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Aliases for LGR5 Gene

Aliases for LGR5 Gene

  • Leucine Rich Repeat Containing G Protein-Coupled Receptor 5 2 3 5
  • G-Protein Coupled Receptor HG38 3 4
  • G-Protein Coupled Receptor 49 3 4
  • G-Protein Coupled Receptor 67 3 4
  • GPR49 3 4
  • GPR67 3 4
  • Leucine-Rich Repeat-Containing G-Protein Coupled Receptor 5 3
  • Orphan G Protein-Coupled Receptor HG38 3
  • G Protein-Coupled Receptor 49 2
  • GRP49 3
  • HG38 3
  • FEX 3

External Ids for LGR5 Gene

Previous HGNC Symbols for LGR5 Gene

  • GPR67
  • GPR49

Previous GeneCards Identifiers for LGR5 Gene

  • GC12P070121
  • GC12P071833
  • GC12P068883

Summaries for LGR5 Gene

Entrez Gene Summary for LGR5 Gene

  • The protein encoded by this gene is a leucine-rich repeat-containing receptor (LGR) and member of the G protein-coupled, 7-transmembrane receptor (GPCR) superfamily. The encoded protein is a receptor for R-spondins and is involved in the canonical Wnt signaling pathway. This protein plays a role in the formation and maintenance of adult intestinal stem cells during postembryonic development. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2015]

GeneCards Summary for LGR5 Gene

LGR5 (Leucine Rich Repeat Containing G Protein-Coupled Receptor 5) is a Protein Coding gene. Diseases associated with LGR5 include Ankyloglossia and Skin Squamous Cell Carcinoma. Among its related pathways are Signaling by Wnt and mTOR signaling pathway (KEGG). GO annotations related to this gene include G-protein coupled receptor activity and transmembrane signaling receptor activity. An important paralog of this gene is LGR6.

UniProtKB/Swiss-Prot for LGR5 Gene

  • Receptor for R-spondins that potentiates the canonical Wnt signaling pathway and acts as a stem cell marker of the intestinal epithelium and the hair follicle. Upon binding to R-spondins (RSPO1, RSPO2, RSPO3 or RSPO4), associates with phosphorylated LRP6 and frizzled receptors that are activated by extracellular Wnt receptors, triggering the canonical Wnt signaling pathway to increase expression of target genes. In contrast to classical G-protein coupled receptors, does not activate heterotrimeric G-proteins to transduce the signal. Involved in the development and/or maintenance of the adult intestinal stem cells during postembryonic development.

Gene Wiki entry for LGR5 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LGR5 Gene

Genomics for LGR5 Gene

Regulatory Elements for LGR5 Gene

Enhancers for LGR5 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12G071415 0.7 ENCODE 11.5 -23.3 -23347 0.2 CTCF CEBPG ZNF2 RAD21 GATA3 SMC3 MAFK CREM MIXL1 ZNF654 LGR5 TSPAN8 ENSG00000212461 LOC105369832
GH12G071536 1 ENCODE 7.4 +97.8 97835 1.2 FOXA2 MLX ARID4B DMAP1 SLC30A9 SP5 ZHX2 MIER2 PPARG KAT8 LGR5 LOC105369833 ENSG00000277223
GH12G071475 0.8 ENCODE 7.5 +37.3 37254 2.1 PKNOX1 ZNF792 ARID3A ZNF600 FOS IKZF2 ZNF639 ZNF362 MTA2 CEBPB LGR5 ENSG00000277223 LOC105369833
GH12G071638 0.7 dbSUPER 5.1 +200.4 200375 2.2 CTCF NR2F1 MAFG REST RAD21 ZNF316 MAFF SMC3 NR2F6 MAFK ZFC3H1 THAP2 ENSG00000257515 LGR5 ENSG00000212461
GH12G072215 0.2 ENCODE 4.5 +776.7 776681 0.9 LGR5 GC12P072258 TRHDE
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LGR5 on UCSC Golden Path with GeneCards custom track

