LGR5 (leucine rich repeat containing G protein-coupled receptor 5)

1. Identity

Alias_names
General Information
GPR49
G protein-coupled receptor 49
Alias_symbol (synonym)HG38
FEX
Other aliasGRP49
HGNC (Hugo) LGR5
LocusID (NCBI) 8549
Atlas_Id 46044
Location 12q21.1  [Link to chromosome band 12q21]
Location_base_pair Starts at 71439770 and ends at 71586308 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
KIAA1033 (12q23.3) / LGR5 (12q21.1)LGR5 (12q21.1) / INSR (19p13.2)NUP107 (12q15) / LGR5 (12q21.1)
TRHDE (12q21.1) / LGR5 (12q21.1)NUP107 LGR5KIAA1033 12q23.3 / LGR5 12q21.1

2. DNA/RNA

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  dup(12)(q21q21) TRHDE/LGR5
t(12;12)(q15;q21) NUP107/LGR5

3. External links

Nomenclature
HGNC (Hugo)LGR5   4504
Cards
Entrez_Gene (NCBI)LGR5  8549  leucine rich repeat containing G protein-coupled receptor 5
AliasesFEX; GPR49; GPR67; GRP49; 
HG38
GeneCards (Weizmann)LGR5
Ensembl hg19 (Hinxton)ENSG00000139292 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000139292 [Gene_View] &nbspENSG00000139292 [Sequence]  chr12:71439770-71586308 [Contig_View]  LGR5 [Vega]
ICGC DataPortalENSG00000139292
TCGA cBioPortalLGR5
AceView (NCBI)LGR5
Genatlas (Paris)LGR5
WikiGenes8549
SOURCE (Princeton)LGR5
Genetics Home Reference (NIH)LGR5
Genomic and cartography
GoldenPath hg38 (UCSC)LGR5  -     chr12:71439770-71586308 +  12q21.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LGR5  -     12q21.1   [Description]    (hg19-Feb_2009)
EnsemblLGR5 - 12q21.1 [CytoView hg19]  LGR5 - 12q21.1 [CytoView hg38]
Mapping of homologs : NCBILGR5 [Mapview hg19]  LGR5 [Mapview hg38]
OMIM606667   
Gene and transcription
Genbank (Entrez)AB105190 AF061444 AF062006 AK075399 AK294985
RefSeq transcript (Entrez)NM_001277226 NM_001277227 NM_003667
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LGR5
Cluster EST : UnigeneHs.658889 [ NCBI ]
CGAP (NCI)Hs.658889
Alternative Splicing GalleryENSG00000139292
Gene ExpressionLGR5 [ NCBI-GEO ]   LGR5 [ EBI - ARRAY_EXPRESS ]   LGR5 [ SEEK ]   LGR5 [ MEM ]
Gene Expression Viewer (FireBrowse)LGR5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets] &nbsp [Normal Tissue Atlas] &nbsp[carcinoma Classsification] &nbsp[NCI60]
GenevestigatorExpression in : [tissues] &nbsp[cell-lines] &nbsp[cancer] &nbsp[perturbations] &nbsp
BioGPS (Tissue expression)8549
GTEX Portal (Tissue expression)LGR5
Human Protein AtlasENSG00000139292-LGR5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75473   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75473  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75473
Splice isoforms : SwissVarO75473
PhosPhoSitePlusO75473
Domaine pattern : Prosite (Expaxy)G_PROTEIN_RECEP_F1_2 (PS50262)    LRR (PS51450)   
Domains : Interpro (EBI)GPCR_Rhodpsn    GPCR_Rhodpsn_7TM    Gphrmn_rcpt_fam    Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRR_dom_sf    LRRNT   
Domain families : Pfam (Sanger)LRR_1 (PF00560)    LRR_8 (PF13855)    LRRNT (PF01462)   
Domain families : Pfam (NCBI)pfam00560    pfam13855    pfam01462   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  LRRNT (SM00013)  
Conserved Domain (NCBI)LGR5
DMDM Disease mutations8549
Blocks (Seattle)LGR5
PDB (RSDB)4BSR    4BSS    4BST    4BSU    4KNG    4UFR    4UFS   
PDB Europe4BSR    4BSS    4BST    4BSU    4KNG    4UFR    4UFS   
PDB (PDBSum)4BSR    4BSS    4BST    4BSU    4KNG    4UFR    4UFS   
PDB (IMB)4BSR    4BSS    4BST    4BSU    4KNG    4UFR    4UFS   
Structural Biology KnowledgeBase4BSR    4BSS    4BST    4BSU    4KNG    4UFR    4UFS   
SCOP (Structural Classification of Proteins)4BSR    4BSS    4BST    4BSU    4KNG    4UFR    4UFS   
CATH (Classification of proteins structures)4BSR    4BSS    4BST    4BSU    4KNG    4UFR    4UFS   
SuperfamilyO75473
Human Protein Atlas [tissue]ENSG00000139292-LGR5 [tissue]
Peptide AtlasO75473
HPRD05979
