Lpar4 (lysophosphatidic acid receptor 4) - 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 Projects (beta) QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap)  (beta) 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) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 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 GERRC (Gene Editing Rat Resource Center) 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 Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Lpar4 (lysophosphatidic acid receptor 4) Rattus norvegicus
Analyze
Symbol: Lpar4
Name: lysophosphatidic acid receptor 4
RGD ID: 1563686
Description: Predicted to enable lysophosphatidic acid binding activity and lysophosphatidic acid receptor activity. Predicted to be involved in phospholipase C-activating G protein-coupled receptor signaling pathway and positive regulation of Rho protein signal transduction. Predicted to act upstream of or within G protein-coupled receptor signaling pathway. Predicted to be located in nuclear body and plasma membrane. Orthologous to human LPAR4 (lysophosphatidic acid receptor 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3,4-methylenedioxymethamphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: G protein-coupled receptor 23; Gpr23; LOC302378; RGD1563686; similar to G protein-coupled receptor 23
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X72,033,486 - 72,046,978 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX72,033,486 - 72,046,977 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX73,537,790 - 73,551,269 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X77,049,652 - 77,063,140 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X74,617,950 - 74,631,433 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X78,042,859 - 78,056,347 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX78,042,859 - 78,056,347 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X78,237,912 - 78,251,631 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X95,180,476 - 95,194,380 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX73,333,463 - 73,346,943 (+)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17166850  


Genomics

Comparative Map Data
Lpar4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X72,033,486 - 72,046,978 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX72,033,486 - 72,046,977 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX73,537,790 - 73,551,269 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X77,049,652 - 77,063,140 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X74,617,950 - 74,631,433 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X78,042,859 - 78,056,347 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX78,042,859 - 78,056,347 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X78,237,912 - 78,251,631 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X95,180,476 - 95,194,380 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX73,333,463 - 73,346,943 (+)NCBICelera
Cytogenetic MapXq22NCBI
LPAR4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X78,747,720 - 78,758,714 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX78,747,709 - 78,758,714 (+)EnsemblGRCh38hg38GRCh38
GRCh37X78,003,217 - 78,014,211 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X77,896,957 - 77,899,249 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X77,816,445 - 77,818,733NCBI
CeleraX78,243,611 - 78,252,993 (+)NCBICelera
Cytogenetic MapXq21.1NCBI
HuRefX71,584,019 - 71,593,185 (+)NCBIHuRef
CHM1_1X77,896,235 - 77,905,616 (+)NCBICHM1_1
T2T-CHM13v2.0X77,184,471 - 77,195,526 (+)NCBIT2T-CHM13v2.0
Lpar4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X105,964,231 - 105,977,505 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX105,964,231 - 105,977,506 (+)EnsemblGRCm39 Ensembl
GRCm38X106,920,625 - 106,933,899 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX106,920,625 - 106,933,900 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X104,115,964 - 104,129,238 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X103,123,375 - 103,135,151 (+)NCBIMGSCv36mm8
CeleraX93,766,647 - 93,780,135 (+)NCBICelera
Cytogenetic MapXDNCBI
cM MapX47.39NCBI
LPAR4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1X78,290,990 - 78,302,342 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X67,887,929 - 67,899,287 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X77,997,762 - 78,007,810 (+)NCBIpanpan1.1PanPan1.1panPan2
LPAR4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X60,828,462 - 60,840,053 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX60,838,170 - 60,839,282 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX51,840,269 - 51,852,543 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X62,081,200 - 62,093,456 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX62,091,097 - 62,092,209 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X59,772,817 - 59,785,084 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X61,377,993 - 61,390,257 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X60,976,943 - 60,989,213 (+)NCBIUU_Cfam_GSD_1.0
Lpar4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X54,501,599 - 54,514,883 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936547750,947 - 834,069 (+)EnsemblSpeTri2.0
SpeTri2.0NW_004936547821,950 - 834,069 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LPAR4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX62,870,984 - 62,874,422 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X62,862,158 - 62,876,184 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X71,950,203 - 71,962,681 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103232244
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X67,755,081 - 67,770,690 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX67,764,914 - 67,766,026 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236679094,274 - 10,125 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Lpar4
16 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1201
Count of miRNA genes:353
Interacting mature miRNAs:495
Transcripts:ENSRNOT00000003286
Prediction methods:Microtar, Miranda, Pita, 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
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat

