Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LGR4 (leucine rich repeat containing G protein-coupled receptor 4)

Identity

Alias_namesGPR48
G protein-coupled receptor 48
Other aliasBNMD17
HGNC (Hugo) LGR4
LocusID (NCBI) 55366
Atlas_Id 50275
Location 11p14.1  [Link to chromosome band 11p14]
Location_base_pair Starts at 27365961 and ends at 27472775 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)
CCDC34 (11p14.1) / LGR4 (11p14.1)DLGAP1 (18p11.31) / LGR4 (11p14.1)FGF3 (11q13.3) / LGR4 (11p14.1)
LGR4 (11p14.1) / NEMF (14q21.3)LGR4 (11p14.1) / TRIM58 (1q44)PIWIL4 (11q21) / LGR4 (11p14.1)
FGF3 11q13.3 / LGR4 11p14.1

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

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(11;11)(p14;q13) FGF3/LGR4

External links

Nomenclature
HGNC (Hugo)LGR4   13299
Cards
Entrez_Gene (NCBI)LGR4  55366  leucine rich repeat containing G protein-coupled receptor 4
AliasesBNMD17; GPR48
GeneCards (Weizmann)LGR4
Ensembl hg19 (Hinxton)ENSG00000205213 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000205213 [Gene_View]  ENSG00000205213 [Sequence]  chr11:27365961-27472775 [Contig_View]  LGR4 [Vega]
ICGC DataPortalENSG00000205213
TCGA cBioPortalLGR4
AceView (NCBI)LGR4
Genatlas (Paris)LGR4
WikiGenes55366
SOURCE (Princeton)LGR4
Genetics Home Reference (NIH)LGR4
Genomic and cartography
GoldenPath hg38 (UCSC)LGR4  -     chr11:27365961-27472775 -  11p14.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LGR4  -     11p14.1   [Description]    (hg19-Feb_2009)
EnsemblLGR4 - 11p14.1 [CytoView hg19]  LGR4 - 11p14.1 [CytoView hg38]
Mapping of homologs : NCBILGR4 [Mapview hg19]  LGR4 [Mapview hg38]
OMIM606666   615311   
Gene and transcription
Genbank (Entrez)AB209743 AF257182 AI699025 BC033039 CB047435
RefSeq transcript (Entrez)NM_001346432 NM_018490
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LGR4
Cluster EST : UnigeneHs.502176 [ NCBI ]
CGAP (NCI)Hs.502176
Alternative Splicing GalleryENSG00000205213
Gene ExpressionLGR4 [ NCBI-GEO ]   LGR4 [ EBI - ARRAY_EXPRESS ]   LGR4 [ SEEK ]   LGR4 [ MEM ]
Gene Expression Viewer (FireBrowse)LGR4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55366
GTEX Portal (Tissue expression)LGR4
Human Protein AtlasENSG00000205213-LGR4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BXB1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BXB1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BXB1
Splice isoforms : SwissVarQ9BXB1
PhosPhoSitePlusQ9BXB1
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)7tm_1 (PF00001)    LRR_8 (PF13855)    LRRNT (PF01462)   
Domain families : Pfam (NCBI)pfam00001    pfam13855    pfam01462   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  LRRNT (SM00013)  
Conserved Domain (NCBI)LGR4
DMDM Disease mutations55366
Blocks (Seattle)LGR4
PDB (RSDB)4KT1    4QXE    4QXF   
PDB Europe4KT1    4QXE    4QXF   
PDB (PDBSum)4KT1    4QXE    4QXF   
PDB (IMB)4KT1    4QXE    4QXF   
Structural Biology KnowledgeBase4KT1    4QXE    4QXF   
SCOP (Structural Classification of Proteins)4KT1    4QXE    4QXF   
CATH (Classification of proteins structures)4KT1    4QXE    4QXF   
SuperfamilyQ9BXB1
Human Protein Atlas [tissue]ENSG00000205213-LGR4 [tissue]
Peptide AtlasQ9BXB1
HPRD05978
IPIIPI00217954   IPI00798136   IPI00982640   
Protein Interaction databases
DIP (DOE-UCLA)Q9BXB1
IntAct (EBI)Q9BXB1
FunCoupENSG00000205213
BioGRIDLGR4
STRING (EMBL)LGR4
ZODIACLGR4
Ontologies - Pathways
QuickGOQ9BXB1