IPIIPI00021131   IPI00940760   IPI00917482   IPI00970955   
Protein Interaction databases
DIP (DOE-UCLA)O75473
IntAct (EBI)O75473
FunCoupENSG00000139292
BioGRIDLGR5
STRING (EMBL)LGR5
ZODIACLGR5
Ontologies - Pathways
QuickGOO75473
Ontology : AmiGOhair follicle development  transmembrane signaling receptor activity  G protein-coupled receptor activity  protein binding  plasma membrane  integral component of plasma membrane  integral component of plasma membrane  G protein-coupled receptor signaling pathway  adenylate cyclase-activating G protein-coupled receptor signaling pathway  activation of adenylate cyclase activity  G protein-coupled peptide receptor activity  hormone-mediated signaling pathway  oocyte differentiation  protein-hormone receptor activity  trans-Golgi network membrane  regulation of cell proliferation  inner ear development  positive regulation of canonical Wnt signaling pathway  epithelial cell proliferation involved in renal tubule morphogenesis  
Ontology : EGO-EBIhair follicle development  transmembrane signaling receptor activity  G protein-coupled receptor activity  protein binding  plasma membrane  integral component of plasma membrane  integral component of plasma membrane  G protein-coupled receptor signaling pathway  adenylate cyclase-activating G protein-coupled receptor signaling pathway  activation of adenylate cyclase activity  G protein-coupled peptide receptor activity  hormone-mediated signaling pathway  oocyte differentiation  protein-hormone receptor activity  trans-Golgi network membrane  regulation of cell proliferation  inner ear development  positive regulation of canonical Wnt signaling pathway  epithelial cell proliferation involved in renal tubule morphogenesis  
NDEx NetworkLGR5
Atlas of Cancer Signalling NetworkLGR5
Wikipedia pathwaysLGR5
Orthology - Evolution
OrthoDB8549
GeneTree (enSembl)ENSG00000139292
Phylogenetic Trees/Animal Genes : TreeFamLGR5
HOGENOMO75473
Homologs : HomoloGeneLGR5
Homology/Alignments : Family Browser (UCSC)LGR5
Gene fusions - Rearrangements
Fusion : MitelmanKIAA1033/LGR5 [12q23.3/12q21.1] &nbsp[t(12;12)(q21;q23)]  
Fusion : MitelmanNUP107/LGR5 [12q15/12q21.1] &nbsp[t(12;12)(q15;q21)]  
Fusion : MitelmanTRHDE/LGR5 [12q21.1/12q21.1] &nbsp[dup(12)(q21q21)]  
Fusion PortalKIAA1033 12q23.3 LGR5 12q21.1 GBM
Fusion : QuiverLGR5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLGR5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LGR5
dbVarLGR5
ClinVarLGR5
1000_GenomesLGR5 
Exome Variant ServerLGR5
ExAC (Exome Aggregation Consortium)ENSG00000139292
GNOMAD BrowserENSG00000139292
Varsome BrowserLGR5
Genetic variants : HAPMAP8549
Genomic Variants (DGV)LGR5 [DGVbeta]
DECIPHERLGR5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLGR5 
Mutations
ICGC Data PortalLGR5 
TCGA Data PortalLGR5 
Broad Tumor PortalLGR5
OASIS PortalLGR5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLGR5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLGR5
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LGR5
DgiDB (Drug Gene Interaction Database)LGR5
DoCM (Curated mutations)LGR5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LGR5 (select a term)
intoGenLGR5
Cancer3DLGR5(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606667   
Orphanet
DisGeNETLGR5
MedgenLGR5
Genetic Testing Registry LGR5
NextProtO75473 [Medical]
TSGene8549
GENETestsLGR5
Target ValidationLGR5
Huge Navigator LGR5 [HugePedia]
snp3D : Map Gene to Disease8549
BioCentury BCIQLGR5
ClinGenLGR5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD8549
Chemical/Pharm GKB GenePA28894
Clinical trialLGR5
Miscellaneous
canSAR (ICR)LGR5 (select the gene name)
DataMed IndexLGR5
Probes
Litterature
PubMed147 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLGR5
EVEXLGR5
GoPubMedLGR5
iHOPLGR5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Jan 17 18:20:15 CET 2019

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