Markers in Region
RH131472  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X72,045,017 - 72,045,179 (+)MAPPERmRatBN7.2
Rnor_6.0X78,054,389 - 78,054,550NCBIRnor6.0
Rnor_5.0X78,249,672 - 78,249,833UniSTSRnor5.0
RGSC_v3.4X95,192,422 - 95,192,583UniSTSRGSC3.4
CeleraX73,344,985 - 73,345,146UniSTS
Cytogenetic MapXq31UniSTS
BI294122  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X72,046,815 - 72,046,912 (+)MAPPERmRatBN7.2
Rnor_6.0X78,056,186 - 78,056,282NCBIRnor6.0
Rnor_5.0X78,251,469 - 78,251,565UniSTSRnor5.0
RGSC_v3.4X95,194,219 - 95,194,315UniSTSRGSC3.4
CeleraX73,346,782 - 73,346,878UniSTS
RH 3.4 Map14153.87UniSTS
Cytogenetic MapXq31UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 4 4 4 1 1 4 2 20 1
Low 36 37 23 14 23 7 7 70 20 13 11 7
Below cutoff 3 7 14 12 5 12 2 13 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003286   ⟹   ENSRNOP00000003286
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX72,033,486 - 72,046,977 (+)Ensembl
Rnor_6.0 EnsemblX78,042,859 - 78,056,347 (+)Ensembl
RefSeq Acc Id: NM_001106940   ⟹   NP_001100410
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X72,033,486 - 72,046,977 (+)NCBI
Rnor_6.0X78,042,859 - 78,056,347 (+)NCBI
Rnor_5.0X78,237,912 - 78,251,631 (+)NCBI
RGSC_v3.4X95,180,476 - 95,194,380 (+)RGD
CeleraX73,333,463 - 73,346,943 (+)RGD
Sequence:
RefSeq Acc Id: XM_039099589   ⟹   XP_038955517
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X72,033,920 - 72,046,978 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100410 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955517 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM07123 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001100410   ⟸   NM_001106940
- UniProtKB: D3ZHA3 (UniProtKB/TrEMBL),   A6IV57 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000003286   ⟸   ENSRNOT00000003286
RefSeq Acc Id: XP_038955517   ⟸   XM_039099589
- Peptide Label: isoform X1
- UniProtKB: D3ZHA3 (UniProtKB/TrEMBL),   A6IV57 (UniProtKB/TrEMBL)
Protein Domains
G-protein coupled receptors family 1 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZHA3-F1-model_v2 AlphaFold D3ZHA3 1-370 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:1563686 AgrOrtholog
BioCyc Gene G2FUF-1899 BioCyc
Ensembl Genes ENSRNOG00000002428 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003286 ENTREZGENE
  ENSRNOP00000003286.5 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003286 ENTREZGENE
  ENSRNOT00000003286.7 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/TrEMBL
InterPro 7TM_GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_supfam UniProtKB/TrEMBL
KEGG Report rno:302378 UniProtKB/TrEMBL
NCBI Gene 302378 ENTREZGENE
PANTHER G-PROTEIN COUPLED RECEPTOR UniProtKB/TrEMBL
  LYSOPHOSPHATIDIC ACID RECEPTOR 4 UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/TrEMBL
PhenoGen Lpar4 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  P2Y5ORPHANR UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
SMART 7TM_GPCR_Srsx UniProtKB/TrEMBL
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt A6IV57 ENTREZGENE, UniProtKB/TrEMBL
  D3ZHA3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-25 Lpar4  lysophosphatidic acid receptor 4  Gpr23_predicted  G protein-coupled receptor 23 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Gpr23_predicted  G protein-coupled receptor 23 (predicted)  RGD1563686_predicted  similar to G protein-coupled receptor 23 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1563686_predicted  similar to G protein-coupled receptor 23 (predicted)  LOC302378  similar to G protein-coupled receptor 23  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302378  similar to G protein-coupled receptor 23      Symbol and Name status set to provisional 70820 PROVISIONAL