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

HDAC5 Gene

protein-coding   GIFtS: 66
GCID: GC17M042159

histone deacetylase 5
 Explore 18 diseases affiliated with
HDAC5 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for HDAC5    

Aliases
for HDAC5 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 51 2     HD52 3
NY-CO-91 2     EC 3.5.1.983 8
KIAA06001 3     FLJ906141
Antigen NY-CO-92 3     

External Ids:    HGNC: 140681   Entrez Gene: 100142   Ensembl: ENSG000001088407   OMIM: 6053155   UniProtKB: Q9UQL63   

Export aliases for HDAC5 gene to outside databases

Previous GC identifers: GC17M041896 GC17M044331 GC17M042164 GC17M042629 GC17M039509 GC17M037918


Summaries
for HDAC5 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 HDAC5:
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 class II histone deacetylase/acuc/apha family. It possesses histone deacetylase
activity and represses transcription when tethered to a promoter. It coimmunoprecipitates only with HDAC3 family
member and might form multicomplex proteins. It also interacts with myocyte enhancer factor-2 (MEF2) proteins,
resulting in repression of MEF2-dependent genes. This gene is thought to be associated with colon cancer. Two
transcript variants encoding different isoforms have been found for this gene. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: HDAC5_HUMAN, Q9UQL6
Function: Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B,
H3 and H4). 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. Involved in muscle maturation by repressing transcription of myocyte enhancer MEF2C. During
muscle differentiation, it shuttles into the cytoplasm, allowing the expression of myocyte enhancer factors

summary for HDAC5:
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 HDAC5 (Histone deacetylase 5)


Genomic Views
for HDAC5 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_000017.10  NC_018928.1  NT_010783.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the HDAC5 gene promoter:
         MyoD   Nkx2-5   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): HDAC5 promoter sequence
   Search SABiosciences Chromatin IP Primers for HDAC5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HDAC5


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

Entrez Gene cytogenetic band: 17q21   Ensembl cytogenetic band:  17q21.31   HGNC cytogenetic band: 17q21

HDAC5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HDAC5 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M042159:  view genomic region     (about GC identifiers)

Start:
 42,154,114 bp from pter      End:
 42,201,070 bp from pter
Size:
 46,957 bases      Orientation:
 minus strand

Proteins
for HDAC5 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: HDAC5_HUMAN, Q9UQL6 (See protein sequence)
Recommended Name: Histone deacetylase 5  
Size: 1122 amino acids; 121978 Da
Subunit: Interacts with AHRR (By similarity). Interacts with BAHD1, BCOR, HDAC7, HDAC9, CTBP1, MEF2C, NCOR2, NRIP1,
PHB2 and a 14-3-3 chaperone protein. Interacts with KDM5B. Interacts with MYOCD (By similarity). Interacts with GRK5.
Interacts with DDIT3/CHOP
Subcellular location: Nucleus. Cytoplasm. Note=Shuttles between the nucleus and the cytoplasm. In muscle cells, it
shuttles into the cytoplasm during myocyte differentiation. The export to cytoplasm depends on the interaction with a
14-3-3 chaperone protein and is due to its phosphorylation at Ser-259 and Ser-498 by AMPK, CaMK1 and SIK1
Sequence caution: Sequence=AAC18040.1; Type=Frameshift; Positions=1085; Sequence=BAA25526.2; Type=Erroneous initiation;
Note=Translation N-terminally shortened;
Secondary accessions: C9JFV9 O60340 O60528 Q96DY4
Alternative splicing: 3 isoforms:  Q9UQL6-1   Q9UQL6-2   Q9UQL6-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for HDAC5: NX_Q9UQL6

Post-translational modifications:

  • Phosphorylated by AMPK, CaMK1, SIK1 and PRKD1 at Ser-259 and Ser-498. The phosphorylation is required for the export to
    • the cytoplasm and inhibition. Phosphorylated by the PKC kinases PKN1 and PKN2, impairing nuclear import.
    Phosphorylated by GRK5, leading to nuclear export of HDAC5 and allowing MEF2-mediated transcription (By similarity)1
  • Ubiquitinated. Polyubiquitination however does not lead to its degradation1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9UQL6

