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Hdac9 histone deacetylase 9 [ Mus musculus (house mouse) ]

Gene ID: 79221, updated on 10-Jun-2018
Official Symbol
Hdac9provided by MGI
Official Full Name
histone deacetylase 9provided by MGI
Primary source
MGI:MGI:1931221
See related
Ensembl:ENSMUSG00000004698 Vega:OTTMUSG00000061412
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
HD9; HD7B; HDRP; Mitr; Hdac7b; AV022454; mKIAA0744; D030072B18Rik
Expression
Broad expression in frontal lobe adult (RPKM 2.7), cortex adult (RPKM 1.4) and 21 other tissues See more
Orthologs
See Hdac9 in Genome Data Viewer
Location:
12; 12 A3
Exon count:
42
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 12 NC_000078.6 (34047580..34917095, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (35056362..35213754, complement)

Chromosome 12 - NC_000078.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 40383 Neighboring gene Fer3 like bHLH transcription factor Neighboring gene twist basic helix-loop-helix transcription factor 1 Neighboring gene predicted gene, 40384 Neighboring gene ribosomal protein S2 pseudogene Neighboring gene predicted gene, 46347 Neighboring gene predicted gene, 40875 Neighboring gene predicted gene, 33864 Neighboring gene phosphoribosyl pyrophosphate synthetase 1-like 1 Neighboring gene predicted gene, 40385

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Alcoholism, organism-specific biosystem (from KEGG)
    Alcoholism, organism-specific biosystemAlcoholism, also called dependence on alcohol (ethanol), is a chronic relapsing disorder that is progressive and has serious detrimental health outcomes. As one of the primary mediators of the reward...
  • Alcoholism, conserved biosystem (from KEGG)
    Alcoholism, conserved biosystemAlcoholism, also called dependence on alcohol (ethanol), is a chronic relapsing disorder that is progressive and has serious detrimental health outcomes. As one of the primary mediators of the reward...
  • MicroRNAs in Cardiomyocyte Hypertrophy, organism-specific biosystem (from WikiPathways)
    MicroRNAs in Cardiomyocyte Hypertrophy, organism-specific biosystemThis pathway shows the role of microRNAs in the process of cardiac hypertrophy. Converted from the humane pathway. MicroRNA targets were predicted by the TargetScan algorithm, and the predicted inter...
  • Viral carcinogenesis, organism-specific biosystem (from KEGG)
    Viral carcinogenesis, organism-specific biosystemThere is a strong association between viruses and the development of human malignancies. We now know that at least six human viruses, Epstein-Barr virus (EBV), hepatitis B virus (HBV), hepatitis C vi...
  • Viral carcinogenesis, conserved biosystem (from KEGG)
    Viral carcinogenesis, conserved biosystemThere is a strong association between viruses and the development of human malignancies. We now know that at least six human viruses, Epstein-Barr virus (EBV), hepatitis B virus (HBV), hepatitis C vi...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
NAD-dependent histone deacetylase activity (H3-K14 specific) IEA
Inferred from Electronic Annotation
more info
 
histone deacetylase activity TAS
Traceable Author Statement
more info
PubMed 
NOT histone deacetylase activity TAS
Traceable Author Statement
more info
PubMed 
histone deacetylase binding ISO
Inferred from Sequence Orthology
more info
 
hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein deacetylase activity ISO
Inferred from Sequence Orthology
more info
 
protein kinase C binding ISO
Inferred from Sequence Orthology
more info
 
repressing transcription factor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
repressing transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
repressing transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription corepressor activity IDA
Inferred from Direct Assay
more info
PubMed 
transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
transcription factor binding TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
B cell activation TAS
Traceable Author Statement
more info
PubMed 
B cell differentiation TAS
Traceable Author Statement
more info
PubMed 
cellular response to insulin stimulus ISO
Inferred from Sequence Orthology
more info
 
chromatin organization TAS
Traceable Author Statement
more info
PubMed 
heart development IGI
Inferred from Genetic Interaction
more info
PubMed 
histone H3 deacetylation ISO
Inferred from Sequence Orthology
more info
 
