Set Analyses:
Advanced Search

Advanced Search

 
Search By
Section (entire)
for


 
or upload a file of gene symbols


Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

PDLIM1 Gene

protein-coding   GIFtS: 57
GCID: GC10M096997

PDZ And LIM Domain 1

(Previous name: PDZ and LIM domain 1 (elfin))
(Previous symbol: CLIM1)
Alzheimer's & Parkinson's Diseases Congress
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
PDZ And LIM Domain 11 2     PDZ And LIM Domain 1 (Elfin)1
CLIM11 2 3 5     CLP-362
CLP362 3 5     hCLIM12
Carboxyl Terminal LIM Domain Protein 11 2     PDZ And LIM Domain Protein 12
elfin1 2     Elfin3
LIM Domain Protein CLP-362 3     C-Terminal LIM Domain Protein 13

External Ids:    HGNC: 20671   Entrez Gene: 91242   Ensembl: ENSG000001074387   OMIM: 6059005   UniProtKB: O001513   

Export aliases for PDLIM1 gene to outside databases

Previous GC identifers: GC10M095890 GC10M096230 GC10M097128 GC10M096661 GC10M096987 GC10M090624


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for PDLIM1 Gene:
This gene encodes a member of the enigma protein family. The protein contains two protein interacting domains, a
PDZ domain at the amino terminal end and one to three LIM domains at the carboxyl terminal. It is a cytoplasmic
protein associated with the cytoskeleton. The protein may function as an adapter to bring other LIM-interacting
proteins to the cytoskeleton. Pseudogenes associated with this gene are located on chromosomes 3, 14 and 17.
(provided by RefSeq, Oct 2012)

GeneCards Summary for PDLIM1 Gene: 
PDLIM1 (PDZ and LIM domain 1) is a protein-coding gene. Diseases associated with PDLIM1 include hyperacusis, and scimitar syndrome. GO annotations related to this gene include transcription coactivator activity and zinc ion binding. An important paralog of this gene is PDLIM4.

UniProtKB/Swiss-Prot: PDLI1_HUMAN, O00151
Function: Cytoskeletal protein that may act as an adapter that brings other proteins (like kinases) to the
cytoskeleton

Gene Wiki entry for PDLIM1 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000010.10  NT_030059.13  NC_018921.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the PDLIM1 gene promoter:
         STAT1   STAT4   STAT1beta   FOXD1   STAT5A   STAT1alpha   C/EBPalpha   Egr-2   STAT2   STAT3   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidPDLIM1 promoter sequence
   Search SABiosciences Chromatin IP Primers for PDLIM1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PDLIM1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10q23.1   Ensembl cytogenetic band:  10q24.1   HGNC cytogenetic band: 10q23.1

PDLIM1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PDLIM1 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M096997:  view genomic region     (about GC identifiers)

Start:
96,997,329 bp from pter      End:
97,050,781 bp from pter
Size:
53,453 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: PDLI1_HUMAN, O00151 (See protein sequence)
Recommended Name: PDZ and LIM domain protein 1  
Size: 329 amino acids; 36072 Da
Subunit: Interacts with alpha-actinins 1, 2 and 4
Subcellular location: Cytoplasm (By similarity). Cytoplasm, cytoskeleton (By similarity). Note=Associates with the
actin stress fibers (By similarity)
2 PDB 3D structures from and Proteopedia for PDLIM1:
1X62 (3D)        2PKT (3D)    
Secondary accessions: B2RBS6 Q5VZH5 Q9BPZ9

Explore the universe of human proteins at neXtProt for PDLIM1: NX_O00151

Explore proteomics data for PDLIM1 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_O00151

  • PDLIM1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    PDLIM1 Protein Expression
    REFSEQ proteins: NP_066272.1  
    ENSEMBL proteins: 
     ENSP00000360305  

    Human Recombinant Protein Products for PDLIM1: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Protein for PDLIM1
    OriGene Protein Over-expression Lysate for PDLIM1
    OriGene MassSpec for PDLIM1 
    OriGene Custom Protein Services for PDLIM1
    GenScript Custom Purified and Recombinant Proteins Services for PDLIM1
    Novus Biologicals PDLIM1 Proteins
    Novus Biologicals PDLIM1 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for PDLIM1 