    • 4/21 DME Specific Peptides for HDAC5 (Q9UQL6) (see all 21)
     SGPSSPN  HHGNGTQ  HTLLYGT  QSSPAAP 

    HDAC5 Protein expression data from MOPED and PaxDb:    About this image 
    HDAC5 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001015053.1  NP_005465.2  

    ENSEMBL proteins: 
     ENSP00000225983   ENSP00000337290   ENSP00000468004   ENSP00000465227   ENSP00000465229  
     ENSP00000468485   ENSP00000465393   ENSP00000377244  
    Reactome Protein details: Q9UQL6
    Human Recombinant Protein Products for HDAC5: 
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    Novus Biologicals HDAC5 Protein
    Novus Biologicals HDAC5 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins
    Uscn Proteins for HDAC5

    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:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--
    GO:0005794Golgi apparatus IDA--

    HDAC5 for ontologies           About GeneDecksing



    HDAC5 Antibody Products: 
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    ThermoFisher Antibodies for HDAC5

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    Uscn ELISAs and CLIAs for HDAC5

    Protein Domains /
    Families
    for HDAC5 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HDAC5 for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR024643 Hist_deacetylase_Gln_rich_N
     IPR017320 Histone_deAcase_II_euk
     IPR000286 His_deacetylse
     IPR023801 His_deacetylse_dom

    Graphical View of Domain Structure for InterPro Entry Q9UQL6

    ProtoNet protein and cluster: Q9UQL6

    1 Blocks protein family: IPB000286 Histone deacetylase superfamily signature

    UniProtKB/Swiss-Prot: HDAC5_HUMAN, Q9UQL6
    Domain: The nuclear export sequence mediates the shuttling between the nucleus and the cytoplasm (By similarity)
    Similarity: Belongs to the histone deacetylase family. HD type 2 subfamily


    Function
    for HDAC5 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, 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, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Molecular Function:

         UniProtKB/Swiss-Prot Summary: HDAC5_HUMAN, Q9UQL6
    Function: Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B,
    H3 and H4). 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. Involved in muscle maturation by repressing transcription of myocyte enhancer MEF2C. During
    muscle differentiation, it shuttles into the cytoplasm, allowing the expression of myocyte enhancer factors
    Catalytic activity: Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone

         Enzyme Number (IUBMB): EC 3.5.1.981 2

         Gene Ontology (GO): 5/12 molecular function terms (GO ID links to tree view) (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003714transcription corepressor activity IEA--
    GO:0004407histone deacetylase activity IDA10869435
    GO:0005080protein kinase C binding IPI--
    GO:0005515protein binding IPI10869435
    GO:0008134transcription factor binding IPI19071119
         
    HDAC5 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for HDAC5:
     Upregulation of Wnt/beta-caten 

         5 MGI mutant phenotypes (inferred from 1 allele) (MGI details for Hdac5):
     cardiovascular system  growth/size  mortality/aging  muscle  renal/urinary system 

    HDAC5 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for HDAC5 

    miRNA
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    8/40 QIAGEN miScript miRNA Assays for microRNAs that regulate HDAC5 (see all 40):
    hsa-miR-411* hsa-miR-3685 hsa-miR-3164 hsa-miR-379* hsa-miR-1197 hsa-miR-128 hsa-miR-134 hsa-miR-30d
    SwitchGear 3'UTR luciferase reporter plasmid: HDAC5 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for HDAC5 (see all 7)
    OriGene shRNA RFP: HDAC5
    OriGene siRNA: HDAC5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat HDAC5
    Sirion Biotech Custom design and validation of potent shRNA sequences against HDAC5 

    Gene Editing
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    Sirion Biotech Customized adenovirus for overexpression of HDAC5 
    Sirion Biotech Customized adenovirus for potent knockdown of HDAC5

