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    HDAC5 histone deacetylase 5 [ Bos taurus (domestic cattle) ]

    Gene ID: 504242, updated on 29-Jan-2025

    Summary

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    Official Symbol
    HDAC5provided by VGNC
    Official Full Name
    histone deacetylase 5provided by VGNC
    Primary source
    VGNC:VGNC:50612
    See related
    Ensembl:ENSBTAG00000016254
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Bos taurus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
    Orthologs
    human mouse all
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    Genomic context

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    See HDAC5 in Genome Data Viewer
    Location:
    chromosome: 19
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_12 current ARS-UCD2.0 (GCF_002263795.3) 19 NC_037346.1 (43913854..43951129, complement)

    Chromosome 19 - NC_037346.1Genomic Context describing neighboring genes Neighboring gene LSM12 homolog Neighboring gene glucose-6-phosphatase catalytic subunit 3 Neighboring gene uncharacterized LOC132343083 Neighboring gene homologous recombination factor with OB-fold Neighboring gene ankyrin repeat and SOCS box containing 16

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_037346.1 Chromosome 19 Reference ARS-UCD2.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Dominette sequence data
    • BioProject: PRJNA294306
    • Analysis date: Tue Dec 17 08:57:05 2024

    Bibliography

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    Related articles in PubMed

    1. Protein kinase D-dependent phosphorylation and nuclear export of histone deacetylase 5 mediates vascular endothelial growth factor-induced gene expression and angiogenesis. Ha CH, et al. J Biol Chem, 2008 May 23. PMID 18332134, Free PMC Article
    2. A whole-genome assembly of the domestic cow, Bos taurus. Zimin AV, et al. Genome Biol, 2009. PMID 19393038, Free PMC Article
    3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Protein kinase D-HDAC5 pathway plays an important role in VEGF regulation of gene transcription and angiogenesis
      Title: Protein kinase D-dependent phosphorylation and nuclear export of histone deacetylase 5 mediates vascular endothelial growth factor-induced gene expression and angiogenesis.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC134463

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables histone deacetylase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    histone deacetylase 5
    NP_001033114.2
    XP_005220881.2
    XP_005220883.2
    XP_010814624.2
    XP_015314348.3
    XP_015314349.2
    XP_024835477.1
    XP_024835479.1
    XP_024835480.1
    XP_059733781.1
    XP_059733782.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001038025.2 → NP_001033114.2  histone deacetylase 5

      Status: VALIDATED

      Source sequence(s)
      NKLS02000019
      UniProtKB/TrEMBL
      F1MNA5
      Conserved Domains (2) summary
      cd10164
      Location:68 → 164
      ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
      cl17011
      Location:682 → 1098
      Arginase_HDAC; Arginase-like and histone-like hydrolases

    RefSeqs of Annotated Genomes: GCF_002263795.3-RS_2024_12

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ARS-UCD2.0 Primary Assembly

    Genomic

    1. NC_037346.1 Reference ARS-UCD2.0 Primary Assembly

      Range
      43913854..43951129 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_059877799.1 → XP_059733782.1  histone deacetylase 5 isoform X6

      UniProtKB/TrEMBL
      F1MNA5

    2. XM_005220826.5 → XP_005220883.2  histone deacetylase 5 isoform X5

      UniProtKB/TrEMBL
      F1MNA5
      Related
      ENSBTAP00070032054.1, ENSBTAT00070053325.1
      Conserved Domains (2) summary
      cl17011
      Location:673 → 1089
      Arginase_HDAC; Arginase-like and histone-like hydrolases
      cl25407
      Location:68 → 155
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    3. XM_024979711.2 → XP_024835479.1  histone deacetylase 5 isoform X1

      UniProtKB/TrEMBL
      F1MNA5
      Conserved Domains (2) summary
      cd10164
      Location:68 → 182
      ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
      cl17011
      Location:700 → 1116
      Arginase_HDAC; Arginase-like and histone-like hydrolases

    4. XM_010816322.4 → XP_010814624.2  histone deacetylase 5 isoform X4

      UniProtKB/TrEMBL
      F1MNA5
      Conserved Domains (2) summary
      cl17011
      Location:673 → 1089
      Arginase_HDAC; Arginase-like and histone-like hydrolases
      cl25407
      Location:68 → 155
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    5. XM_005220824.5 → XP_005220881.2  histone deacetylase 5 isoform X3

      UniProtKB/TrEMBL
      F1MNA5
      Conserved Domains (2) summary
      cl17011
      Location:674 → 1090
      Arginase_HDAC; Arginase-like and histone-like hydrolases
      cl25407
      Location:69 → 156
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    6. XM_024979709.2 → XP_024835477.1  histone deacetylase 5 isoform X1

      UniProtKB/TrEMBL
      F1MNA5
      Conserved Domains (2) summary
      cd10164
      Location:68 → 182
      ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
      cl17011
      Location:700 → 1116
      Arginase_HDAC; Arginase-like and histone-like hydrolases

    7. XM_024979712.2 → XP_024835480.1  histone deacetylase 5 isoform X4

      UniProtKB/TrEMBL
      F1MNA5
      Related
      ENSBTAP00070032085.1, ENSBTAT00070053386.1
      Conserved Domains (2) summary
      cl17011
      Location:673 → 1089
      Arginase_HDAC; Arginase-like and histone-like hydrolases
      cl25407
      Location:68 → 155
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    8. XM_015458863.3 → XP_015314349.2  histone deacetylase 5 isoform X3

      UniProtKB/TrEMBL
      F1MNA5
      Related
      ENSBTAP00070032121.1, ENSBTAT00070053451.1
      Conserved Domains (2) summary
      cl17011
      Location:674 → 1090
      Arginase_HDAC; Arginase-like and histone-like hydrolases
      cl25407
      Location:69 → 156
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    9. XM_059877798.1 → XP_059733781.1  histone deacetylase 5 isoform X4

      UniProtKB/TrEMBL
      F1MNA5

    10. XM_015458862.3 → XP_015314348.3  histone deacetylase 5 isoform X2

      UniProtKB/TrEMBL
      F1MNA5
    Nucleotide Protein Strain
    Heading Accession and Version

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