Format

Send to:

Choose Destination

LGR5 leucine rich repeat containing G protein-coupled receptor 5 [ Homo sapiens (human) ]

Gene ID: 8549, updated on 12-May-2019

Summary

Official Symbol
LGR5provided by HGNC
Official Full Name
leucine rich repeat containing G protein-coupled receptor 5provided by HGNC
Primary source
HGNC:HGNC:4504
See related
Ensembl:ENSG00000139292 MIM:606667
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
FEX; HG38; GPR49; GPR67; GRP49
Summary
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]
Expression
Biased expression in placenta (RPKM 11.9), small intestine (RPKM 3.2) and 8 other tissues See more
Orthologs

Genomic context

See LGR5 in Genome Data Viewer
Location:
12q21.1
Exon count:
19
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (71439770..71586310)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (71832931..71980090)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369831 Neighboring gene uncharacterized LOC105369832 Neighboring gene uncharacterized LOC105369833 Neighboring gene zinc finger C3H1-type containing Neighboring gene uncharacterized LOC107984529 Neighboring gene THAP domain containing 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Meta-analysis of genome-wide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes.
NHGRI GWA Catalog
Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis.
NHGRI GWA Catalog

Pathways from BioSystems

  • Regulation of FZD by ubiquitination, organism-specific biosystem (from REACTOME)
    Regulation of FZD by ubiquitination, organism-specific biosystemWNT responsiveness is influenced by expression levels of FZD and LRP proteins. Levels of these receptors at the cell surface are regulated in part by endocytosis, but the mechanisms are not fully el...
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by Wnt, organism-specific biosystem (from REACTOME)
    Signaling by Wnt, organism-specific biosystemWNT signaling pathways control a wide range of developmental and adult process in metozoans including cell proliferation, cell fate decisions, cell polarity and stem cell maintenance (reviewed in Sai...
  • TCF dependent signaling in response to WNT, organism-specific biosystem (from REACTOME)
    TCF dependent signaling in response to WNT, organism-specific biosystem19 WNT ligands and 10 FZD receptors have been identified in human cells; interactions amongst these ligands and receptors vary in a developmental and tissue-specific manner and lead to activation of ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC117008

Gene Ontology Provided by GOA

Function Evidence Code Pubs
G protein-coupled peptide receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NOT G protein-coupled receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein-hormone receptor activity IEA
Inferred from Electronic Annotation
more info
 
transmembrane signaling receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
G protein-coupled receptor signaling pathway TAS
Traceable Author Statement
more info
PubMed 
activation of adenylate cyclase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
adenylate cyclase-activating G protein-coupled receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
epithelial cell proliferation involved in renal tubule morphogenesis IEA
Inferred from Electronic Annotation
more info
 
hair follicle development IEA
Inferred from Electronic Annotation
more info
 
hormone-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
inner ear development IEA
Inferred from Electronic Annotation
more info
 
oocyte differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of canonical Wnt signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
regulation of cell proliferation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
trans-Golgi network membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
leucine-rich repeat-containing G-protein coupled receptor 5
Names
G-protein coupled receptor 49
G-protein coupled receptor 67
G-protein coupled receptor HG38
orphan G protein-coupled receptor HG38

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001277226.1NP_001264155.1  leucine-rich repeat-containing G-protein coupled receptor 5 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001264155.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC078860, BC096325, CA412916, DC323352, DR003044
    Consensus CDS
    CCDS61194.1
    UniProtKB/Swiss-Prot
    O75473
    Related
    ENSP00000441035.2, ENST00000540815.2
    Conserved Domains (6) summary
    smart00013
    Location:3370
    LRRNT; Leucine rich repeat N-terminal domain
    cd00116
    Location:131362
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:306329
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6891
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00001
    Location:551796
    7tm_1; 7 transmembrane receptor (rhodopsin family)
    pfam13855
    Location:188246
    LRR_8; Leucine rich repeat
  2. NM_001277227.1NP_001264156.1  leucine-rich repeat-containing G-protein coupled receptor 5 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001264156.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC078860, CA412916, DC323352, DR003044, FN820440
    Consensus CDS
    CCDS61195.1
    UniProtKB/Swiss-Prot
    O75473
    Related
    ENSP00000443033.1, ENST00000536515.5
    Conserved Domains (6) summary
    smart00013
    Location:3370
    LRRNT; Leucine rich repeat N-terminal domain
    cd00116
    Location:71314
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:4767
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6891
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00001
    Location:503748
    7tm_1; 7 transmembrane receptor (rhodopsin family)
    pfam13855
    Location:115174
    LRR_8; Leucine rich repeat
  3. NM_003667.4NP_003658.1  leucine-rich repeat-containing G-protein coupled receptor 5 isoform 1 precursor

    See identical proteins and their annotated locations for NP_003658.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC078860, AF062006, CA412916, DR003044
    Consensus CDS
    CCDS9000.1
    UniProtKB/Swiss-Prot
    O75473
    UniProtKB/TrEMBL
    A0A0A8K8C7
    Related
    ENSP00000266674.4, ENST00000266674.10
    Conserved Domains (6) summary
    smart00013
    Location:3370
    LRRNT; Leucine rich repeat N-terminal domain
    cd00116
    Location:131386
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:307353
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6891
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00001
    Location:575820
    7tm_1; 7 transmembrane receptor (rhodopsin family)
    pfam13855
    Location:188246
    LRR_8; Leucine rich repeat

RNA

  1. NR_110596.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) has an alternate 3' structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC078860, AK075399, AK294985, BQ774570, DA811892, DR003044, H88004
    Related
    ENST00000550851.5

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

    Range
    71439770..71586310
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center