Promoters for LGR5 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000053915 538 201 ELF3 TBP FUS ARID4B ZNF76 ZNF48 RARA GLIS2 ZNF391 EGR2

Genomic Location for LGR5 Gene

Chromosome:
12
Start:
71,439,162 bp from pter
End:
71,586,310 bp from pter
Size:
147,149 bases
Orientation:
Plus strand

Genomic View for LGR5 Gene

Genes around LGR5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LGR5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LGR5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LGR5 Gene

Proteins for LGR5 Gene

  • Protein details for LGR5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75473-LGR5_HUMAN
    Recommended name:
    Leucine-rich repeat-containing G-protein coupled receptor 5
    Protein Accession:
    O75473
    Secondary Accessions:
    • D8MCT0
    • Q4VAM0
    • Q4VAM2
    • Q9UP75

    Protein attributes for LGR5 Gene

    Size:
    907 amino acids
    Molecular mass:
    99998 Da
    Quaternary structure:
    • Identified in a complex composed of RNF43, LGR5 and RSPO1.
    Miscellaneous:
    • LGR5 is used as a marker of adult tissue stem cells in the intestine, stomach, hair follicle, and mammary epithelium.

    Three dimensional structures from OCA and Proteopedia for LGR5 Gene

    Alternative splice isoforms for LGR5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LGR5 Gene

Post-translational modifications for LGR5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LGR5 Gene

No data available for DME Specific Peptides for LGR5 Gene

Domains & Families for LGR5 Gene

Gene Families for LGR5 Gene

Suggested Antigen Peptide Sequences for LGR5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75473

UniProtKB/Swiss-Prot:

LGR5_HUMAN :
  • Belongs to the G-protein coupled receptor 1 family.
Family:
  • Belongs to the G-protein coupled receptor 1 family.
genes like me logo Genes that share domains with LGR5: view

Function for LGR5 Gene

Molecular function for LGR5 Gene

UniProtKB/Swiss-Prot Function:
Receptor for R-spondins that potentiates the canonical Wnt signaling pathway and acts as a stem cell marker of the intestinal epithelium and the hair follicle. Upon binding to R-spondins (RSPO1, RSPO2, RSPO3 or RSPO4), associates with phosphorylated LRP6 and frizzled receptors that are activated by extracellular Wnt receptors, triggering the canonical Wnt signaling pathway to increase expression of target genes. In contrast to classical G-protein coupled receptors, does not activate heterotrimeric G-proteins to transduce the signal. Involved in the development and/or maintenance of the adult intestinal stem cells during postembryonic development.

Gene Ontology (GO) - Molecular Function for LGR5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004871 signal transducer activity IEA --
GO:0004888 transmembrane signaling receptor activity IDA 21693646
GO:0004930 NOT G-protein coupled receptor activity TAS,IDA 21693646
GO:0005515 protein binding IPI 21693646
GO:0016500 protein-hormone receptor activity IEA --
genes like me logo Genes that share ontologies with LGR5: view
genes like me logo Genes that share phenotypes with LGR5: view

Animal Models for LGR5 Gene

MGI Knock Outs for LGR5:

Animal Model Products

  • Taconic Biosciences Mouse Models for LGR5

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for LGR5

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LGR5 Gene

Localization for LGR5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LGR5 Gene

Cell membrane; Multi-pass membrane protein. Golgi apparatus, trans-Golgi network membrane; Multi-pass membrane protein. Note=Rapidly and constitutively internalized to the trans-Golgi network at steady state. Internalization to the trans-Golgi network may be the result of phosphorylation at Ser-861 and Ser-864; however, the phosphorylation event has not been proven (PubMed:23439653). {ECO:0000269 PubMed:23439653}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LGR5 gene
Compartment Confidence
plasma membrane 5
golgi apparatus 5
extracellular 2
nucleus 2
cytosol 2
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for LGR5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005794 Golgi apparatus IEA --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane IDA,TAS 21693646
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LGR5: view

