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

HDAC3 Gene

protein-coding   GIFtS: 69
GCID: GC05M140980

histone deacetylase 3
 Explore 37 diseases affiliated with
HDAC3 via
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Biological research products
for HDAC3    

Aliases
for HDAC3 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Histone Deacetylase 31 2
HD31 2 3
RPD3-21 2 3
RPD31 2
SMAP452 3
EC 3.5.1.983 8

External Ids:    HGNC: 48541   Entrez Gene: 88412   Ensembl: ENSG000001717207   OMIM: 6051665   UniProtKB: O153793   

Export aliases for HDAC3 gene to outside databases

Previous GC identifers: GC05U990082 GC05M141583 GC05M140983 GC05M141028 GC05M136145


Summaries
for HDAC3 gene

(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 HDAC3:
Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events. Histone
acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The protein
encoded by this gene belongs to the histone deacetylase/acuc/apha family. It has histone deacetylase activity and
represses transcription when tethered to a promoter. It may participate in the regulation of transcription through its
binding with the zinc-finger transcription factor YY1. This protein can also down-regulate p53 function and thus
modulate cell growth and apoptosis. This gene is regarded as a potential tumor suppressor gene. (provided by RefSeq,
Jul 2008)

UniProtKB/Swiss-Prot: HDAC3_HUMAN, O15379
Function: Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B,
H3 and H4), and some other non-histone substrates. Histone deacetylation gives a tag for epigenetic repression and
plays an important role in transcriptional regulation, cell cycle progression and developmental events. Histone
deacetylases act via the formation of large multiprotein complexes. Probably participates in the regulation of
transcription through its binding to the zinc-finger transcription factor YY1; increases YY1 repression activity.
Required to repress transcription of the POU1F1 transcription factor. Acts as a molecular chaperone for shuttling
phosphorylated NR2C1 to PML bodies for sumoylation (By similarity)

summary for HDAC3:
Histone Deacetylases (HDACs) are a group of enzymes closely related to sirtuins. They catalyze the removal
of acetyl groups from lysine residues in histones and non-histone proteins, resulting in transcriptional
repression. In general, they do not act autonomously but as components of large multiprotein complexes, such
as pRb-E2F and mSin3A, that mediate important transcription regulatory pathways. There are three classes of
HDACs; classes 1, 2 and 4, which are closely related Zn2+-dependent enzymes. HDACs are ubiquitously
expressed and they can exist in the nucleus or cytosol. Their subcellular localization is effected by
protein-protein interactions (for example HDAC-14.3.3 complexes are retained in the cytosol) and by the
class to which they belong (class 1 HDACs are predominantly nuclear whilst class 2 HDACs shuttle between the
nucleus and cytosol). HDACs have a role in cell growth arrest, differentiation and death and this has led to
substantial interest in HDAC inhibitors as possible antineoplastic agents.

Gene Wiki entry for HDAC3


Genomic Views
for HDAC3 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000005.9  NC_018916.1  NT_029289.11  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the HDAC3 gene promoter:
         AP-2alpha isoform 3   AP-1   AP-2alpha isoform 4   AP-2alpha isoform 2   AP-2alpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): HDAC3 promoter sequence
   Search SABiosciences Chromatin IP Primers for HDAC3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HDAC3


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

Entrez Gene cytogenetic band: 5q31   Ensembl cytogenetic band:  5q31.3   HGNC cytogenetic band: 5q31.1-q31.2

HDAC3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HDAC3 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05M140980:  view genomic region     (about GC identifiers)

Start:
 141,000,443 bp from pter      End:
 141,016,437 bp from pter
Size:
 15,995 bases      Orientation:
 minus strand