histone H4 deacetylation ISO
Inferred from Sequence Orthology
more info
 
histone deacetylation ISO
Inferred from Sequence Orthology
more info
 
inflammatory response TAS
Traceable Author Statement
more info
PubMed 
negative regulation of striated muscle tissue development TAS
Traceable Author Statement
more info
PubMed 
negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription, DNA-templated TAS
Traceable Author Statement
more info
PubMed 
nervous system development TAS
Traceable Author Statement
more info
PubMed 
peptidyl-lysine deacetylation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cell migration involved in sprouting angiogenesis ISO
Inferred from Sequence Orthology
more info
 
regulation of skeletal muscle fiber development IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of striated muscle cell differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
cytoplasm TAS
Traceable Author Statement
more info
PubMed 
histone deacetylase complex TAS
Traceable Author Statement
more info
PubMed 
histone methyltransferase complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 
nucleus TAS
Traceable Author Statement
more info
PubMed 
transcription factor complex ISO
Inferred from Sequence Orthology
more info
 
Preferred Names
histone deacetylase 9
Names
MEF2-interacting transcription repressor MITR
histone deacetylase 7B
histone deacetylase-related protein
NP_001258315.1
NP_077038.2
XP_006515324.1
XP_006515325.2
XP_006515327.1
XP_006515329.1
XP_006515334.1
XP_006515336.2
XP_006515338.1
XP_006515339.2
XP_011242213.1
XP_011242214.1
XP_011242215.1
XP_011242218.1
XP_011242219.1
XP_011242220.1
XP_011242223.1
XP_011242224.1
XP_017170737.1
XP_017170738.1
XP_017170739.1
XP_017170740.1
XP_017170741.1
XP_017170742.1

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_001271386.1NP_001258315.1  histone deacetylase 9 isoform 1

    See identical proteins and their annotated locations for NP_001258315.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC113481, AC163669, AK133334, CR974575
    Related
    ENSMUSP00000148224.1, OTTMUSP00000077718, ENSMUST00000211752.1, OTTMUST00000149855
    Conserved Domains (2) summary
    cd10163
    Location:59148
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6531030
    HDAC_classIIa; Histone deacetylases, class IIa
  2. NM_024124.3NP_077038.2  histone deacetylase 9 isoform 2

    See identical proteins and their annotated locations for NP_077038.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the UTRs and has multiple coding region differences, compared to variant 1. These differences cause translation initiation at a downstream AUG and result in an isoform (2) with a shorter N-terminus and a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    BC098187, EL604734
    Consensus CDS
    CCDS36432.1
    UniProtKB/Swiss-Prot
    Q99N13
    UniProtKB/TrEMBL
    A0A0R4J1F3
    Related
    ENSMUSP00000106443.2, OTTMUSP00000077716, ENSMUST00000110819.3, OTTMUST00000149853
    Conserved Domains (1) summary
    cl23765
    Location:38124
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000078.6 Reference GRCm38.p4 C57BL/6J

    Range
    34047580..34917095 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006515266.1XP_006515329.1  histone deacetylase 9 isoform X6

    See identical proteins and their annotated locations for XP_006515329.1

    Conserved Domains (2) summary
    cd10163
    Location:59148
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6531030
    HDAC_classIIa; Histone deacetylases, class IIa
  2. XM_011243917.2XP_011242219.1  histone deacetylase 9 isoform X8

    Conserved Domains (1) summary
    cd11681
    Location:6411018
    HDAC_classIIa; Histone deacetylases, class IIa
  3. XM_006515264.3XP_006515327.1  histone deacetylase 9 isoform X6

    See identical proteins and their annotated locations for XP_006515327.1

    Conserved Domains (2) summary
    cd10163
    Location:59148
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6531030
    HDAC_classIIa; Histone deacetylases, class IIa
  4. XM_017315249.1XP_017170738.1  histone deacetylase 9 isoform X9

    UniProtKB/TrEMBL
    A0A1B0GSQ5
    Conserved Domains (2) summary
    cd10163
    Location:38127
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6321009
    HDAC_classIIa; Histone deacetylases, class IIa
  5. XM_017315250.1XP_017170739.1  histone deacetylase 9 isoform X12

    Conserved Domains (2) summary
    cd10163
    Location:57146
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6511028
    HDAC_classIIa; Histone deacetylases, class IIa
  6. XM_006515261.2XP_006515324.1  histone deacetylase 9 isoform X5

    Conserved Domains (2) summary
    cd10163
    Location:71160
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6651042
    HDAC_classIIa; Histone deacetylases, class IIa
  7. XM_011243911.2XP_011242213.1  histone deacetylase 9 isoform X9