Pathways & Interactions for LGR5 Gene

genes like me logo Genes that share pathways with LGR5: view

SIGNOR curated interactions for LGR5 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for LGR5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001942 hair follicle development IEA --
GO:0007165 signal transduction IEA --
GO:0007186 G-protein coupled receptor signaling pathway TAS,IEA --
GO:0009994 oocyte differentiation IEA --
GO:0042127 regulation of cell proliferation IEA --
genes like me logo Genes that share ontologies with LGR5: view

Drugs & Compounds for LGR5 Gene

(5) Drugs for LGR5 Gene - From: PharmGKB, DGIdb, and IUPHAR

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Fluorouracil Approved Pharma RNA processing inhibitor and thymidylate synthase inhibitor 1856
R-spondin-1 Pharma Full agonist, Agonist 0
R-spondin-2 Pharma Full agonist, Agonist 0
R-spondin-3 Pharma Full agonist, Agonist 0
R-spondin-4 Pharma Full agonist, Agonist 0
genes like me logo Genes that share compounds with LGR5: view

Transcripts for LGR5 Gene

Unigene Clusters for LGR5 Gene

Leucine-rich repeat containing G protein-coupled receptor 5:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for LGR5

Alternative Splicing Database (ASD) splice patterns (SP) for LGR5 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18 ^ 19 ^ 20
SP1: -
SP2: - - -
SP3: - - - -
SP4:

Relevant External Links for LGR5 Gene

GeneLoc Exon Structure for
LGR5
ECgene alternative splicing isoforms for
LGR5

Expression for LGR5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LGR5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LGR5 Gene

This gene is overexpressed in Muscle - Skeletal (x12.0) and Brain - Spinal cord (cervical c-1) (x6.5).

Protein differential expression in normal tissues from HIPED for LGR5 Gene

This gene is overexpressed in Spleen (58.4) and Liver (10.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LGR5 Gene



Protein tissue co-expression partners for LGR5 Gene

NURSA nuclear receptor signaling pathways regulating expression of LGR5 Gene:

LGR5

SOURCE GeneReport for Unigene cluster for LGR5 Gene:

Hs.658889

mRNA Expression by UniProt/SwissProt for LGR5 Gene:

O75473-LGR5_HUMAN
Tissue specificity: Expressed in skeletal muscle, placenta, spinal cord, and various region of brain. Expressed at the base of crypts in colonic and small mucosa stem cells. In premalignant cancer expression is not restricted to the cript base. Overexpressed in cancers of the ovary, colon and liver.

Evidence on tissue expression from TISSUES for LGR5 Gene

  • Intestine(3.1)
  • Stomach(2.3)
  • Nervous system(2.3)
genes like me logo Genes that share expression patterns with LGR5: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LGR5 Gene

Orthologs for LGR5 Gene

This gene was present in the common ancestor of animals.

Orthologs for LGR5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LGR5 34 35
  • 99.49 (n)
cow
(Bos Taurus)
Mammalia LGR5 34 35
  • 88.28 (n)
dog
(Canis familiaris)
Mammalia LGR5 35
  • 87 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lgr5 34
  • 85.08 (n)
mouse
(Mus musculus)
Mammalia Lgr5 34 16 35
  • 84.67 (n)
oppossum
(Monodelphis domestica)
Mammalia LGR5 35
  • 81 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LGR5 35
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves LGR5 34 35
  • 77.28 (n)
lizard
(Anolis carolinensis)
Reptilia LGR5 35
  • 74 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lgr5 34
  • 71 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta GPRRK 34
  • 45.2 (n)
fruit fly
(Drosophila melanogaster)
Insecta rk 34 35
  • 44.69 (n)
Species where no ortholog for LGR5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LGR5 Gene

