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HDAC5 Gene

protein-coding   GIFtS: 63

GC17M037918
histone deacetylase 5
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
histone deacetylase 51 2     Antigen NY-CO-92 3
FLJ906141 2     HD52 3
NY-CO-91 2     EC 3.5.1.983
KIAA06001 3     

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

Export aliases for HDAC5 gene to outside databases

Previous GC identifers: GC17M041896 GC17M044331 GC17M042164 GC17M042629 GC17M039509


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
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)

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)

(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 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the HDAC5 gene promoter:
         MyoD   NF-kappaB   NF-kappaB1   p300   YY1   MEF-2A   NRSF form 1   NRSF form 2   POU3F2 (N-Oct-5b)   POU3F2 (N-Oct-5a)   
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for HDAC5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for 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 gene densities for chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M037918:  view genomic region     (about GC identifiers)

Start:
37,918,049 bp from pter
End:
37,965,007 bp from pter
Size:
46,959 bases
Orientation:
minus strand

1 alternative location:
Chr17- 42,154,121-42,201,014     
RefSeq DNA sequence:
NC_000017.10  NT_010783.15  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
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
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 CaMK
Sequence caution: Sequence=AAC18040.1; Type=Frameshift; Positions=1085; Sequence=BAA25526.2; Type=Erroneous initiation;
Note=Translation N-terminally shortened;
Secondary accessions: O60340 O60528 Q96DY4
Alternative splicing: 3 isoforms:  Q9UQL6-1   Q9UQL6-2   Q9UQL6-3   

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

Post-translational modifications:

  • Phosphorylated by CaMK at Ser-259 and Ser-498. The phosphorylation is required for the export to the cytoplasm.
  • Phosphorylated by the PKC kinases PKN1 and PKN2, impairing nuclear import1
  • Ubiquitinated. Polyubiquitination however does not lead to its degradation1
  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (2 alternative transcripts): 
    NP_001015053.1  NP_005465.2  


    ENSEMBL proteins: 
    ENSP00000337290 ENSP00000377244 ENSP00000225983 ENSP00000377243 


    Human Recombinant Proteins 
    Browse Purified and Recombinant Proteins at Millipore
    Sigma-Aldrich Proteins for HDAC5
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate: HDAC5
    GenScript Custom Purified and Recombinant Proteins Services for HDAC5 
    Novus Biologicals Protein for HDAC5
    Novus Biologicals Lysate for HDAC5
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins

    5 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000118 histone deacetylase complex TAS12711221
    GO:0005634 nucleus IDA10869435
    GO:0005737 cytoplasm IDA10869435
    GO:0005829 cytosol ----
    GO:0016604 nuclear body ----
    About this table

    HDAC5 for ontologies           About GeneDecksing



    Antibodies for HDAC5: 
    Millipore Mono- and Polyclonal Antibodies for the study of HDAC5
    Sigma-Aldrich Antibody Arrays and Antibodies for HDAC5
    Browse R&D Systems for Antibodies
    Cell Signaling Technology (CST) Antibodies for HDAC5 
    Browse OriGene Antibodies
    GenScript Superior Antibodies for HDAC5 
    Novus Biologicals Antibodies for HDAC5
    Browse antibodies at Epitomics

    Assays for HDAC5: 
    Millipore Kits and Assays for the Analysis of HDAC5
    Browse ELISAs at Sigma-Aldrich
    OriGene Custom Immunoassay Development 
    Browse OriGene Fluorogenic Cell Assay Kits 
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for HDAC5 
    Browse Enzo Life Sciences for kits & assays
    Uscn ELISAs and CLIAs for HDAC5 


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

    HDAC5 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR017320 Histone_deAcase_II_euk
     IPR000286 His_deacetylse

    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


    (According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
    About This Section

    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
    Catalytic activity: Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone
    Enzyme Number (IUBMB): EC 3.5.1.98 

    Inhib.
    RNA:
        
    Millipore RNAi Products for the Analysis of HDAC5 Gene knock-down
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich siRNA Panels and esiRNA and siRNA for HDAC5
    Sigma-Aldrich shRNA Panels and shRNA for HDAC5
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 3): HDAC5
    OriGene shRNA RFP (see all 3): HDAC5
    OriGene basic RS shRNA (see all 3): HDAC5
    OriGene siRNA (see all 3): HDAC5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of HDAC5 
    miRNA:Sigma-Aldrich microRNA Mimics for HDAC5
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of HDAC5 
    6 SABiosciences Assays for microRNAs that regulate HDAC5:
    hsa-miR-653 hsa-miR-9 hsa-miR-768-3p hsa-miR-629 hsa-miR-1197 hsa-miR-128