    Clone
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    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HDAC5 (see all 4)
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    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HDAC5


    Pathways & Interactions
    for HDAC5 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 - 5/27 super-pathways (see all 27) 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
    2Signal transduction_IP3 signaling
    		Signal transduction_IP3 signaling1.00
    		Signal transduction IP3 signaling0.92
    3Immune response_Function of MEF2 in T lymphocytes
    		Immune response_Function of MEF2 in T lymphocytes1.00
    		Immune response Function of MEF2 in T lymphocytes0.90
    4Signal transduction Calcium signaling
    		Signal transduction Calcium signaling1.00
    		Signal transduction_Calcium signaling0.97
    5Development Role of HDAC and calcium/calmodulin-dependent kinase (CaMK) in control of skeletal myogenesis
    		Development Role of HDAC and calcium/calmodulin-dependent kinase (CaMK) in control of skeletal myogenesis1.00
    		Development_Role of HDAC and calcium/calmodulin-dependent kinase (CaMK) in control of skeletal myogenesis0.97

    Pathway sources
    See GeneCards unified pathways
    Show all pathways

    5 EMD Millipore Pathways for HDAC5
        Signal transduction Calcium signaling
    Immune response Function of MEF2 in T lymphocytes
    Histone modification
    Signal transduction IP3 signaling
    Development Role of HDAC and calcium/calmodulin-dependent kinase (CaMK) in control of skeletal myogenesis

    5/16 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for HDAC5 (see all 16)
        DNA Methylation and Transcriptional Repression
    Protein Acetylation and Deacetylation
    BRCA1 Pathway
    Glucocorticoid Receptor Signaling
    Intracellular Calcium Signaling

    1 Cell Signaling Technology (CST) Pathway for HDAC5
        Chromatin Regulation / Acetylation

    4 GeneGo (Thomson Reuters) Pathways for HDAC5
        Development Role of HDAC and calcium/calmodulin-dependent kinase (CaMK) in control of skeletal myogenesis
    Immune response Function of MEF2 in T lymphocytes
    Signal transduction Calcium signaling
    Signal transduction IP3 signaling

    5/6 BioSystems Pathways for HDAC5 (see all 6) 
        Cell cycle
    MicroRNAs in cardiomyocyte hypertrophy
    Neural Crest Differentiation
    B Cell Receptor Signaling Pathway
    Signaling events mediated by HDAC Class II

    5/13        Reactome Pathways for HDAC5 (see all 13)
        Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
    NOTCH1 Intracellular Domain Regulates Transcription
    Signaling by NOTCH
    FBXW7 Mutants and NOTCH1 in Cancer
    Signaling by NOTCH1 HD Domain Mutants in Cancer



    HDAC5 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for HDAC5

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

    5/393 Interacting proteins for HDAC5 (Q9UQL61, 2, 3 ENSP000002259834) via UniProtKB, MINT, STRING, and/or I2D (see all 393)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4LP628053, ENSP000003482584I2D: score=2 STRING: ENSP00000348258
    HIST4H4P628053, ENSP000003507674I2D: score=2 STRING: ENSP00000350767
    HIST1H4AP628053I2D: score=2 
    HIST1H4BP628053I2D: score=2 
    HIST1H4CP628053I2D: score=2 
    About this table

    Gene Ontology (GO): 5/26 biological process terms (GO ID links to tree view) (see all 26):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IMP10983972
    GO:0002076osteoblast development IEA--
    GO:0006325chromatin organization TAS12711221
    GO:0006338chromatin remodeling TAS10220385
    GO:0006342chromatin silencing TAS10869435

    HDAC5 for ontologies           About GeneDecksing



    Drugs & Compounds
    for HDAC5 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

    HDAC5 for compounds           About GeneDecksing

    EMD Millipore small molecules for HDAC5:
    Small Molecule - inhibitor
    Browse drugs & compounds from Enzo Life Sciences