Proteins
for HDAC3 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: HDAC3_HUMAN, O15379 (See protein sequence)
Recommended Name: Histone deacetylase 3  
Size: 428 amino acids; 48848 Da
Subunit: Interacts with HDAC7 and HDAC9. Forms a heterologous complex at least with YY1. Interacts with DAXX, HDAC10
and DACH1. Found in a complex with NCOR1 and NCOR2. Component of the N-Cor repressor complex, at least composed of
NCOR1, NCOR2, HDAC3, TBL1X, TBL1R, CORO2A and GPS2. Interacts with BCOR, MJD2A/JHDM3A, NRIP1, PRDM6 and SRY. Interacts
with BTBD14B. Interacts with GLIS2. Interacts (via the DNA-binding domain) with NR2C1; the interaction recruits
phosphorylated NR2C1 to PML bodies for sumoylation (By similarity). Component of the Notch corepressor complex.
Interacts with CBFA2T3 and NKAP. Interacts with APEX1; the interaction is not dependent on the acetylated status of
APEX1. Interacts with and deacetylates MAPK14. Interacts with ZMYND15 (By similarity)
Subcellular location: Nucleus
1 PDB 3D structure from and Proteopedia for HDAC3:
4A69 (3D)    
Secondary accessions: D3DQE1 O43268 Q9UEI5 Q9UEV0
Alternative splicing: 2 isoforms:  O15379-1   O15379-2   

Explore the universe of human proteins at neXtProt for HDAC3: NX_O15379

Post-translational modifications:

  • Sumoylated in vitro1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_O15379

    • 4/18 DME Specific Peptides for HDAC3 (O15379) (see all 18)
     HPMKPHR  QCGADSL  VSFHKYG  RCWTYET 

    HDAC3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_003874.2  
    ENSEMBL proteins: 
     ENSP00000302967   ENSP00000430667   ENSP00000429099   ENSP00000430782  
    Reactome Protein details: O15379
    Human Recombinant Protein Products: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Enzo Life Sciences proteins for HDAC3
    OriGene Purified Protein: HDAC3
    OriGene Protein Over-expression Lysate: HDAC3
    OriGene Custom Protein Services for HDAC3 
    GenScript Custom Purified and Recombinant Proteins Services for HDAC3
    Novus Biologicals HDAC3 Proteins
    Novus Biologicals HDAC3 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins
    Uscn Proteins for HDAC3

    Gene Ontology (GO): 5/7 cellular component terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000118histone deacetylase complex TAS12711221
    GO:0000785chromatin ----
    GO:0005634nucleus TAS12711221
    GO:0005654nucleoplasm TAS--
    GO:0005737cytoplasm TAS12711221


    HDAC3 for ontologies           About GeneDecksing



    HDAC3 Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of HDAC3
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    Cell Signaling Technology (CST) Antibodies for HDAC3 
    OriGene Antibodies (see all 4): HDAC3
    OriGene Custom Antibody Services for HDAC3 
    GenScript Custom Superior Antibodies Services for HDAC3
    Novus Biologicals HDAC3 Antibodies
    Abcam antibodies for HDAC3 
    Uscn Antibodies for HDAC3
    ThermoFisher Antibody for HDAC3

    Assay Products for HDAC3: 
    EMD Millipore Kits and Assays for the Analysis of HDAC3
    OriGene Custom Immunoassay Development
    Browse OriGene Fluorogenic Cell Assay Kits
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for HDAC3
    Enzo Life Sciences assays for HDAC3
    Uscn ELISAs and CLIAs for HDAC3

    Protein Domains /
    Families
    for HDAC3 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HDAC3 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR000286 His_deacetylse
     IPR003084 His_deacetylse_1
     IPR023801 His_deacetylse_dom

    Graphical View of Domain Structure for InterPro Entry O15379

    ProtoNet protein and cluster: O15379

    2 Blocks protein families:
    IPB000286 Histone deacetylase superfamily signature
    IPB003084 Histone deacetylase signature


    UniProtKB/Swiss-Prot: HDAC3_HUMAN, O15379
    Similarity: Belongs to the histone deacetylase family. HD type 1 subfamily


    Function
    for HDAC3 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Function Summary:

         UniProtKB/Swiss-Prot: HDAC3_HUMAN, O15379
    Function: Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B,
    H3 and H4), and some other non-histone substrates. Histone deacetylation gives a tag for epigenetic repression and
    plays an important role in transcriptional regulation, cell cycle progression and developmental events. Histone
    deacetylases act via the formation of large multiprotein complexes. Probably participates in the regulation of
    transcription through its binding to the zinc-finger transcription factor YY1; increases YY1 repression activity.
    Required to repress transcription of the POU1F1 transcription factor. Acts as a molecular chaperone for shuttling
    phosphorylated NR2C1 to PML bodies for sumoylation (By similarity)
    Catalytic activity: Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone