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005667transcription factor complex IEA--
    GO:0005737cytoplasm IEA--
    GO:0005856cytoskeleton IEA--

    PDLIM1 for ontologies           About GeneDecksing



    PDLIM1 Antibody Products: 
    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse R&D Systems for Antibodies
    OriGene Antibodies for PDLIM1
    OriGene Custom Antibody Services for PDLIM1
    GenScript Custom Superior Antibodies Services for PDLIM1
    Novus Biologicals PDLIM1 Antibodies
    Abcam antibodies for PDLIM1
    Cloud-Clone Corp. Antibodies for PDLIM1 
    ThermoFisher Antibodies for PDLIM1
    LSBio Antibodies in human, mouse, rat for PDLIM1 

    Assay Products for PDLIM1: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for PDLIM1
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for PDLIM1
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for PDLIM1 
    Cloud-Clone Corp. CLIAs for PDLIM1


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    3 InterPro protein domains:
     IPR006643 ZASP
     IPR001478 PDZ
     IPR001781 Znf_LIM

    Graphical View of Domain Structure for InterPro Entry O00151

    ProtoNet protein and cluster: O00151

    3 Blocks protein domains:
    IPB001478 PDZ/DHR/GLGF domain
    IPB001781 Zn-binding protein
    IPB006643 ZASP


    UniProtKB/Swiss-Prot: PDLI1_HUMAN, O00151
    Similarity: Contains 1 LIM zinc-binding domain
    Similarity: Contains 1 PDZ (DHR) domain


    PDLIM1 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: PDLI1_HUMAN, O00151
    Function: Cytoskeletal protein that may act as an adapter that brings other proteins (like kinases) to the
    cytoskeleton

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003713transcription coactivator activity IEA--
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--
         
    PDLIM1 for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for PDLIM1:
     Downregulation of NF-kappaB pa  Downregulation of NF-kappaB pa 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for PDLIM1 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for PDLIM1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for PDLIM1 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for PDLIM1 

    miRNA
    Products:
        
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat PDLIM1
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate PDLIM1
    SwitchGear 3'UTR luciferase reporter plasmidPDLIM1 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for PDLIM1
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PDLIM1

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for PDLIM1
    Sirion Biotech Customized adenovirus for overexpression of PDLIM1

    Clone
    Products:
         
    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for PDLIM1 (see all 8)
    OriGene ORF clones in mouse, rat for PDLIM1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: PDLIM1 (NM_020992)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDLIM1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDLIM1
    Sirion Biotech Customized lentivirus for stable overexpression of PDLIM1 
                         Customized lentivirus expression plasmids for stable overexpression of PDLIM1 

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for PDLIM1
    Search LifeMap BioReagents cell lines for PDLIM1
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDLIM1


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for PDLIM1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 14)

    5/21 Interacting proteins for PDLIM1 (O001512, 3 ENSP000003603054) via UniProtKB, MINT, STRING, and/or I2D (see all 21)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ACTN4O437072, 3, ENSP000002526994MINT-68435 I2D: score=7 STRING: ENSP00000252699
    MAPK6Q166592, 3MINT-8261604 I2D: score=2 
    RPS6KA5O755822, 3MINT-8269648 I2D: score=2 
    VIMP086702, 3, ENSP000002242374MINT-67503 I2D: score=5 STRING: ENSP00000224237
    SUPT4H1P632722, 3, ENSP000002255044MINT-8272399 I2D: score=2 STRING: ENSP00000225504
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001666response to hypoxia IEA--
    GO:0006355regulation of transcription, DNA-dependent IEA--
    GO:0006979response to oxidative stress TAS8522188

    PDLIM1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    PDLIM1 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for PDLIM1 (PDLI1)

    1 Novoseek inferred chemical compound relationship for PDLIM1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 5.81 2 2329796 (1), 12599114 (1)

    Search CenterWatch for drugs/clinical trials and news about PDLIM1 / PDLI1

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for PDLIM1 gene: 
    NM_020992.3  

