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LDB2 (LIM domain binding 2)

Identity

Alias_symbol (synonym)CLIM1
LDB1
Other aliasLDB-2
HGNC (Hugo) LDB2
LocusID (NCBI) 9079
Atlas_Id 65217
Location 4p15.32  [Link to chromosome band 4p15]
Location_base_pair Starts at 16501534 and ends at 16898809 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ATP8A1 (4p13) / LDB2 (4p15.32)DNAJC11 (1p36.31) / LDB2 (4p15.32)LDB2 (4p15.32) / ATL2 (2p22.2)
LDB2 (4p15.32) / LDB2 (4p15.32)LDB2 (4p15.32) / TAX1BP1 (7p15.2)TAPT1 (4p15.32) / LDB2 (4p15.32)
TAPT1 LDB2ATP8A1 LDB2

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)LDB2   6533
Cards
Entrez_Gene (NCBI)LDB2  9079  LIM domain binding 2
AliasesCLIM1; LDB-2; LDB1
GeneCards (Weizmann)LDB2
Ensembl hg19 (Hinxton)ENSG00000169744 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000169744 [Gene_View]  chr4:16501534-16898809 [Contig_View]  LDB2 [Vega]
ICGC DataPortalENSG00000169744
TCGA cBioPortalLDB2
AceView (NCBI)LDB2
Genatlas (Paris)LDB2
WikiGenes9079
SOURCE (Princeton)LDB2
Genetics Home Reference (NIH)LDB2
Genomic and cartography
GoldenPath hg38 (UCSC)LDB2  -     chr4:16501534-16898809 -  4p15.32   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LDB2  -     4p15.32   [Description]    (hg19-Feb_2009)
EnsemblLDB2 - 4p15.32 [CytoView hg19]  LDB2 - 4p15.32 [CytoView hg38]
Mapping of homologs : NCBILDB2 [Mapview hg19]  LDB2 [Mapview hg38]
OMIM603450   
Gene and transcription
Genbank (Entrez)AF047337 AF052389 AF064492 AF064493 AF068651
RefSeq transcript (Entrez)NM_001130834 NM_001290 NM_001304434 NM_001304435
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LDB2
Cluster EST : UnigeneHs.714330 [ NCBI ]
CGAP (NCI)Hs.714330
Alternative Splicing GalleryENSG00000169744
Gene ExpressionLDB2 [ NCBI-GEO ]   LDB2 [ EBI - ARRAY_EXPRESS ]   LDB2 [ SEEK ]   LDB2 [ MEM ]
Gene Expression Viewer (FireBrowse)LDB2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9079
GTEX Portal (Tissue expression)LDB2
Protein : pattern, domain, 3D structure
UniProt/SwissProtO43679   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO43679  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO43679
Splice isoforms : SwissVarO43679
PhosPhoSitePlusO43679
Domains : Interpro (EBI)LDB2    LIM-bd/SEUSS   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)LDB2
DMDM Disease mutations9079
Blocks (Seattle)LDB2
SuperfamilyO43679
Human Protein AtlasENSG00000169744
Peptide AtlasO43679
HPRD16022
IPIIPI00014634   IPI00790687   IPI00922054   IPI00967389   IPI00967706   IPI00855748   IPI00965897   IPI00965057   
Protein Interaction databases
DIP (DOE-UCLA)O43679
IntAct (EBI)O43679
FunCoupENSG00000169744
BioGRIDLDB2
STRING (EMBL)LDB2
ZODIACLDB2
Ontologies - Pathways
QuickGOO43679
Ontology : AmiGOhair follicle development  transcription cofactor activity  protein binding  nucleus  transcription factor complex  nucleolus  plasma membrane  epithelial structure maintenance  enzyme binding  LIM domain binding  regulation of cell migration  cell leading edge  somatic stem cell population maintenance  regulation of kinase activity  positive regulation of cellular component biogenesis  positive regulation of transcription from RNA polymerase II promoter  
Ontology : EGO-EBIhair follicle development  transcription cofactor activity  protein binding  nucleus  transcription factor complex  nucleolus  plasma membrane  epithelial structure maintenance  enzyme binding  LIM domain binding  regulation of cell migration  cell leading edge  somatic stem cell population maintenance  regulation of kinase activity  positive regulation of cellular component biogenesis  positive regulation of transcription from RNA polymerase II promoter  
NDEx NetworkLDB2
Atlas of Cancer Signalling NetworkLDB2
Wikipedia pathwaysLDB2
Orthology - Evolution
OrthoDB9079
GeneTree (enSembl)ENSG00000169744
Phylogenetic Trees/Animal Genes : TreeFamLDB2
HOVERGENO43679
HOGENOMO43679
Homologs : HomoloGeneLDB2
Homology/Alignments : Family Browser (UCSC)LDB2
Gene fusions - Rearrangements
Fusion: TCGATAPT1 LDB2
Fusion: TCGAATP8A1 LDB2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLDB2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LDB2
dbVarLDB2
ClinVarLDB2
1000_GenomesLDB2 
Exome Variant ServerLDB2
ExAC (Exome Aggregation Consortium)LDB2 (select the gene name)
Genetic variants : HAPMAP9079
Genomic Variants (DGV)LDB2 [DGVbeta]
DECIPHERLDB2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLDB2 
Mutations
ICGC Data PortalLDB2 
TCGA Data PortalLDB2 
Broad Tumor PortalLDB2
OASIS PortalLDB2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLDB2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLDB2
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 LDB2
DgiDB (Drug Gene Interaction Database)LDB2
DoCM (Curated mutations)LDB2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LDB2 (select a term)
intoGenLDB2
Cancer3DLDB2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603450   
Orphanet
MedgenLDB2
Genetic Testing Registry LDB2
NextProtO43679 [Medical]
TSGene9079
GENETestsLDB2
Target ValidationLDB2
Huge Navigator LDB2 [HugePedia]
snp3D : Map Gene to Disease9079
BioCentury BCIQLDB2
ClinGenLDB2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9079
Chemical/Pharm GKB GenePA30317
Clinical trialLDB2
Miscellaneous
canSAR (ICR)LDB2 (select the gene name)
Probes
Litterature
PubMed22 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLDB2
EVEXLDB2
GoPubMedLDB2
iHOPLDB2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 15:55:43 CEST 2017

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