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

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

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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

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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

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Preferred Names
histone deacetylase 9-B
Names
histone deacetylase 9
NP_957110.2
XP_005158021.1

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_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

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