         Genatlas biochemistry entry for HDAC3:
    histone deacetyltransferase 3,49kDa,ubiquitously expressed,binding to YY1,involved in negative regulation of
    transcription,modulator of chromatine structure,putatively involved in the pathogenesis of myeloproliferative
    disorders (potential tumor suppressor)

    Enzyme Number (IUBMB): EC 3.5.1.981 2

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat HDAC3
    7 QIAGEN miScript miRNA Assays for microRNAs that regulate HDAC3:
    hsa-miR-548d-3p hsa-miR-548am hsa-miR-3613-3p hsa-miR-548x hsa-miR-1261 hsa-miR-3662 hsa-miR-362-5p
    SwitchGear 3'UTR luciferase reporter plasmid: HDAC3 3' UTR sequence
    Inhib. RNA
    Products:            		EMD Millipore RNAi Products for the Analysis of HDAC3 Gene knock-down
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for HDAC3 (see all 7)
    OriGene shRNA RFP: HDAC3
    OriGene siRNA: HDAC3
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat HDAC3

    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for HDAC3

    Clone
    Products:             		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HDAC3 (see all 3)
    OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HDAC3
    OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector: HDAC3 (NM_003883)
    Sino Biological Human cDNA Clone for HDAC3
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for HDAC3
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDAC3 

    Cell Line
    Products:             		GenScript Custom overexpressing Cell Line Services for HDAC3
    Search LifeMap BioReagents cell lines for HDAC3

    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HDAC3

    Gene Ontology (GO): 5/14 molecular function terms (GO ID links to tree view) (see all 14):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding ----
    GO:0003682chromatin binding ----
    GO:0003714transcription corepressor activity IMP12628926
    GO:0004407histone deacetylase activity TAS12711221
    GO:0005515protein binding IPI18854353


    HDAC3 for ontologies           About GeneDecksing


    8 GenomeRNAi human phenotypes for HDAC3:
     Decreased Salmonella enterica   Decreased Salmonella enterica   Decreased Salmonella enterica   Decreased Salmonella enterica  
     Decreased Salmonella-containin  Decreased viability  G0/1 arrest  Increased G1 DNA content 

    Animal Models:
         Mouse knock-outs for HDAC3: Hdac3tm1.1Swh Hdac3tm1.2Eno Hdac3tm1.2Xen
         11 MGI mutant phenotypes (inferred from 8 alleles) (MGI details for Hdac3):
     adipose tissue  behavior/neurological  cardiovascular system  cellular  embryogenesis 
     growth/size  homeostasis/metabolism  liver/biliary system  mortality/aging  muscle 
     no phenotypic analysis 

    HDAC3 for phenotypes           About GeneDecksing


    Pathways & Interactions
    for HDAC3 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways - 5/34 super-pathways (see all 34) About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Signaling by NOTCH1 t(7 9)(NOTCH1:M1580_K2555) Translocation Mutant
    8/12 pathways (see all 12)
    		Signaling by NOTCH1 t(7 9)(NOTCH1:M1580_K2555) Translocation Mutant1.00
    		Signaling by NOTCH11.00
    		Signaling by NOTCH1 PEST Domain Mutants in Cancer1.00
    		Constitutive Signaling by NOTCH1 PEST Domain Mutants0.79
    		Signaling by NOTCH1 HD+PEST Domain Mutants in Cancer1.00
    		Signaling by NOTCH0.77
    		Signaling by NOTCH1 in Cancer1.00
    		Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants0.71
    2Regulation of Lipid Metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha)
    		Regulation of Lipid Metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha)1.00
    		Fatty acid, triacylglycerol, and ketone body metabolism0.52
    3Metabolism
    		Metabolism1.00
    		Metabolism of lipids and lipoproteins0.34
    4DNA Methylation and Transcriptional Repression
    		DNA Methylation and Transcriptional Repression1.00
    		Macrophage Differentiation and Growth Inhibition by METS0.30
    5Cyclins and Cell Cycle Regulation
    		Cyclins and Cell Cycle Regulation1.00
    		G1-S Phase Transition0.67