    Unigene Cluster for PDLIM1:

    PDZ and LIM domain 1
    Hs.368525  [show with all ESTs]
    Unigene Representative Sequence: AK091847
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000329399(uc001kkh.3) ENST00000492511 ENST00000477757 ENST00000490391
    ENST00000493949

    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat PDLIM1
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate PDLIM1
    SwitchGear 3'UTR luciferase reporter plasmidPDLIM1 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for PDLIM1
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PDLIM1
    Clone
    Products:
         
    OriGene clones in human, mouse for PDLIM1 (see all 8)
    OriGene ORF clones in mouse, rat for PDLIM1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: PDLIM1 (NM_020992)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDLIM1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDLIM1
    Sirion Biotech Customized lentivirus for stable overexpression of PDLIM1 
                         Customized lentivirus expression plasmids for stable overexpression of PDLIM1 
    Primer
    Products:
        
    OriGene qPCR primer pairs and template standards for PDLIM1
    OriGene qSTAR qPCR primer pairs in human, mouse for PDLIM1
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat PDLIM1
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PDLIM1
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PDLIM1

    Additional mRNA sequence: 

    AJ310549.1 AK091847.1 AK314792.1 BC000915.2 BC018755.1 U90878.1 

    20 DOTS entries:

    DT.448694  DT.100030819  DT.100887789  DT.100887791  DT.100030821  DT.121217697  DT.100887795  DT.100887785 
    DT.100887806  DT.121217657  DT.100035146  DT.100689814  DT.100801669  DT.100887804  DT.101955574  DT.120776564 
    DT.87016421  DT.95236934  DT.95373757  DT.87016420 

    24/667 AceView cDNA sequences (see all 667):

    CR603427 CR603182 BM928565 BQ954810 BX385554 BX384453 CR598004 CR592822 
    CR605659 BG686354 CR595649 CR592503 CR597094 CD245363 CA407466 BU184861 
    CR620933 CR617851 BG403643 CR603481 BX338226 T30467 CR598764 BP374807 

    GeneLoc Exon Structure

    5/8 Alternative Splicing Database (ASD) splice patterns (SP) for PDLIM1 (see all 8)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c · 6d ^ 7a · 7b ^ 8 ^ 9a · 9b · 9c · 9d
    SP1:                    -     -                       -                                                               
    SP2:                    -     -     -     -           -                                                               
    SP3:                                                  -           -     -                                             
    SP4:                          -                       -                                                               
    SP5:                    -     -                       -     -     -     -     -     -                                 


    ECgene alternative splicing isoforms for PDLIM1

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    PDLIM1 expression in normal human tissues (normalized intensities)      PDLIM1 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CCCGGGAGCG
    PDLIM1 Expression
    About this image


    PDLIM1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/4 selected tissues (see all 4) fully expand
     
     Kidney (Urinary System)    fully expand to see all 2 entries
             Renal Collecting Duct System
     
     Peripheral Nervous System (Nervous System)
             Schwann Precursor Cells Peripheral Nerve Domain
     
     Endothelium (Cardiovascular System)
             Peripheral blood endothelial colony-forming cells
     
     Brain (Nervous System)
             Myelinating Oligodendrocyte Cells Forebrain White Matter

    See PDLIM1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for PDLIM1

    SOURCE GeneReport for Unigene cluster: Hs.368525

    UniProtKB/Swiss-Prot: PDLI1_HUMAN, O00151
    Tissue specificity: Strongly expressed in the heart and skeletal muscle, moderately expressed in the spleen, small
    intestine, colon, placenta, and lung. A lower level expression is seen in liver, thymus, kidney, prostate and
    pancreas and is not found in the brain, testis, ovary, and peripheral blood leukocytes