    Compounds for HDAC5 available from Tocris Bioscience    About this table
    CompoundAction CAS #
    NCH 51Histone deacetylase inhibitor[848354-66-5]
    MC 1568Selectively inhibits HDAC class II (Iia)[852475-26-4]
    Trichostatin AHistone deacetylase inhibitor[58880-19-6]
    KD 5170Histone deacetylase inhibitor[940943-37-3]
    Sodium 4-PhenylbutyrateHistone deacetylase inhibitor[1716-12-7]

    1 HMDB Compound for HDAC5    About this table
    CompoundSynonyms CAS #PubMed Ids
    Butyric acid1-Butyrate (see all 25)107-92-617258775
    5 Novoseek chemical compound relationships for HDAC5 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 28.9 17 12641737 (2), 16511602 (2), 11081517 (1), 16511595 (1) (see all 10)
    inositol 1,4,5 trisphosphate 27.3 5 18218981 (2), 16511602 (1)
    serine 21.3 2 16584705 (1)
    glucose 0 2 18435282 (2)
    zinc 0 1 16946011 (1)

    Search CenterWatch for drugs/clinical trials and news about HDAC5 

    Transcripts
    for HDAC5 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, Sirion Biotech, 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 HDAC5 gene (3 alternative transcripts): 
    NM_001015053.1  NM_005474.4  NM_139205.1  

    Unigene Cluster for HDAC5:

    Histone deacetylase 5
    Hs.438782  [show with all ESTs]
    Unigene Representative Sequence: NM_001015053
    13 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000225983(uc002iff.1) ENST00000336057(uc010czp.1) ENST00000586802
    ENST00000586339 ENST00000592385 ENST00000593013 ENST00000588419 ENST00000588261
    ENST00000587776 ENST00000588703 ENST00000591714 ENST00000587135 ENST00000393622(uc002ifd.1 uc002ife.1 uc002ifg.1 uc002ifh.2)


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    SwitchGear 3'UTR luciferase reporter plasmid: HDAC5 3' UTR sequence
    Inhib. RNA
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    OriGene shRNA RFP: HDAC5
    OriGene siRNA: HDAC5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat HDAC5
    Sirion Biotech Custom design and validation of potent shRNA sequences against HDAC5 
    Clone
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDAC5 
    Primer
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat HDAC5

    Additional cDNA sequence: 

    AB011172.2 AB177853.1 AF039691.1 AF132608.1 AK027734.1 AK075095.1 AK093150.1 AK098202.1 
    AK294760.1 BC011260.2 BC013140.1 BC038423.1 BC041914.1 BC051824.1 

    18 DOTS entries:

    DT.445772  DT.408137  DT.100822778  DT.95287399  DT.92015946  DT.97859864  DT.99933441  DT.102827414 
    DT.91981933  DT.100037211  DT.100803218  DT.100822779  DT.100822784  DT.216885  DT.91740724  DT.91815259 
    DT.95287404  DT.99995779 

    24/298 AceView cDNA sequences (see all 298):

    BC038423 BF589917 BE468101 BM694035 BQ721455 BE645562 BE295981 CB154751 
    BC051824 BQ223194 BM263203 AB011172 BQ670193 BQ434857 BE503576 AI271447 
    BE794912 CD368848 BQ233825 BM013846 BQ896105 BU197272 CA976021 BM511794 

    GeneLoc Exon Structure

    5/11 Alternative Splicing Database (ASD) splice patterns (SP) for HDAC5 (see all 11)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b · 16c ^ 17 ^ 18 ^ 19 ^
    SP1:                                                                                                                          -                                 
    SP2:                                                                          -                                                                                 
    SP3:                                                              -     -                                                                                       
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 20 ^ 21a · 21b ^ 22 ^ 23
    SP1:                              
    SP2:                              
    SP3:                              
    SP4:                              
    SP5:                              


    ECgene alternative splicing isoforms for HDAC5

    Expression
    for HDAC5 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

    HDAC5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --
    HDAC5 Expression
    About this image