    Pathway sources
    See GeneCards unified pathways
    Show all pathways

    1 EMD Millipore Pathway for HDAC3
        Histone modification

    5/16 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for HDAC3 (see all 16)
        NF-KappaB (p50-p65) Pathway
    DNA Methylation and Transcriptional Repression
    Protein Acetylation and Deacetylation
    BRCA1 Pathway
    Glucocorticoid Receptor Signaling

    1 Cell Signaling Technology (CST) Pathway for HDAC3
        Chromatin Regulation / Acetylation

    5/7 BioSystems Pathways for HDAC3 (see all 7) 
        Cell cycle
    Neural Crest Differentiation
    Regulation of retinoblastoma protein
    Signaling events mediated by HDAC Class II
    Validated targets of C-MYC transcriptional repression

    5/24        Reactome Pathways for HDAC3 (see all 24)
        Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
    NOTCH1 Intracellular Domain Regulates Transcription
    Developmental Biology
    Transcriptional Regulation of White Adipocyte Differentiation
    FBXW7 Mutants and NOTCH1 in Cancer



    HDAC3 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for HDAC3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/424 Interacting proteins for HDAC3 (O153791, 2, 3 ENSP000003029674) via UniProtKB, MINT, STRING, and/or I2D (see all 424)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053, ENSP000003529804I2D: score=1 STRING: ENSP00000352980
    HIST1H4BP628053I2D: score=1 
    HIST1H4CP628053I2D: score=1 
    HIST1H4DP628053I2D: score=1 
    HIST1H4EP628053I2D: score=1 
    About this table

    Gene Ontology (GO): 5/19 biological process terms (GO ID links to tree view) (see all 19):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IMP12628926
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006476protein deacetylation IDA17172643
    GO:0007219Notch signaling pathway TAS--
    GO:0007346regulation of mitotic cell cycle IEA--


    HDAC3 for ontologies           About GeneDecksing



    Drugs & Compounds
    for HDAC3 gene

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

    HDAC3 for compounds           About GeneDecksing

    EMD Millipore small molecules for HDAC3:
    Small Molecule - inhibitor
    Enzo Life Sciences drugs & compounds for HDAC3

    Compounds for HDAC3 available from Tocris Bioscience    About this table
    CompoundAction CAS #
    NCH 51Histone deacetylase inhibitor[848354-66-5]
    Trichostatin AHistone deacetylase inhibitor[58880-19-6]
    TC-H 106Class I histone deacetylase inhibitor[937039-45-7]
    KD 5170Histone deacetylase inhibitor[940943-37-3]
    Sodium 4-PhenylbutyrateHistone deacetylase inhibitor[1716-12-7]

    1 HMDB Compound for HDAC3    About this table
    CompoundSynonyms CAS #PubMed Ids
    Butyric acid1-Butyrate (see all 25)107-92-617258775

    1 DrugBank Compound for HDAC3    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    VorinostatMK0683 (see all 7)149647-78-9targetinhibitor17694093

    10/14 Novoseek chemical compound relationships for HDAC3 gene (see all 14)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    suberoylanilide hydroxamic acid 74.5 3 17671692 (1), 15583844 (1), 20460513 (1)
    trapoxin 67.4 3 9520398 (1)
    butyrate 43.9 4 17849419 (3), 16849648 (1)
    lysine 35.8 2 15837933 (2)
    retinoic acid 34.8 12 19204783 (2), 14510502 (1), 17456789 (1), 11278635 (1) (see all 7)
    retinoid 24.1 1 19952854 (1)
    dopamine 6.2 8 10431754 (2), 9765337 (1), 10455259 (1), 9849894 (1) (see all 5)
    atp 0 2 17242407 (1), 11777905 (1)
    forskolin 0 1 16528103 (1)
    tyrosine 0 1 19171783 (1)