Ontology : AmiGOosteoblast differentiation  hair 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  adenylate cyclase-activating G protein-coupled receptor signaling pathway  activation of adenylate cyclase activity  spermatogenesis  G protein-coupled peptide receptor activity  hormone-mediated signaling pathway  protein-hormone receptor activity  bone mineralization  male genitalia development  circadian regulation of gene expression  negative regulation of toll-like receptor signaling pathway  intestinal stem cell homeostasis  innate immune response  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  bone remodeling  digestive tract development  negative regulation of cytokine secretion  canonical Wnt signaling pathway involved in metanephric kidney development  cell differentiation involved in metanephros development  metanephric glomerulus development  metanephric nephron tubule morphogenesis  positive regulation of branching involved in ureteric bud morphogenesis  positive regulation of canonical Wnt signaling pathway  negative regulation of cold-induced thermogenesis  epithelial cell proliferation involved in renal tubule morphogenesis  
Ontology : EGO-EBIosteoblast differentiation  hair 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  adenylate cyclase-activating G protein-coupled receptor signaling pathway  activation of adenylate cyclase activity  spermatogenesis  G protein-coupled peptide receptor activity  hormone-mediated signaling pathway  protein-hormone receptor activity  bone mineralization  male genitalia development  circadian regulation of gene expression  negative regulation of toll-like receptor signaling pathway  intestinal stem cell homeostasis  innate immune response  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  bone remodeling  digestive tract development  negative regulation of cytokine secretion  canonical Wnt signaling pathway involved in metanephric kidney development  cell differentiation involved in metanephros development  metanephric glomerulus development  metanephric nephron tubule morphogenesis  positive regulation of branching involved in ureteric bud morphogenesis  positive regulation of canonical Wnt signaling pathway  negative regulation of cold-induced thermogenesis  epithelial cell proliferation involved in renal tubule morphogenesis  
NDEx NetworkLGR4
Atlas of Cancer Signalling NetworkLGR4
Wikipedia pathwaysLGR4
Orthology - Evolution
OrthoDB55366
GeneTree (enSembl)ENSG00000205213
Phylogenetic Trees/Animal Genes : TreeFamLGR4
HOGENOMQ9BXB1
Homologs : HomoloGeneLGR4
Homology/Alignments : Family Browser (UCSC)LGR4
Gene fusions - Rearrangements
Fusion : MitelmanFGF3/LGR4 [11q13.3/11p14.1]  [t(11;11)(p14;q13)]  
Fusion PortalFGF3 11q13.3 LGR4 11p14.1 LUSC
Fusion : QuiverLGR4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLGR4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LGR4
dbVarLGR4
ClinVarLGR4
1000_GenomesLGR4 
Exome Variant ServerLGR4
ExAC (Exome Aggregation Consortium)ENSG00000205213
GNOMAD BrowserENSG00000205213
Varsome BrowserLGR4
Genetic variants : HAPMAP55366
Genomic Variants (DGV)LGR4 [DGVbeta]
DECIPHERLGR4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLGR4 
Mutations
ICGC Data PortalLGR4 
TCGA Data PortalLGR4 
Broad Tumor PortalLGR4
OASIS PortalLGR4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLGR4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLGR4
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 LGR4
DgiDB (Drug Gene Interaction Database)LGR4
DoCM (Curated mutations)LGR4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LGR4 (select a term)
intoGenLGR4
Cancer3DLGR4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606666    615311   
Orphanet
DisGeNETLGR4
MedgenLGR4
Genetic Testing Registry LGR4
NextProtQ9BXB1 [Medical]
TSGene55366
GENETestsLGR4
Target ValidationLGR4
Huge Navigator LGR4 [HugePedia]
snp3D : Map Gene to Disease55366
BioCentury BCIQLGR4
ClinGenLGR4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55366
Chemical/Pharm GKB GenePA28893
Clinical trialLGR4
Miscellaneous
canSAR (ICR)LGR4 (select the gene name)
DataMed IndexLGR4
Probes
Litterature
PubMed47 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLGR4
EVEXLGR4
GoPubMedLGR4
iHOPLGR4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Jan 17 18:20:15 CET 2019
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