        SABiosciences Expression via Pathway-Focused PCR Array including PDLIM1: 
              Oxidative Stress in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for PDLIM1
    OriGene qSTAR qPCR primer pairs in human, mouse for PDLIM1
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat PDLIM1
    QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PDLIM1
    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PDLIM1
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDLIM1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for PDLIM1 gene from 5/14 species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Pdlim11 , 5 PDZ and LIM domain 1 (elfin)1, 5 87.38(n)1
    89.85(a)1
      19 (34.24 cM)5
    541321  NM_016861.41  NP_058557.21 
     402211735 
    chicken
    (Gallus gallus)
    Aves PDLIM16
    Uncharacterized protein
    79(a)
    1 ↔ 1
    6(16000513-16037097)
    lizard
    (Anolis carolinensis)
    Reptilia PDLIM16
    Uncharacterized protein
    73(a)
    1 ↔ 1
    GL343297.1(1553617-1582710)
    African clawed frog
    (Xenopus laevis)
    Amphibia BC041514.12   -- 77.93(n)    BC041514.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.233762 Transcribed sequence with weak similarity to protein more 74.65(n)    CK027259.1 


    ENSEMBL Gene Tree for PDLIM1 (if available)
    TreeFam Gene Tree for PDLIM1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for PDLIM1 gene
    PDLIM42  PDLIM22  PDLIM32  
    3 SIMAP similar genes for PDLIM1 using alignment to 1 protein entry:     PDLI1_HUMAN:
    PDLIM4    PDLIM3    PDLIM2

    PDLIM1 for paralogs           About GeneDecksing


    4 Pseudogenes.org Pseudogenes for PDLIM1
    PGOHUM00000248164 PGOHUM00000236979 PGOHUM00000236993 PGOHUM00000238114


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/1153 SNPs in PDLIM1 are shown (see all 1153)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs455746361,2
    C,F--96996877(-) ACCTCG/ATGATC 1 -- ds50015Minor allele frequency- A:0.01NS 188
    rs455386321,2
    C,F--96996892(-) GGTCTT/CGATCT 1 -- ds50015Minor allele frequency- C:0.01NS 188
    rs456104331,2
    C,F--96996900(-) GCCAGC/GATGGT 1 -- ds50015Minor allele frequency- G:0.01NS 188
    rs454830971,2
    C,F--96996911(-) TCACCA/GCATTA 1 -- ds50016Minor allele frequency- G:0.05NS NA 190
    rs454658951,2
    C,F--96996920(-) GACGGG/AGTTTC 1 -- ds50016Minor allele frequency- A:0.01NS CSA 190
    rs455955351,2
    C,F--96996922(-) GAGACG/AGGGTT 1 -- ds50015Minor allele frequency- A:0.02NS 188
    rs127639391,2
    C,F--96996940(+) aatacA/Gaaaaa 1 -- ds50019Minor allele frequency- G:0.06NS NA 196
    rs1451385101,2
    C--96996968(+) GCAGGC/TGCCTG 1 -- ds50010--------
    rs1841109341,2
    --96997021(+) AACCCA/GGGAGG 1 -- ds50010--------
    rs1869243351,2
    --96997079(+) CGACAC/TAGCGA 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for PDLIM1 (96997329 - 97050781 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for PDLIM1:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv22688CNV Gain+Loss19812545

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing PDLIM1
    DNA2.0 Custom Variant and Variant Library Synthesis for PDLIM1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 605900    OMIM disorders: --

    20/27 diseases for PDLIM1 (see all 27):    About MalaCards
    hyperacusis    scimitar syndrome    johanson-blizzard syndrome    donohue syndrome
    faces syndrome    supravalvular aortic stenosis    pulmonary valve stenosis    dental enamel hypoplasia
    mitral valve prolapse    strabismus    williams syndrome    acanthosis nigricans
    hypercalcemia    hypertrichosis    chronic granulomatous disease    aortic valve stenosis
    williams-beuren syndrome    otitis media    craniosynostosis    protein s deficiency

    5 diseases from the University of Copenhagen DISEASES database for PDLIM1:
    Aortic valve stenosis     Williams-Beuren syndrome     Donohue Syndrome     Intellectual disability
    Hypercalcemia