    See identical proteins and their annotated locations for XP_011242213.1

    UniProtKB/TrEMBL
    A0A1B0GSQ5
    Related
    ENSMUSP00000148029.1, OTTMUSP00000077741, ENSMUST00000209750.1, OTTMUST00000149903
    Conserved Domains (2) summary
    cd10163
    Location:38127
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6321009
    HDAC_classIIa; Histone deacetylases, class IIa
  8. XM_017315248.1XP_017170737.1  histone deacetylase 9 isoform X4

  9. XM_011243912.1XP_011242214.1  histone deacetylase 9 isoform X2

    See identical proteins and their annotated locations for XP_011242214.1

    UniProtKB/TrEMBL
    A0A1B0GRH0
    Related
    ENSMUSP00000147519.1, OTTMUSP00000077722, ENSMUST00000209902.1, OTTMUST00000149860
    Conserved Domains (2) summary
    cd10163
    Location:38124
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6291006
    HDAC_classIIa; Histone deacetylases, class IIa
  10. XM_006515262.2XP_006515325.2  histone deacetylase 9 isoform X1

    Conserved Domains (2) summary
    cd10163
    Location:38127
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6301007
    HDAC_classIIa; Histone deacetylases, class IIa
  11. XM_011243913.1XP_011242215.1  histone deacetylase 9 isoform X3

    UniProtKB/TrEMBL
    A0A1B0GR65
    Related
    ENSMUSP00000147395.1, OTTMUSP00000077735, ENSMUST00000209990.1, OTTMUST00000149893
    Conserved Domains (2) summary
    cd10163
    Location:38127
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:588965
    HDAC_classIIa; Histone deacetylases, class IIa
  12. XM_011243916.1XP_011242218.1  histone deacetylase 9 isoform X7

    Related
    ENSMUSP00000147903.1, OTTMUSP00000077736, ENSMUST00000210724.1, OTTMUST00000149897
    Conserved Domains (2) summary
    cd10163
    Location:38127
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:545922
    HDAC_classIIa; Histone deacetylases, class IIa
  13. XM_011243922.2XP_011242224.1  histone deacetylase 9 isoform X11

    Conserved Domains (1) summary
    cd11681
    Location:598975
    HDAC_classIIa; Histone deacetylases, class IIa
  14. XM_006515271.3XP_006515334.1  histone deacetylase 9 isoform X2

    See identical proteins and their annotated locations for XP_006515334.1

    UniProtKB/TrEMBL
    A0A1B0GRH0
    Conserved Domains (2) summary
    cd10163
    Location:38124
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6291006
    HDAC_classIIa; Histone deacetylases, class IIa
  15. XM_011243921.1XP_011242223.1  histone deacetylase 9 isoform X10

    Conserved Domains (1) summary
    cd11681
    Location:622999
    HDAC_classIIa; Histone deacetylases, class IIa
  16. XM_011243918.2XP_011242220.1  histone deacetylase 9 isoform X9

    See identical proteins and their annotated locations for XP_011242220.1

    UniProtKB/TrEMBL
    A0A1B0GSQ5
    Conserved Domains (2) summary
    cd10163
    Location:38127
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
    cd11681
    Location:6321009
    HDAC_classIIa; Histone deacetylases, class IIa
  17. XM_017315252.1XP_017170741.1  histone deacetylase 9 isoform X16

  18. XM_017315253.1XP_017170742.1  histone deacetylase 9 isoform X18

  19. XM_006515275.3XP_006515338.1  histone deacetylase 9 isoform X17

    Conserved Domains (1) summary
    cd10163
    Location:66155
    ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
  20. XM_006515276.2XP_006515339.2  histone deacetylase 9 isoform X15

    Related
    ENSMUSP00000147755.1, OTTMUSP00000077719, ENSMUST00000209667.1, OTTMUST00000149856
    Conserved Domains (1) summary
    cl23765
    Location:38124
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
  21. XM_006515273.2XP_006515336.2  histone deacetylase 9 isoform X13

    See identical proteins and their annotated locations for XP_006515336.2

    Conserved Domains (1) summary
    cl23765
    Location:38124
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
  22. XM_017315251.1XP_017170740.1  histone deacetylase 9 isoform X14

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