    Search CenterWatch for drugs/clinical trials and news about HDAC3 

    Transcripts
    for HDAC3 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for HDAC3 gene: 
    NM_003883.3  

    Unigene Cluster for HDAC3:

    Histone deacetylase 3
    Hs.519632  [show with all ESTs]
    Unigene Representative Sequence: AF005482
    17 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000469550(uc003lle.1) ENST00000305264(uc003llf.2 uc010jgd.1 uc010jge.1)
    ENST00000469207 ENST00000459727 ENST00000491581 ENST00000486618 ENST00000467533
    ENST00000492407 ENST00000523353 ENST00000475549 ENST00000523088 ENST00000519474
    ENST00000476739 ENST00000495485 ENST00000490808 ENST00000471968 ENST00000492506


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    hsa-miR-548d-3p hsa-miR-548am hsa-miR-3613-3p hsa-miR-548x hsa-miR-1261 hsa-miR-3662 hsa-miR-362-5p
    SwitchGear 3'UTR luciferase reporter plasmid: HDAC3 3' UTR sequence
    Inhib. RNA
    Products:             		EMD Millipore RNAi Products for the Analysis of HDAC3 Gene knock-down
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for HDAC3 (see all 7)
    OriGene shRNA RFP: HDAC3
    OriGene siRNA: HDAC3
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat HDAC3
    Clone
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    OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector: HDAC3 (NM_003883)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for HDAC3
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDAC3 
    Primer
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat HDAC3

    Additional cDNA sequence: 

    AF005482.1 AF039703.1 AY429537.1 AY429538.1 BC000614.1 U66914.1 U75696.1 U75697.1 

    23 DOTS entries:

    DT.100785686  DT.443260  DT.95297791  DT.120855392  DT.75137917  DT.100785687  DT.100785696  DT.97854585 
    DT.91777204  DT.75190334  DT.91777155  DT.95207505  DT.100744185  DT.100785692  DT.100785694  DT.120855407 
    DT.120855433  DT.75112484  DT.95293677  DT.95297854  DT.95297862  DT.120855314  DT.95297860 

    24/315 AceView cDNA sequences (see all 315):

    AI339444 AA887531 AW273644 BE857995 AA282808 CR623951 CA422573 Z41762 
    BX346027 BI759887 BG755703 CF127963 BM023395 BG475337 AI032140 BF940597 
    BQ015486 BG055314 T34171 AA115046 BQ014540 CR624340 BQ015435 BC000614 

    GeneLoc Exon Structure

    5/12 Alternative Splicing Database (ASD) splice patterns (SP) for HDAC3 (see all 12)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c · 3d ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12a · 12b · 12c · 12d ^ 13a · 13b ^ 14 ^
    SP1:                    -                             -                                         -                       -     -                                 
    SP2:                                                  -                                         -                       -     -                                 
    SP3:                    -     -     -     -           -                                         -                       -     -                                 
    SP4:                    -     -     -     -     -     -                                         -                       -     -                                 
    SP5:                                                  -                                                                 -     -                                 

    ExUns: 15 ^ 16
    SP1:            
    SP2:            
    SP3:            
    SP4:            
    SP5:            


    ECgene alternative splicing isoforms for HDAC3

    Expression
    for HDAC3 gene

    (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

    HDAC3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ACAATGACAA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image
    See HDAC3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for HDAC3

    SOURCE GeneReport for Unigene cluster: Hs.519632

    UniProtKB/Swiss-Prot: HDAC3_HUMAN, O15379
    Tissue specificity: Widely expressed

        SABiosciences Expression via Pathway-Focused PCR Arrays including HDAC3: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Cancer Drug Targets in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat
              Apoptosis 384HT in human mouse rat

    Primer
    Products:    		 OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for HDAC3
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    In Situ
    Assay Products:     
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    Orthologs
    for HDAC3 gene

    (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 eukaryotes.