    PDLIM1 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015

    10 Novoseek inferred disease relationships for PDLIM1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    aortic stenosis supravalvular 93.4 11 1824530 (1), 7503839 (1), 9285033 (1), 8766044 (1) (see all 10)
    williams syndrome 93.3 19 8138341 (3), 13677282 (2), 2033166 (2), 14635404 (1) (see all 15)
    hypercalcemia 68.7 9 15303821 (1), 9285033 (1), 13677282 (1), 2033166 (1) (see all 9)
    mental retardation 65.9 12 13677282 (2), 1824530 (1), 7503839 (1), 8527335 (1) (see all 11)
    developmental delay 55.1 2 14636357 (1), 2329796 (1)
    heart defects congenital 42.3 3 17625998 (1), 14636357 (1), 12599114 (1)
    mitral valve prolapse 41.3 1 8351994 (1)
    aortic stenosis 40.8 3 1488232 (1), 8469630 (1), 8620979 (1)
    mitral regurgitation 35.7 2 8351994 (1), 2038171 (1)
    strabismus 31.6 1 7503839 (1)

    Genetic Association Database (GAD): PDLIM1
    Human Genome Epidemiology (HuGE) Navigator: PDLIM1 (4 documents)

    Export disorders for PDLIM1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for PDLIM1 gene, integrated from 9 sources (see all 81):
    (articles sorted by number of sources associating them with PDLIM1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Interaction of hCLIM1, an enigma family protein, with alpha-actinin 2. (PubMed id 10861853)1, 2, 3, 9 Kotaka M....Waye M.M. (2000)
    2. Human CLP-36, a PDZ-domain and LIM-domain protein, binds to alpha- actinin-1 and associates with actin filaments and stress fibers in activated platelets and endotheleial cells. (PubMed id 11110697)1, 2, 9 Bauer K.... Siess W. (2000)
    3. CLP-36 PDZ-LIM protein associates with nonmuscle alpha-actinin-1 and alpha-actinin-4. (PubMed id 10753915)1, 2, 9 Vallenius T.... Makela T.P. (2000)
    4. Characterization of the human 36-kDa carboxyl terminal LIM domain protein (hCLIM1). (PubMed id 10022510)1, 2, 9 Kotaka M.... Waye M.M.Y. (1999)
    5. Refined genomic localization and ethnic differences observed for the IBD5 association with Crohn's disease. (PubMed id 17213842)1, 4 Silverberg M.S....Daly M.J. (2007)
    6. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PubMed id 16385451)1, 4 Grupe A....Goate A. (2006)
    7. Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PubMed id 15592455)1, 2 Rush J.... Comb M.J. (2005)
    8. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (2004)
    9. Robust phosphoproteomic profiling of tyrosine phosphorylation sites from human T cells using immobilized metal affinity chromatography and tandem mass spectrometry. (PubMed id 15144186)1, 2 Brill L.M....Peters E.C. (2004)
    10. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 9124 HGNC: 2067 AceView: PDLIM1 Ensembl:ENSG00000107438 euGenes: HUgn9124
    ECgene: PDLIM1 H-InvDB: PDLIM1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for PDLIM1 Pharmacogenomics, SNPs, Pathways
    NIEHS-SNPshttp://egp.gs.washington.edu/data/pdlim1/

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for PDLIM1 gene:
    Search GeneIP for patents involving PDLIM1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
     EMD Millipore Custom Antibody & Bulk Services
     EMD Millipore Preclinical / Clinical Development Services
     EMD Millipore Immunoassay Services
     EMD Millipore Target Screening & Profiling Services

      
     Browse Antibodies   Browse Cell Culture Products  
     Browse ELISAs   Browse Flow Cytometry Kits  
     Browse Primer Pairs   Browse Kinase Activity Assays/Reagents  
     Browse ELISpot Kits/Development Modules   Browse TFB/Immunoprecipitation Assays  
     Browse Apoptosis Detection Kits/Reagents   Browse Ubiquitin Proteasome Pathway (UPP) Assay Kits/Reagents  
     Browse DNA Damage/Repair Kits/Reagents   Browse Multiplex/Array Assay Kits/Reagents  
     Browse Cell Selection/Detection Kits/Reagents   Browse Secondary Antibodies/Controls/Staining Reagents  
     Browse Protease Activity Assays and Reagents   Browse Recombinant/Natural Proteins  
     Browse Stem Cell Products   Browse Tocris Biochemicals & Compounds  
     Browse cDNA Clones   Browse Proteome Profiler Antibody Arrays  
     OriGene Antibodies for PDLIM1   OriGene RNAi products in human, mouse, rat for PDLIM1  
     OriGene qPCR primer pairs and template standards for PDLIM1   OriGene Protein Over-expression Lysate for PDLIM1  
     OriGene MassSpec something-or-other for PDLIM1   OriGene clones in human, mouse for PDLIM1  
     OriGene qSTAR qPCR primer pairs in human, mouse for PDLIM1   OriGene Purified Protein for PDLIM1  
     OriGene ORF clones in mouse, rat for PDLIM1   OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling  
     OriGene Custom Antibody Services for PDLIM1   OriGene Custom Protein Services for PDLIM1  