    HDAC5 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table

    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Definitive endoderm-like cells (A scalable, suspensi...)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See HDAC5 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for HDAC5

    SOURCE GeneReport for Unigene cluster: Hs.438782

    UniProtKB/Swiss-Prot: HDAC5_HUMAN, Q9UQL6
    Tissue specificity: Ubiquitous

        SABiosciences Expression via Pathway-Focused PCR Arrays including HDAC5: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Skeletal Muscle: Myogenesis & Myopathy in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Hematopoiesis in human mouse rat

    Primer
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    Assay Products:     
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    Orthologs
    for HDAC5 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 HDAC5 gene from 6/24 species (see all 24)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    lizard
    (Anolis carolinensis)    		 Reptilia HDAC56
    		 --
    		 80(a)
    		 1 ↔ 1
    		 6(78408435-78455762)
    zebrafish
    (Danio rerio)    		 Actinopterygii LOC5574861 histone deacetylase 5-like 70.84(n)
    76.22(a)    		   557486  XM_680567.5  XP_685659.4 
    fruit fly
    (Drosophila melanogaster)    		 Insecta HDAC43 histone deacetylase 55(a)   11E8   --
    worm
    (Caenorhabditis elegans)    		 Secernentea hda-43 Expression: mu_bod, hypodermal, seam cells,
    amphid more    		 51(a)
    (best of 2)    		   X(16771247-16775220)   --
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons hda146
    HDA086
    		 histone deacetylase 8
    		 24(a)
    22(a)
    		 possible ortholog
    possible ortholog
    		 4(16102595-16105493)
    1(2672451-2674628)
    rice
    (Oryza sativa)    		 Liliopsida --
    --
    (see all 3)    		 histone deacetylase, putative, expressed
    (see all 3)    		 23(a)
    17(a)
    (see all 3)    		 possible ortholog
    possible ortholog
    (see all 3)    		 12(4192936-4197866)
    5(21504723-21509253)


    ENSEMBL Gene Tree for HDAC5 (if available)
    TreeFam Gene Tree for HDAC5 (if available) 

    Paralogs
    for HDAC5 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for HDAC5 gene
    HDAC92  HDAC62  HDAC42  HDAC72  HDAC102  
    6 SIMAP similar genes for HDAC5 using alignment to 5 protein entries:     HDAC5_HUMAN (see all proteins):
    KIAA0600    MGC16025    HDAC4    HDAC7    HDAC9    DKFZp779K1053

    HDAC5 for paralogs           About GeneDecksing



    Genomic Variants
    for HDAC5 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

    10/796 NCBI SNPs in HDAC5 are shown (see all 796)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 17 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs753489701,2
    		--37918095(+) TGTAAC/TGGGTT 3 -- ds50010--------
    rs1407175551,2
    		--42153857(+) GCTGTA/GAACTC 5 -- ds50010--------
    rs1849941241,2
    		--42153942(+) TGACTA/GTATTC 5 -- ds50010--------
    rs2007633801,2
    		--42153955(+) TATAA-/CCCTGT 5 -- ds50010--------
    rs129402191,2
    		C,F,H--42153956(+) ATAACC/ACTGTC 5 -- ds50018Minor allele frequency- A:0.01NS EA NA 586
    rs8508571,2
    		C,F,A,H--42154011(-) AAGCCA/GATTTA 5 -- ds500128Minor allele frequency- N:0.00EA NA NS CSA WA 2978
    rs1878360901,2
    		--42154015(+) TCGGCG/TTCTAG 5 -- ds50010--------
    rs1458929301,2
    		--42154089(+) TTTGGG/TAGCCC 5 -- ds50010--------
    rs1915913211,2
    		--42154176(+) TTACAA/GAATAC 5 -- ut31 ds50010--------
    rs30883471,2
    		C,F,H--42154331(+) CCATCC/TCCCAG 2 -- ut3115Minor allele frequency- T:0.10MN NS NA WA 2236