    Orthologs for HDAC3 gene from 9/32 species (see all 32)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Hdac31 , 5 histone deacetylase 31, 5 92.37(n)1
    99.77(a)1    		   18 (19.81 cM)5
    151831  NM_010411.21  NP_034541.21 
     379358445 
    chicken
    (Gallus gallus)    		 Aves HDAC31 histone deacetylase 3 81.78(n)
    97.43(a)    		   395506  NM_204747.1  NP_990078.1 
    lizard
    (Anolis carolinensis)    		 Reptilia HDAC36
    		 --
    		 97(a)
    		 1 ↔ 1
    		 4(76328075-76353557)
    tropical clawed frog
    (Xenopus tropicalis)    		 Amphibia Str.204852 Transcribed sequence with strong similarity to protein more 79.01(n)    AL873085.2 
    zebrafish
    (Danio rerio)    		 Actinopterygii zgc559272 similar to histone deacetylase 3 78.1(n)   393965  BC044543.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta HDAC33
    Hdac31    		 histone deacetylase3
    Histone deacetylase 31    		 65(a)3
    66.51(n)1
    67.06(a)1    		   83A43
    444461  NM_143721.31  NP_651978.21 
    worm
    (Caenorhabditis elegans)    		 Secernentea hda-13 Yeast RPD3 protein like 54(a)
    (best of 2)    		   V(14528006-14529575)   --
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons HDA096
    hda176
    (see all 3)    		 histone deacetylase 17
    (see all 3)    		 57(a)
    45(a)
    (see all 3)    		 many → 1
    many → 1
    (see all 3)    		 3(16226556-16229954)
    3(16097479-16098599)
    rice
    (Oryza sativa)    		 Liliopsida AF513384.12   -- 75.27(n)    AF513384.1 


    ENSEMBL Gene Tree for HDAC3 (if available)
    TreeFam Gene Tree for HDAC3 (if available) 

    Paralogs
    for HDAC3 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for HDAC3 gene
    HDAC12  HDAC22  HDAC82  
    5 SIMAP similar genes for HDAC3 using alignment to 5 protein entries:     HDAC3_HUMAN (see all proteins):
    HDAC2    HDAC1    DKFZp686H12203    HDAC8    HDAC9

    HDAC3 for paralogs           About GeneDecksing



    Genomic Variants
    for HDAC3 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/286 NCBI SNPs in HDAC3 are shown (see all 286)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 5 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs732823301,2
    		C,--136149014(+) ATAGTG/ATATTT 1 -- int11Minor allele frequency- A:0.50WA 2
    rs4612081,2
    		H--136149029(+) TCTATA/CGAAAA 1 -- int15Minor allele frequency- C:0.00MN NS EA 602
    rs2021074221,2
    		C--136149620(+) CTCCCC/TCCCCA 1 -- int10--------
    rs2019297271,2
    		C--136149635(-) GGCAGG/TTGGGG 1 -- int10--------
    rs747265981,2
    		F,--136149667(+) TCCTAG/TTCAAT 1 -- int11Minor allele frequency- T:0.04WA 118
    rs1115027091,2
    		--136150070(+) TTCTGG/CAATCT 1 -- int11Minor allele frequency- C:0.50CSA 2
    rs412906031,2
    		--136150238(+) CCATGA/TGGCCA 1 -- int10--------
    rs773542131,2
    		F,--136150478(+) GAGCAC/TAAGAA 1 -- int11Minor allele frequency- T:0.02WA 118
    rs1119799271,2
    		--136151284(+) GCTAGG/TACTAT 1 -- int12Minor allele frequency- T:0.07CSA WA 120
    rs1126534931,2
    		F--136151631(+) TCTTTC/TTTTCT 1 -- int12Minor allele frequency- T:0.50CSA 4

    HapMap Linkage Disequilibrium report for HDAC3 (141000443 - 141016437 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for HDAC3
         1 CNV: 51581

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    Disorders / Diseases
    for HDAC3 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    HDAC3 for disorders           About GeneDecksing