    Gene
    Editing:
    Browse CompoZr Knockout ZFN at Sigma-Aldrich 

    Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
    Browse iPSC Reprogramming Factors at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): HDAC5
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): HDAC5
    OriGene untagged cDNA clones in CMV expression vector (see all 2): HDAC5
    OriGene 3'-UTR clone (see all 2): HDAC5 
    Browse MicroRNA Expression Plasmids 
    GenScript cDNA clones with any tag delivered in your preferred vector (see all 2): HDAC5 
    Browse Sino Biological Human cDNA Clones

    Cell
    Lines:
      
    GenScript Custom overexpressing Cell Line Services for HDAC5 

    5/10 Gene Ontology (GO) molecular function terms (GO ID links to tree view) (see all 10):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003714 transcription corepressor activity ----
    GO:0004407 histone deacetylase activity IDA10869435
    GO:0005080 protein kinase C binding IPI--
    GO:0005515 protein binding IPI10220385
    GO:0008134 transcription factor binding IPI19071119
    About this table

    HDAC5 for ontologies           About GeneDecksing

    Animal Models: 6 MGI mutant phenotypes (inferred from 1 allele(MGI details for Hdac5):

    cardiovascular systemgrowth/sizelethality-prenatal/perinatallife span-post-weaning/agingmuscle
    renal/urinary system

    HDAC5 for phenotypes           About GeneDecksing


    (Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
    About This Section


    HDAC5 for pathways           About GeneDecksing

    5 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

    5/7 Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Pathways for  HDAC5 (see all 7)
        Calcium Signaling
    Role of NFAT in Cardiac Hypertrophy
    Phospholipase C Signaling
    Chronic Myeloid Leukemia Signaling
    Hereditary Breast Cancer Signaling

        SABiosciences Pathway-Focused PCR Arrays including HDAC5 (see all 6): PAHS-053A PAHS-054A  

        Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Molecular Interaction Network for HDAC5
        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for HDAC5

    5/57 Interacting proteins for HDAC5 (Q9UQL61, 2 ENSP000002259833) via UniProtKB, MINT, and/or STRING (see all 57)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    YWHAEP622582, ENSP000002643353MINT-8005462 MINT-8005469 STRING: ENSP00000264335
    HDAC3O153791, ENSP000003029673EBI-715576,EBI-607682 STRING: ENSP00000302967
    BRMS1Q9HCU91EBI-715576,EBI-714781
    HIST1H4AP628051EBI-715576,EBI-302023
    SFNP319472MINT-8007109 MINT-8007102
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA16236793
    GO:0002076 osteoblast development ----
    GO:0006325 chromatin organization TAS12711221
    GO:0006338 chromatin remodeling TAS10220385
    GO:0006342 chromatin silencing TAS10869435
    About this table

    HDAC5 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    HDAC5 for compounds           About GeneDecksing

    Browse Small Molecules at Sigma-Aldrich
    Browse drugs & compounds from Enzo Life Sciences

    Compounds for HDAC5 available from Tocris Bioscience
    CompoundAction CAS number
    M 344Histone deacetylase inhibitor[251456-60-7]
    NCH 51Histone deacetylase inhibitor[848354-66-5]
    SplitomicinSir2p inhibitor[5690-03-9]
    Trichostatin AHistone deacetylase inhibitor[58880-19-6]
    sodium 4-PhenylbutyrateHistone deacetylase inhibitor[1716-12-7]
    About this table


    5 Novoseek chemical compound relationships for HDAC5 gene
    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)
    About this table



    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Millipore,
    siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
    Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
    About This Section

    Inhib.
    RNA:
         
    Millipore RNAi Products for the Analysis of HDAC5 Gene knock-down
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich siRNA Panels and esiRNA and siRNA for HDAC5
    Sigma-Aldrich shRNA Panels and shRNA for HDAC5
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 3): HDAC5
    OriGene shRNA RFP (see all 3): HDAC5
    OriGene basic RS shRNA (see all 3): HDAC5
    OriGene siRNA (see all 3): HDAC5
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of HDAC5 
    miRNA: Sigma-Aldrich microRNA Mimics for HDAC5
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of HDAC5 
    6 SABiosciences Assays for microRNAs that regulate HDAC5:
    hsa-miR-653 hsa-miR-9 hsa-miR-768-3p hsa-miR-629 hsa-miR-1197 hsa-miR-128
    Clones: Browse FLAG tag genes at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): HDAC5
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): HDAC5
    OriGene untagged cDNA clones in CMV expression vector (see all 2): HDAC5
    OriGene 3'-UTR Clone (see all 2): HDAC5 
    Browse OriGene MicroRNA Expression Plasmids 
    GenScript cDNA clones with any tag delivered in your preferred vector (see all 2): HDAC5 
    Primers: OriGene genome-wide validated SYBR primer pairs: HDAC5
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for HDAC5: PPH05913A