    HapMap Linkage Disequilibrium report for HDAC5 (42154114 - 42201070 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for HDAC5
         1 CNV: 5008

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    Disorders / Diseases
    for HDAC5 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
    HDAC5 for disorders           About GeneDecksing

    OMIM gene information: 605315    OMIM disorders: --

    18 diseases for HDAC5:    About MalaCards
    colon cancer    chronic obstructive pulmonary disease    intellectual disability    chronic lymphocytic leukemia
    acute myeloid leukemia    herpes simplex    lymphocytic leukemia    myeloid leukemia
    pulmonary disease    leukemia    astrocytoma    prostate cancer
    breast cancer    hypoxia    prostatitis    malaria
    neuronitis    huntington's disease

    3 Novoseek disease relationships for HDAC5 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    cardiac hypertrophy 59.6 10 20181743 (1), 16511595 (1), 18632988 (1), 15367659 (1) (see all 6)
    hypertrophy 34.7 5 18632988 (2), 15572669 (1), 15367659 (1), 16556869 (1)
    heart failure 17.1 5 18218981 (2), 16511595 (1), 18632988 (1)

    Human Genome Epidemiology (HuGE) Navigator: HDAC5 (8 documents)

    Export disorders for HDAC5 gene to outside databases

    Publications
    for HDAC5 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 HDAC5 gene, integrated from 9 sources (see all 165):
    (articles sorted by number of sources associating them with HDAC5)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Three proteins define a class of human histone deacetylases related to yeast Hda1p. (PubMed id 10220385)1, 2, 3, 9 Grozinger C.M....Schreiber S.L. (1999)
    2. Characterization of human colon cancer antigens recognized by autologous antibodies. (PubMed id 9610721)1, 2, 3 Scanlan M.J....Old L.J. (1998)
    3. Protein kinase D-dependent phosphorylation and nuclear export of histone deacetylase 5 mediates vascular endothelial growth factor-induced gene expression and angiogenesis. (PubMed id 18332134)1, 2, 9 Ha C.H....Jin Z.G. (2008)
    4. AMP-activated protein kinase regulates GLUT4 transcription by phosphorylating histone deacetylase 5. (PubMed id 18184930)1, 2, 9 McGee S.L....Hargreaves M. (2008)
    5. Signal-dependent nuclear export of a histone deacetylase regulates muscle differentiation. (PubMed id 11081517)1, 2, 9 McKinsey T.A.... Olson E.N. (2000)
    6. Chromosomal organization and localization of the human histone deacetylase 5 gene (HDAC5). (PubMed id 11018260)1, 2, 9 Mahlknecht U.... Hoelzer D. (2000)
    7. Human BAHD1 promotes heterochromatic gene silencing. (PubMed id 19666599)1, 2, 9 Bierne H.... Cossart P. (2009)
    8. Protein kinase C-related kinase targets nuclear local ization signals in a subset of class IIa histone deacetylases. (PubMed id 20188095)1, 2, 9 Harrison B.C....McKinsey T.A. (2010)
    9. Breast cancer associated transcriptional repressor PLU-1/JARID1B interacts directly with histone deacetylases. (PubMed id 17373667)1, 2 Barrett A.... Taylor-Papadimitriou J. (2007)
    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)

    External Searches for HDAC5 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 HDAC5 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10014 HGNC: 14068 AceView: HDAC5 Ensembl:ENSG00000108840 euGenes: HUgn10014
    ECgene: HDAC5 H-InvDB: HDAC5

    Other Databases showing HDAC5 gene

    (According to HUGE)
    About This Section
    HUGE: KIAA0600

    Specialized Databases showing HDAC5 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 HDAC5 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for HDAC5 Genetics and Cytogenetics in Oncology and Haematology

    Intellectual Property
    for HDAC5 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for HDAC5 gene:
    Search GeneIP for patents involving HDAC5

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



    Products
    for HDAC5 gene

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    About This Section

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