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PDLIM3 (PDZ and LIM domain 3)

Identity

Alias_symbol (synonym)ALP
Other alias
HGNC (Hugo) PDLIM3
LocusID (NCBI) 27295
Atlas_Id 50964
Location 4q35.1  [Link to chromosome band 4q35]
Location_base_pair Starts at 186421815 and ends at 186456712 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
APP (21q21.3) / PDLIM3 (4q35.1)PDLIM3 (4q35.1) / PNOC (8p21.1)PDLIM3 (4q35.1) / SORBS2 (4q35.1)
PDLIM3 4q35.1 / SORBS2 4q35.1

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

 


External links

Nomenclature
HGNC (Hugo)PDLIM3   20767
LRG (Locus Reference Genomic)LRG_752
Cards
Entrez_Gene (NCBI)PDLIM3  27295  PDZ and LIM domain 3
AliasesALP
GeneCards (Weizmann)PDLIM3
Ensembl hg19 (Hinxton)ENSG00000154553 [Gene_View]  chr4:186421815-186456712 [Contig_View]  PDLIM3 [Vega]
Ensembl hg38 (Hinxton)ENSG00000154553 [Gene_View]  chr4:186421815-186456712 [Contig_View]  PDLIM3 [Vega]
ICGC DataPortalENSG00000154553
TCGA cBioPortalPDLIM3
AceView (NCBI)PDLIM3
Genatlas (Paris)PDLIM3
WikiGenes27295
SOURCE (Princeton)PDLIM3
Genetics Home Reference (NIH)PDLIM3
Genomic and cartography
GoldenPath hg19 (UCSC)PDLIM3  -     chr4:186421815-186456712 -  4q35.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PDLIM3  -     4q35.1   [Description]    (hg38-Dec_2013)
EnsemblPDLIM3 - 4q35.1 [CytoView hg19]  PDLIM3 - 4q35.1 [CytoView hg38]
Mapping of homologs : NCBIPDLIM3 [Mapview hg19]  PDLIM3 [Mapview hg38]
OMIM605889   
Gene and transcription
Genbank (Entrez)AF002280 AF002282 AF039018 AK129607 AK129863
RefSeq transcript (Entrez)NM_001114107 NM_001257962 NM_001257963 NM_014476
RefSeq genomic (Entrez)NC_000004 NC_018915 NG_032576 NT_016354 NW_004929320
Consensus coding sequences : CCDS (NCBI)PDLIM3
Cluster EST : UnigeneHs.701364 [ NCBI ]
CGAP (NCI)Hs.701364
Alternative Splicing GalleryENSG00000154553
Gene ExpressionPDLIM3 [ NCBI-GEO ]   PDLIM3 [ EBI - ARRAY_EXPRESS ]   PDLIM3 [ SEEK ]   PDLIM3 [ MEM ]
Gene Expression Viewer (FireBrowse)PDLIM3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)27295
GTEX Portal (Tissue expression)PDLIM3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ53GG5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ53GG5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ53GG5
Splice isoforms : SwissVarQ53GG5
PhosPhoSitePlusQ53GG5
Domaine pattern : Prosite (Expaxy)LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)    PDZ (PS50106)   
Domains : Interpro (EBI)DUF4749    PDZ    ZASP    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)PDLIM3
DMDM Disease mutations27295
Blocks (Seattle)PDLIM3
SuperfamilyQ53GG5
Human Protein AtlasENSG00000154553
Peptide AtlasQ53GG5
HPRD08388
IPIIPI00004471   IPI00167134   IPI00015745   IPI00443013   IPI00965140   
Protein Interaction databases
DIP (DOE-UCLA)Q53GG5
IntAct (EBI)Q53GG5
FunCoupENSG00000154553
BioGRIDPDLIM3
STRING (EMBL)PDLIM3
ZODIACPDLIM3
Ontologies - Pathways
QuickGOQ53GG5
Ontology : AmiGOprotein binding  cytoplasm  actin filament organization  heart development  cytoskeletal protein binding  zinc ion binding  structural constituent of muscle  actin cytoskeleton  Z disc  
Ontology : EGO-EBIprotein binding  cytoplasm  actin filament organization  heart development  cytoskeletal protein binding  zinc ion binding  structural constituent of muscle  actin cytoskeleton  Z disc  
NDEx NetworkPDLIM3
Atlas of Cancer Signalling NetworkPDLIM3
Wikipedia pathwaysPDLIM3
Orthology - Evolution
OrthoDB27295
GeneTree (enSembl)ENSG00000154553
Phylogenetic Trees/Animal Genes : TreeFamPDLIM3
HOVERGENQ53GG5
HOGENOMQ53GG5
Homologs : HomoloGenePDLIM3
Homology/Alignments : Family Browser (UCSC)PDLIM3
Gene fusions - Rearrangements
Fusion : MitelmanPDLIM3/SORBS2 [4q35.1/4q35.1]  
Fusion: TCGAPDLIM3 4q35.1 SORBS2 4q35.1 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDLIM3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDLIM3
dbVarPDLIM3
ClinVarPDLIM3
1000_GenomesPDLIM3 
Exome Variant ServerPDLIM3
ExAC (Exome Aggregation Consortium)PDLIM3 (select the gene name)
Genetic variants : HAPMAP27295
Genomic Variants (DGV)PDLIM3 [DGVbeta]
DECIPHER (Syndromes)4:186421815-186456712  ENSG00000154553
CONAN: Copy Number AnalysisPDLIM3 
Mutations
ICGC Data PortalPDLIM3 
TCGA Data PortalPDLIM3 
Broad Tumor PortalPDLIM3
OASIS PortalPDLIM3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDLIM3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPDLIM3
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
BioMutasearch PDLIM3
DgiDB (Drug Gene Interaction Database)PDLIM3
DoCM (Curated mutations)PDLIM3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDLIM3 (select a term)
intoGenPDLIM3
Cancer3DPDLIM3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605889   
Orphanet
MedgenPDLIM3
Genetic Testing Registry PDLIM3
NextProtQ53GG5 [Medical]
TSGene27295
GENETestsPDLIM3
Huge Navigator PDLIM3 [HugePedia]
snp3D : Map Gene to Disease27295
BioCentury BCIQPDLIM3
ClinGenPDLIM3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD27295
Chemical/Pharm GKB GenePA134970631
Clinical trialPDLIM3
Miscellaneous
canSAR (ICR)PDLIM3 (select the gene name)
Probes
Litterature
PubMed23 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDLIM3
EVEXPDLIM3
GoPubMedPDLIM3
iHOPPDLIM3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Mar 14 13:20:54 CET 2017

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