     
     
     QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat PDLIM1
     QIAGEN SeqTarget long-range PCR primers for resequencing PDLIM1
     QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PDLIM1
     QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PDLIM1
     QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PDLIM1
     QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PDLIM1
     GenScript Custom Purified and Recombinant Proteins Services for PDLIM1 GenScript cDNA clones with any tag delivered in your preferred vector for PDLIM1
     GenScript Custom Assay Services for PDLIM1 GenScript Custom Superior Antibodies Services for PDLIM1
     GenScript Custom overexpressing Cell Line Services for PDLIM1 CloneReady with Over 120,000 Genes
     Gene Synthesis: Any Gene in Any Vector Vector-based siRNA and miRNA, Ready for Transfection
     Gene Mutant Library, Variants up to 10^11 Plasmid Preparation
     Custom Peptide Services
     Search for Antibodies & Assays

     Regulatory tfbs in PDLIM1 promoter
     Search Chromatin IP Primers for PDLIM1
     RT2 qPCR Primer Assay in human, mouse, rat PDLIM1
     GNC Network for PDLIM1
     SABiosciences PCR Arrays including human, mouse, rat PDLIM1
     Search Tocris compounds for PDLIM1 (PDLI1)
     Browse Sino Biological Proteins and Antibodies
     Browse Sino Biological Cell Lysates
     Browse Sino Biological cDNA Clones
     4000+ Proteins
     Search Sino Biological for antibodies, proteins & pathways
     Protein Production Services
     Transfection Reagents
     Protein A/G/L resins
     Isotyping reagents
     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies
     Novus Tissue Slides
     PDLIM1 antibodies
     PDLIM1 proteins
     PDLIM1 lysates
     Antibodies for PDLIM1
     See all of Abcam's Antibodies, Kits and Proteins for PDLIM1
     Custom Antibody / Protein Production Service
     Bulk Purchasing
     Advantages of Rabbit Monoclonal antibodies
     Abcam protocols and scientific support
     Browse ProSpec Recombinant Proteins




     Proteins for PDLIM1
     Antibodies for PDLIM1
     ELISAs for PDLIM1
     CLIAs for PDLIM1
     Search LifeMap BioReagents cell lines for PDLIM1
     Gene Synthesis
     Protein Engineering
     Variant Library Synthesis
     Codon Optimization
     Protein Production and Purification
     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDLIM1
     SwitchGear 3'UTR luciferase reporter plasmids for PDLIM1
     SwitchGear Promoter luciferase reporter plasmids for PDLIM1
     ThermoFisher Antibodies for PDLIM1
     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDLIM1
     inGenious Targeting Laboratory - Custom generated mouse model solutions for PDLIM1
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for PDLIM1
    Customized:
     lentivirus for stable overexpression of PDLIM1
     lentivirus expression plasmids for stable overexpression of PDLIM1
     adenovirus for overexpression of PDLIM1
     LSBio Antibodies in human, mouse, rat for PDLIM1
    Customized transgenic rodents for:
     Humanization
     Biomarker expression
     Off-target effect monitoring
     Translational medicine
     Tissue-specific gene expresssion
     Time-controlled gene expresssion
           
    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

    View Random Gene

    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


    Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

    Hot genes      Disease genes      PDLIM1 gene at Home site.
    hostname: 356977-web1.xennexinc.com index build: 106 solr: 1.4