    OMIM gene information: 605166    OMIM disorders: --

    20/37 diseases for HDAC3 (see all 37):    About MalaCards
    nonsyndromic deafness    friedreich ataxia    myeloid leukemia    chronic myeloid leukemia
    acute myeloid leukemia    myeloproliferative disorder    myeloid malignancy    hodgkin's lymphoma
    hepatocellular carcinoma    colon cancer    leukemia    lung carcinoma
    carcinoma    endometrial carcinoma    acute leukemia    ataxia
    medulloblastoma    ovarian carcinoma    pancreatitis    pancreatic carcinoma

    10/11 Novoseek disease relationships for HDAC3 gene (see all 11)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    colon cancer 38.1 23 15981215 (3), 17849419 (3), 16533812 (3), 18769117 (3) (see all 6)
    cancer 31.1 16 19471575 (3), 16044157 (2), 19430493 (2), 20417177 (2) (see all 7)
    tumors 29.3 20 10575214 (2), 16309230 (1), 18027850 (1), 10491319 (1) (see all 13)
    colon tumor 11 1 16533812 (1)
    leukemia 10.9 2 17694085 (1), 19121623 (1)
    leukemia promyelocytic acute 8.83 1 16432238 (1)
    necrosis 4.84 4 15811852 (1), 16371367 (1), 20097764 (1)
    shock 0 2 16044157 (1), 12691522 (1)
    lung carcinoma 0 3 16022908 (1), 17650409 (1)
    carcinoma 0 1 18714364 (1)

    Human Genome Epidemiology (HuGE) Navigator: HDAC3 (5 documents)

    Export disorders for HDAC3 gene to outside databases

    Publications
    for HDAC3 gene

    (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 HDAC3 gene, integrated from 9 sources (see all 395):
    (articles sorted by number of sources associating them with HDAC3)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Differential display cloning of a novel human histone deacetylase (HDAC3) cDNA from PHA-activated immune cells. (PubMed id 9464271)1, 2, 3, 9 Dangond F....Gullans S.R. (1998)
    2. Characterization of a human RPD3 ortholog, HDAC3. (PubMed id 9501169)1, 2, 3, 9 Emiliani S.... Verdin E. (1998)
    3. The histone deacetylase-3 complex contains nuclear receptor corepressors. (PubMed id 10860984)1, 2, 9 Wen Y.-D.... Seto E. (2000)
    4. Human HDAC7 histone deacetylase activity is associated with HDAC3 in vivo. (PubMed id 11466315)1, 2, 9 Fischle W....Verdin E. (2001)
    5. Both corepressor proteins SMRT and N-CoR exist in large protein complexes containing HDAC3. (PubMed id 10944117)1, 2, 9 Li J.... Wong J. (2000)
    6. Isolation and characterization of cDNAs corresponding to an additional member of the human histone deacetylase gene family. (PubMed id 9346952)1, 2, 9 Yang W.-M.... Seto E. (1997)
    7. Purification and functional characterization of the human N-CoR complex: the roles of HDAC3, TBL1 and TBLR1. (PubMed id 12628926)1, 2, 9 Yoon H.-G....Wong J. (2003)
    8. A core SMRT corepressor complex containing HDAC3 and TBL1, a WD40- repeat protein linked to deafness. (PubMed id 10809664)1, 2, 9 Guenther M.G....Shiekhattar R. (2000)
    9. Regulation of human SRY subcellular distribution by its acetylation/deacetylation. (PubMed id 15297880)1, 2, 9 Thevenet L....Boizet-Bonhoure B. (2004)
    10. Identification of HDAC10, a novel class II human histone deacetylase containing a leucine-rich domain. (PubMed id 11861901)1, 2, 9 Tong J.J.... Yang X.-J. (2002)

    External Searches for HDAC3 gene

    (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)

    Genome Databases showing HDAC3 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 8841 HGNC: 4854 AceView: HDAC3 Ensembl:ENSG00000171720 euGenes: HUgn8841
    ECgene: HDAC3 H-InvDB: HDAC3

    Other Databases showing HDAC3 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing HDAC3 gene

    (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 HDAC3 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for HDAC3 Genetics and Cytogenetics in Oncology and Haematology

    Intellectual Property
    for HDAC3 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for HDAC3 gene:
    Search GeneIP for patents involving HDAC3

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



    Products
    for HDAC3 gene

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    About This Section

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