Human Gene LGR4 (ENST00000379214.9_7) from GENCODE V47lift37
  Description: leucine rich repeat containing G protein-coupled receptor 4, transcript variant 1 (from RefSeq NM_018490.5)
Gencode Transcript: ENST00000379214.9_7
Gencode Gene: ENSG00000205213.14_9
Transcript (Including UTRs)
   Position: hg19 chr11:27,387,508-27,494,337 Size: 106,830 Total Exon Count: 18 Strand: -
Coding Region
   Position: hg19 chr11:27,389,414-27,493,849 Size: 104,436 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:27,387,508-27,494,337)mRNA (may differ from genome)Protein (951 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LGR4_HUMAN
DESCRIPTION: RecName: Full=Leucine-rich repeat-containing G-protein coupled receptor 4; AltName: Full=G-protein coupled receptor 48; Flags: Precursor;
FUNCTION: Orphan receptor.
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Expressed in multiple steroidogenic tissues: placenta, ovary, testis and adrenal. Expressed also in spinal cord, thyroid, stomach, trachea, heart, pancreas, kidney, prostate and spleen.
SIMILARITY: Belongs to the G-protein coupled receptor 1 family.
SIMILARITY: Contains 15 LRR (leucine-rich) repeats.
SIMILARITY: Contains 1 LRRNT domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: LGR4
Diseases sorted by gene-association score: bone mineral density, low* (550), aniridia (6)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 23.75 RPKM in Pancreas
Total median expression: 383.78 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -250.30488-0.513 Picture PostScript Text
3' UTR -421.501906-0.221 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000276 - 7TM_GPCR_Rhodpsn
IPR017452 - GPCR_Rhodpsn_supfam
IPR002131 - Gphrmn_rcpt
IPR001611 - Leu-rich_rpt
IPR003591 - Leu-rich_rpt_typical-subtyp
IPR000372 - LRR-contain_N

Pfam Domains:
PF00001 - 7 transmembrane receptor (rhodopsin family)
PF00560 - Leucine Rich Repeat
PF01462 - Leucine rich repeat N-terminal domain
PF12799 - Leucine Rich repeats (2 copies)
PF13306 - BspA type Leucine rich repeat region (6 copies)
PF13516 - Leucine Rich repeat
PF13855 - Leucine rich repeat
PF14580 - Leucine-rich repeat

SCOP Domains:
51161 - Trimeric LpxA-like enzymes
52047 - RNI-like
52058 - L domain-like
52075 - Outer arm dynein light chain 1
81321 - Family A G protein-coupled receptor-like

ModBase Predicted Comparative 3D Structure on Q9BXB1
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004871 signal transducer activity
GO:0004888 transmembrane signaling receptor activity
GO:0004930 G-protein coupled receptor activity
GO:0005515 protein binding
GO:0016500 protein-hormone receptor activity

Biological Process:
GO:0001649 osteoblast differentiation
GO:0001942 hair follicle development
GO:0002376 immune system process
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007275 multicellular organism development
GO:0007283 spermatogenesis
GO:0007623 circadian rhythm
GO:0016055 Wnt signaling pathway
GO:0030154 cell differentiation
GO:0030282 bone mineralization
GO:0030539 male genitalia development
GO:0032922 circadian regulation of gene expression
GO:0034122 negative regulation of toll-like receptor signaling pathway
GO:0035239 tube morphogenesis
GO:0036335 intestinal stem cell homeostasis
GO:0045087 innate immune response
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045893 positive regulation of transcription, DNA-templated
GO:0046849 bone remodeling
GO:0048511 rhythmic process
GO:0048565 digestive tract development
GO:0050673 epithelial cell proliferation
GO:0050710 negative regulation of cytokine secretion
GO:0061290 canonical Wnt signaling pathway involved in metanephric kidney development
GO:0072202 cell differentiation involved in metanephros development
GO:0072224 metanephric glomerulus development
GO:0072282 metanephric nephron tubule morphogenesis
GO:0090190 positive regulation of branching involved in ureteric bud morphogenesis
GO:0090263 positive regulation of canonical Wnt signaling pathway
GO:2001013 epithelial cell proliferation involved in renal tubule morphogenesis

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AF257182 - Homo sapiens G-protein-coupled receptor 48 (GPR48) mRNA, complete cds.
BC033039 - Homo sapiens leucine-rich repeat-containing G protein-coupled receptor 4, mRNA (cDNA clone MGC:33719 IMAGE:5260923), complete cds.
AB209743 - Homo sapiens mRNA for Leucine-rich repeat-containing G protein-coupled receptor 4 precursor variant protein.
DQ892475 - Synthetic construct clone IMAGE:100005105; FLH186661.01X; RZPDo839G1171D leucine-rich repeat-containing G protein-coupled receptor 4 (LGR4) gene, encodes complete protein.
DQ895687 - Synthetic construct Homo sapiens clone IMAGE:100010147; FLH186657.01L; RZPDo839G1161D leucine-rich repeat-containing G protein-coupled receptor 4 (LGR4) gene, encodes complete protein.
AB385034 - Synthetic construct DNA, clone: pF1KB5093, Homo sapiens LGR4 gene for leucine-rich repeat-containing G-protein coupled receptor 4 precursor, complete cds, without stop codon, in Flexi system.
JD093274 - Sequence 74298 from Patent EP1572962.
JD304826 - Sequence 285850 from Patent EP1572962.
JD566052 - Sequence 547076 from Patent EP1572962.
JD250636 - Sequence 231660 from Patent EP1572962.
JD314570 - Sequence 295594 from Patent EP1572962.
JD350849 - Sequence 331873 from Patent EP1572962.
JD509061 - Sequence 490085 from Patent EP1572962.
JD465975 - Sequence 446999 from Patent EP1572962.
JD071775 - Sequence 52799 from Patent EP1572962.
JD295061 - Sequence 276085 from Patent EP1572962.
JD061964 - Sequence 42988 from Patent EP1572962.
JD174780 - Sequence 155804 from Patent EP1572962.
JD308487 - Sequence 289511 from Patent EP1572962.
JD396439 - Sequence 377463 from Patent EP1572962.
JD071594 - Sequence 52618 from Patent EP1572962.
JD222196 - Sequence 203220 from Patent EP1572962.
JD317611 - Sequence 298635 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9BXB1 (Reactome details) participates in the following event(s):

R-HSA-4641206 RSPOs bind LGRs
R-HSA-4641205 RSPO:LGR binds ZNRF3
R-HSA-4641246 ZNRF3 autoubiquitinates to promote its internalization
R-HSA-4641263 Regulation of FZD by ubiquitination
R-HSA-201681 TCF dependent signaling in response to WNT
R-HSA-195721 Signaling by WNT
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: A6NCH3, ENST00000379214.1, ENST00000379214.2, ENST00000379214.3, ENST00000379214.4, ENST00000379214.5, ENST00000379214.6, ENST00000379214.7, ENST00000379214.8, G5E9B3, GPR48, LGR4_HUMAN, NM_018490, Q8N537, Q9BXB1, Q9NYD1, uc318oux.1, uc318oux.2
UCSC ID: ENST00000379214.9_7
RefSeq Accession: NM_018490.5
Protein: Q9BXB1 (aka LGR4_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.