    REFSEQ mRNAs for HDAC5 gene (2 alternative transcripts): 

    NM_001015053.1  NM_005474.4  

    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):

    BQ129299 NM_139205 AI418847 BQ233825 BE645562 BC051824 AI271447 BC013140 
    BQ223194 BQ187978 BU197272 CB154751 AI750756 BE468101 BM511794 BM694035 
    BX404235 BQ880867 BQ228088 BM263203 CD368848 CA976021 BM983511 BQ670193 

    highest scoring ESTs for HDAC5:

    AF039241 AB011172 AL515076 BE794912 CB998080 AA042872 AA047371 AA116072 AA116073 AA160894 

    Unigene Cluster for HDAC5:

    Histone deacetylase 5
    Hs.438782  [show with all ESTs]
    Unigene Representative Sequence: NM_001015053


    GeneLoc Exon Structure

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

    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:                              

    About this scheme

    ECgene alternative splicing isoforms for HDAC5
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000336057 ENST00000393622 ENST00000225983(uc002ifd.1 uc002ife.1 uc002iff.1 uc010czp.1)
    ENST00000393621(uc002ifg.1 uc002ifh.2)

    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Primers from OriGene and/or SABiosciences )
    About This Section

    HDAC5 expression in normal and diseased human tissues

    1  / 2  / 3

    9 probe-sets matching HDAC5 gene

    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    47794_at2, 3 U95-B 1 1.00 1.00 0.95 0.81 AI951674 0.60 1.00 0.82 1
    74391_at2, 3 U95-E 1 1.00 1.00 0.29 1.23 AI347317 0.60 1.00 0.82 1
    38810_at2, 3 U95-A 1 0.94 1.00 0.74 0.97 AF039241 1.00 1.00 1.00 1
    202455_at2, 3 U133-A 1 1.00 1.00 -- -- NM_005474 0.60 1.00 0.82 1
    229408_at2, 3 U133-B 1 0.91 1.00 -- -- AI951674 0.60 1.00 0.82 1
    216966_at*2 U133-A 18 0.73 0.06 -- -- -- -- -- -- --
    202455_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    229408_at2 U133Plus2 1 0.91 1.00 -- -- -- -- -- -- --
    216966_at*2 U133Plus2 18 0.73 0.06 -- -- -- -- -- -- --
    About this table

    HDAC5 for expression           About GeneDecksing

    Data from Genenote  (Publications) and GNF BioGPS
        About these images
    HDAC5 gene expression
    HDAC5 gene electronic northern expression
    HDAC5 gene sage expression
    About these images

    CGAP SAGE TAG: --

    SOURCE GeneReport for Unigene cluster: Hs.438782

    Expression variation in blood from EXPOLDB for HDAC5

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

    Primers: OriGene genome-wide validated SYBR primer pairs: HDAC5
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for HDAC5: PPH05913A
        SABiosciences Expression via Pathway-Focused PCR Arrays including HDAC5 (see all 6): PAHS-053A PAHS-054A  


    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section

    Orthologs for HDAC5 gene from 5/7 species (see all 7)
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    LOC4909411   -- similar to Histone deacetylase 5 (HD5) (Antigen NY-CO-9) 92.57(n)
    96.08(a)
    490941  XM_851856.1  XP_856949.1 
    chimpanzee
    (Pan troglodytes)
    LOC4547211   -- similar to histone deacetylase 5 99.73(n)
    99.82(a)
    454721  XM_511542.2  XP_511542.2 
    mouse
    (Mus musculus)
    Hdac51 , 5 11 (65.82 cM)5
    histone deacetylase 51, 5 91.4(n)1
    96.14(a)1
    151841  NM_001077696.11  NP_001071164.11 
     AF0066025  AF2077485  (see all 37)
    zebrafish
    (Danio rerio)
    LOC5574861   -- similar to histone deacetylase 5 70.71(n)
    76.03(a)
    557486  XM_680567.3  XP_685659.3 
    fruit fly
    (Drosophila melanogaster)
    HDAC41 , 3 11E83
    histone deacetylase3
    HDAC41
    55(a)3
    52.59(n)1
    44.31(a)1
    322781  NM_132640.21  NP_572868.21 
    About this table        Species with no ortholog for HDAC5