ENSEMBL:
Gene Tree for LGR5 (if available)
TreeFam:
Gene Tree for LGR5 (if available)

Paralogs for LGR5 Gene

Paralogs for LGR5 Gene

(8) SIMAP similar genes for LGR5 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with LGR5: view

Variants for LGR5 Gene

Sequence variations from dbSNP and Humsavar for LGR5 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1000020616 -- 71,467,684(+) AGTGG(A/G)CAAAC intron-variant
rs1000093177 -- 71,464,903(+) CAGGA(A/T)CAAAC intron-variant
rs1000098011 -- 71,509,722(+) AAAAT(C/T)GTCCA intron-variant
rs1000099668 -- 71,507,659(+) AGCAC(C/T)ATGTT intron-variant
rs1000142622 -- 71,547,983(+) GACCC(C/T)CCCCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LGR5 Gene

Variant ID Type Subtype PubMed ID
dgv300e199 CNV deletion 23128226
esv1359333 CNV deletion 17803354
esv22960 CNV loss 19812545
esv2746039 CNV deletion 23290073
esv2746040 CNV deletion 23290073
esv2746041 CNV deletion 23290073
esv2746043 CNV deletion 23290073
esv2761748 CNV gain 21179565
esv2762990 CNV gain 21179565
esv3376789 OTHER inversion 20981092
esv3384251 OTHER inversion 20981092
esv3629912 CNV loss 21293372
esv3629913 OTHER inversion 21293372
nsv436156 CNV deletion 17901297
nsv436661 OTHER inversion 17901297
nsv477337 CNV novel sequence insertion 20440878
nsv826423 CNV loss 20364138
nsv832451 CNV loss 17160897

Variation tolerance for LGR5 Gene

Residual Variation Intolerance Score: 56.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.73; 73.27% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LGR5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LGR5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LGR5 Gene

Disorders for LGR5 Gene

MalaCards: The human disease database

(5) MalaCards diseases for LGR5 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
ankyloglossia
  • tongue-tie
skin squamous cell carcinoma
  • epidermoid skin carcinoma
intestinal benign neoplasm
  • intestinal tumors
colorectal cancer
  • colorectal cancer, somatic
colonic benign neoplasm
  • colon neoplasm
- elite association - COSMIC cancer census association via MalaCards
Search LGR5 in MalaCards View complete list of genes associated with diseases

Relevant External Links for LGR5

Genetic Association Database (GAD)
LGR5
Human Genome Epidemiology (HuGE) Navigator
LGR5
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LGR5
genes like me logo Genes that share disorders with LGR5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LGR5 Gene

Publications for LGR5 Gene

  1. Identification and cloning of an orphan G protein-coupled receptor of the glycoprotein hormone receptor subfamily. (PMID: 9642114) McDonald T. … Liu Q. (Biochem. Biophys. Res. Commun. 1998) 2 3 4 64
  2. Constitutive Internalization of the Leucine-rich G Protein-coupled Receptor-5 (LGR5) to the Trans-Golgi Network. (PMID: 23439653) Snyder J.C. … Barak L.S. (J. Biol. Chem. 2013) 3 4 64
  3. R-Spondin potentiates Wnt/beta-catenin signaling through orphan receptors LGR4 and LGR5. (PMID: 22815884) Ruffner H. … Cong F. (PLoS ONE 2012) 3 4 64
  4. R-spondins function as ligands of the orphan receptors LGR4 and LGR5 to regulate Wnt/beta-catenin signaling. (PMID: 21693646) Carmon K.S. … Liu Q. (Proc. Natl. Acad. Sci. U.S.A. 2011) 3 4 64
  5. Lgr5 homologues associate with Wnt receptors and mediate R-spondin signalling. (PMID: 21727895) de Lau W. … Clevers H. (Nature 2011) 3 4 64

Products for LGR5 Gene

Sources for LGR5 Gene

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