟹   NP_001178844
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X154,413,689 - 154,418,275 (+)NCBI
mRatBN7.2X149,368,900 - 149,373,486 (+)NCBI
Rnor_6.01736,771,639 - 36,776,225 (+)NCBI
Rnor_5.01738,076,056 - 38,080,642 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063279759   ⟹   XP_063135829
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X154,413,592 - 154,419,236 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001178844 (Get FASTA)   NCBI Sequence Viewer  
  XP_063135829 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC52671 (Get FASTA)   NCBI Sequence Viewer  
  EDL82824 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000015147.5
GenBank Protein Q62953 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001178844   ⟸   NM_001191915
- UniProtKB: G3V7H9 (UniProtKB/TrEMBL),   A6KUL8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000015147   ⟸   ENSRNOT00000015147
RefSeq Acc Id: XP_063135829   ⟸   XM_063279759
- Peptide Label: isoform X1
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62953-F1-model_v2 AlphaFold Q62953 1-119 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:619863 AgrOrtholog
BioCyc Gene G2FUF-722 BioCyc
Ensembl Genes ENSRNOG00000011335 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015147.7 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro GPCR_Rhodpsn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Mel_rcpt_1X UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Melatonin_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:117097 UniProtKB/TrEMBL
NCBI Gene 117097 ENTREZGENE
PANTHER B2 BRADYKININ RECEPTOR/ANGIOTENSIN II RECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR24228:SF56 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Gpr50 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  MELATONIN1XR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MELATONINR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011335 RatGTEx
SMART 7TM_GPCR_Srsx UniProtKB/TrEMBL
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6KUL8 ENTREZGENE, UniProtKB/TrEMBL
  G3V7H9 ENTREZGENE, UniProtKB/TrEMBL
  MTR1L_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Gpr50  G protein-coupled receptor 50      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Gpr50  G protein-coupled receptor 50      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains carboxyl tail is >300 aa long, contains no N-linked glycosylation sites 728621
gene_expression mRNA expressed in hypothalamus and pituitary 728621
gene_homology shares 45% sequence identity to human melatonin receptor (Mel1a and Mel1b) 728621
gene_protein protein contains 613 aa residues 728621