    ENSEMBL Gene Tree for HDAC5 (if available)

    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section
    Paralogs for HDAC5 gene
    HDAC92  HDAC62  HDAC72  HDAC42  HDAC102  

    HDAC5 for paralogs           About GeneDecksing



    (SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
    About This Section

    10/426 NCBI SNPs in HDAC5 are shown (see all 426)
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidChr 17 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ----------
    rs813671,2
    C,A,42159109(-) attagC/Ttaggt 2 -- int16Minor allele frequency- T:0.25MN NA WA 194
    rs1706341,2
    C,F,H,42175821(-) ccCAGT/GTTCCC 2 -- int15Minor allele frequency- G:0.32NA 82
    rs1706361,2
    C,F,A,H42184029(-) gtgagC/Tcgaga 2 -- int16Minor allele frequency- T:0.31NA 16
    rs1706371,2
    C,A,42186868(-) GCCCCG/AAGGAT 2 -- int15Minor allele frequency- A:0.44NA WA 128
    rs1706381,2
    H42194113(+) CACTAG/TAACAC 2 -- int14Minor allele frequency- T:0.00NS EA 416
    rs1729341,2
    --42191704(-) CTTCAA/GAGCCC 2 -- int10--------
    rs1834621,2
    C,A,42183376(-) GGGAGG/CGTATT 2 -- int16Minor allele frequency- C:0.34NA EA WA 216
    rs1890491,2
    C,42197213(+) GTGGGA/CAGTCA 2 -- int16Minor allele frequency- C:0.39NA EA WA 216
    rs1890501,2
    C,F,A,42173252(-) CCTCCC/GCAGCA 2 -- int1 trp38Minor allele frequency- G:0.24NS EA NA 576
    rs1901441,2
    C,F,H,42164584(-) CAGAGT/CTGTGT 2 -- int113Minor allele frequency- C:0.43NS EA NA WA 524
    About this table

    HapMap Linkage Disequilibrium images for HDAC5 (up to first 250kb)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for HDAC5
         1 CNV: 5008

    QIAGEN SeqTarget long-range PCR primers for resequencing HDAC5 

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    HDAC5 for disorders           About GeneDecksing

    OMIM: 605315

    3 Novoseek disease relationships for HDAC5 gene

    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)
    About this table

    Human Genome Epidemiology (HuGE) Navigator: HDAC5 (6 documents)

    Export disorders and mutations for HDAC5 gene to outside databases

    (Possibly Related Articles in Doctor's Guide)
    About This Section
      --

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

    10/137 PubMed articles for HDAC5 gene, integrated from 7 sources (see all 137):
    (articles sorted by number of sources associating them with HDAC5)
    1. Three proteins define a class of human histone deacetylases related to yeast Hda1p. (PubMed id 10220385)1, 2, 3, 7 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. Signal-dependent nuclear export of a histone deacetylase regulates muscle differentiation. (PubMed id 11081517)1, 2, 7 McKinsey T.A.... Olson E.N. (2000)
    4. Chromosomal organization and localization of the human histone deacetylase 5 gene (HDAC5). (PubMed id 11018260)1, 2, 7 Mahlknecht U.... Hoelzer D. (2000)
    5. Human BAHD1 promotes heterochromatic gene silencing. (PubMed id 19666599)1, 2, 7 Bierne H.... Cossart P. (2009)
    6. Protein kinase C-related kinase targets nuclear local ization signals in a subset of class IIa histone deacetylases. (PubMed id 20188095)1, 2, 7 Harrison B.C....McKinsey T.A. (2010)
    7. 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)
    8. Histone deacetylase 6 binds polyubiquitin through its zinc finger (PAZ domain) and copurifies with deubiquitinating enzymes. (PubMed id 12354939)1, 2 Hook S.S.... Eisenman R.N. (2002)
    9. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PubMed id 12168954)1, 2 Nakajima D.... Nagase T. (2002)
    10. Identification of a signal-responsive nuclear export sequence in class II histone deacetylases. (PubMed id 11509672)1, 2 McKinsey T.A.... Olson E.N. (2001)

    (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: 10014 HGNC: 14068 AceView: HDAC5 Ensembl:ENSG00000108840 euGenes: HUgn10014
    ECgene: HDAC5 H-InvDB: HDAC5

    (According to HUGE)
    About This Section
    HUGE: KIAA0600

    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    ATLAS Chromosomes in Cancer entry for HDAC5 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from XenneX, 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



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     ELISAs and CLIAs for HDAC5
           

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