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LDB3 (LIM domain binding 3)

Identity

Alias_namesCMD1C
cardiomyopathy
Alias_symbol (synonym)PDLIM6
KIAA0613
ZASP
Other aliasCMH24
CMPD3
CYPHER
LDB3Z1
LDB3Z4
LVNC3
MFM4
ORACLE
HGNC (Hugo) LDB3
LocusID (NCBI) 11155
Atlas_Id 50933
Location 10q23.2  [Link to chromosome band 10q23]
Location_base_pair Starts at 86668669 and ends at 86736067 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)
DPP9 (19p13.3) / LDB3 (10q23.2)GTF2A2 (15q22.2) / LDB3 (10q23.2)LDB3 (10q23.2) / CDC5L (6p21.1)
LDB3 (10q23.2) / GABARAPL1 (12p13.2)LDB3 (10q23.2) / TUBB4A (19p13.3)SNHG1 (11q12.3) / LDB3 (10q23.2)

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

 


External links

Nomenclature
HGNC (Hugo)LDB3   15710
LRG (Locus Reference Genomic)LRG_385
Cards
Entrez_Gene (NCBI)LDB3  11155  LIM domain binding 3
AliasesCMD1C; CMH24; CMPD3; CYPHER; 
LDB3Z1; LDB3Z4; LVNC3; MFM4; ORACLE; PDLIM6; ZASP
GeneCards (Weizmann)LDB3
Ensembl hg19 (Hinxton)ENSG00000122367 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000122367 [Gene_View]  chr10:86668669-86736067 [Contig_View]  LDB3 [Vega]
ICGC DataPortalENSG00000122367
TCGA cBioPortalLDB3
AceView (NCBI)LDB3
Genatlas (Paris)LDB3
WikiGenes11155
SOURCE (Princeton)LDB3
Genetics Home Reference (NIH)LDB3
Genomic and cartography
GoldenPath hg38 (UCSC)LDB3  -     chr10:86668669-86736067 +  10q23.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LDB3  -     10q23.2   [Description]    (hg19-Feb_2009)
EnsemblLDB3 - 10q23.2 [CytoView hg19]  LDB3 - 10q23.2 [CytoView hg38]
Mapping of homologs : NCBILDB3 [Mapview hg19]  LDB3 [Mapview hg38]
OMIM605906   609452   
Gene and transcription
Genbank (Entrez)AA180065 AB014513 AF086263 AF276807 AF276808
RefSeq transcript (Entrez)NM_001080114 NM_001080115 NM_001080116 NM_001171610 NM_001171611 NM_007078
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LDB3
Cluster EST : UnigeneHs.657271 [ NCBI ]
CGAP (NCI)Hs.657271
Alternative Splicing GalleryENSG00000122367
Gene ExpressionLDB3 [ NCBI-GEO ]   LDB3 [ EBI - ARRAY_EXPRESS ]   LDB3 [ SEEK ]   LDB3 [ MEM ]
Gene Expression Viewer (FireBrowse)LDB3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)11155
GTEX Portal (Tissue expression)LDB3
Human Protein AtlasENSG00000122367-LDB3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75112   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75112  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75112
Splice isoforms : SwissVarO75112
PhosPhoSitePlusO75112
Domaine pattern : Prosite (Expaxy)LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)    PDZ (PS50106)   
Domains : Interpro (EBI)DUF4749    PDZ    Zasp-like_motif    Znf_LIM   
Domain families : Pfam (Sanger)DUF4749 (PF15936)    LIM (PF00412)    PDZ (PF00595)   
Domain families : Pfam (NCBI)pfam15936    pfam00412    pfam00595   
Domain families : Smart (EMBL)LIM (SM00132)  PDZ (SM00228)  ZM (SM00735)  
Conserved Domain (NCBI)LDB3
DMDM Disease mutations11155
Blocks (Seattle)LDB3
PDB (SRS)1RGW    4YDP   
PDB (PDBSum)1RGW    4YDP   
PDB (IMB)1RGW    4YDP   
PDB (RSDB)1RGW    4YDP   
Structural Biology KnowledgeBase1RGW    4YDP   
SCOP (Structural Classification of Proteins)1RGW    4YDP   
CATH (Classification of proteins structures)1RGW    4YDP   
SuperfamilyO75112
Human Protein Atlas [tissue]ENSG00000122367-LDB3 [tissue]
Peptide AtlasO75112
HPRD16172
IPIIPI00514458   IPI00294959   IPI00294958   IPI00552865   IPI00654766   IPI00165263   IPI00909356   IPI01009910   IPI00909817   IPI00978614   IPI00978988   
Protein Interaction databases
DIP (DOE-UCLA)O75112
IntAct (EBI)O75112
FunCoupENSG00000122367
BioGRIDLDB3
STRING (EMBL)LDB3
ZODIACLDB3
Ontologies - Pathways
QuickGOO75112
Ontology : AmiGOprotein kinase C binding  protein binding  cytoskeleton  cytoskeletal protein binding  zinc ion binding  Z disc  pseudopodium  sarcomere organization  perinuclear region of cytoplasm  muscle alpha-actinin binding  
Ontology : EGO-EBIprotein kinase C binding  protein binding  cytoskeleton  cytoskeletal protein binding  zinc ion binding  Z disc  pseudopodium  sarcomere organization  perinuclear region of cytoplasm  muscle alpha-actinin binding  
NDEx NetworkLDB3
Atlas of Cancer Signalling NetworkLDB3
Wikipedia pathwaysLDB3
Orthology - Evolution
OrthoDB11155
GeneTree (enSembl)ENSG00000122367
Phylogenetic Trees/Animal Genes : TreeFamLDB3
HOVERGENO75112
HOGENOMO75112
Homologs : HomoloGeneLDB3
Homology/Alignments : Family Browser (UCSC)LDB3
Gene fusions - Rearrangements
Tumor Fusion PortalLDB3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLDB3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LDB3
dbVarLDB3
ClinVarLDB3
1000_GenomesLDB3 
Exome Variant ServerLDB3
ExAC (Exome Aggregation Consortium)ENSG00000122367
GNOMAD BrowserENSG00000122367
Genetic variants : HAPMAP11155
Genomic Variants (DGV)LDB3 [DGVbeta]
DECIPHERLDB3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLDB3 
Mutations
ICGC Data PortalLDB3 
TCGA Data PortalLDB3 
Broad Tumor PortalLDB3
OASIS PortalLDB3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLDB3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLDB3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)Leiden Muscular Dystrophy pages
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Zhejiang University Center for Genetic and Genomic Medicine (ZJU-CGGM)
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
BioMutasearch LDB3
DgiDB (Drug Gene Interaction Database)LDB3
DoCM (Curated mutations)LDB3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LDB3 (select a term)
intoGenLDB3
Cancer3DLDB3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605906    609452   
Orphanet635    20888    20887    20886    10750    13929   
DisGeNETLDB3
MedgenLDB3
Genetic Testing Registry LDB3
NextProtO75112 [Medical]
TSGene11155
GENETestsLDB3
Target ValidationLDB3
Huge Navigator LDB3 [HugePedia]
snp3D : Map Gene to Disease11155
BioCentury BCIQLDB3
ClinGenLDB3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD11155
Chemical/Pharm GKB GenePA30318
Clinical trialLDB3
Miscellaneous
canSAR (ICR)LDB3 (select the gene name)
Probes
Litterature
PubMed36 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLDB3
EVEXLDB3
GoPubMedLDB3
iHOPLDB3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 21 14:19:39 CET 2017

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