U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    hdac9b histone deacetylase 9b [ Danio rerio (zebrafish) ]

    Gene ID: 393789, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    hdac9bprovided by ZNC
    Official Full Name
    histone deacetylase 9bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040109-7
    See related
    Ensembl:ENSDARG00000056642 AllianceGenome:ZFIN:ZDB-GENE-040109-7
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    hdac9; zgc:73392
    Summary
    Predicted to enable histone deacetylase activity. Acts upstream of or within angiogenesis; lymph vessel development; and primitive erythrocyte differentiation. Predicted to be located in nucleus. Orthologous to human HDAC9 (histone deacetylase 9). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See hdac9b in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (19840605..19890318, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (20034574..20084936, complement)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137487894 Neighboring gene uncharacterized LOC137487895 Neighboring gene aryl hydrocarbon receptor 1a Neighboring gene ankyrin repeat domain 28b

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Histone deacetylase 9 promotes angiogenesis by targeting the antiangiogenic microRNA-17-92 cluster in endothelial cells. Kaluza D, et al. Arterioscler Thromb Vasc Biol, 2013 Mar. PMID 23288173
    2. Inversely Regulated Inflammation-Related Processes Mediate Anxiety-Obesity Links in Zebrafish Larvae and Adults. Yehuda H, et al. Cells, 2023 Jul 6. PMID 37443828, Free PMC Article
    3. Coding exons function as tissue-specific enhancers of nearby genes. Birnbaum RY, et al. Genome Res, 2012 Jun. PMID 22442009, Free PMC Article
    4. Microarray analysis of XOPS-mCFP zebrafish retina identifies genes associated with rod photoreceptor degeneration and regeneration. Morris AC, et al. Invest Ophthalmol Vis Sci, 2011 Apr 6. PMID 21217106, Free PMC Article
    5. Histone Deacetylase-Mediated Müller Glia Reprogramming through Her4.1-Lin28a Axis Is Essential for Retina Regeneration in Zebrafish. Mitra S, et al. iScience, 2018 Sep 28. PMID 30267687, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. HDAC9 promotes angiogenesis and transcriptionally represses the endothelial cell miR-17-92 cluster.
      Title: Histone deacetylase 9 promotes angiogenesis by targeting the antiangiogenic microRNA-17-92 cluster in endothelial cells.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Homology

    Clone Names

    • MGC73392

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables histone deacetylase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within lymph vessel development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within primitive erythrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within primitive hemopoiesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vasculature development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    histone deacetylase 9-B
    Names
    histone deacetylase 9
    NP_957110.2
    XP_005158021.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_200816.2 → NP_957110.2  histone deacetylase 9-B

      See identical proteins and their annotated locations for NP_957110.2

      Status: PROVISIONAL

      Source sequence(s)
      BC059696
      UniProtKB/Swiss-Prot
      Q6PBI4, Q6TEP8
      Related
      ENSDARP00000073615.4, ENSDART00000079159.6
      Conserved Domains (1) summary
      cd10163
      Location:38 → 127
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007127.7 Reference GRCz11 Primary Assembly

      Range
      19840605..19890318 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005157964.4 → XP_005158021.1  histone deacetylase 9-B isoform X1

      UniProtKB/TrEMBL
      A0A8M2B4U1
      Conserved Domains (1) summary
      cd10163
      Location:68 → 157
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6PBI4.1 GenPept UniProtKB/Swiss-Prot:Q6PBI4

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.