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    HDAC9 histone deacetylase 9 [ Homo sapiens (human) ]

    Gene ID: 9734, updated on 14-Nov-2024

    Summary

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    Official Symbol
    HDAC9provided by HGNC
    Official Full Name
    histone deacetylase 9provided by HGNC
    Primary source
    HGNC:HGNC:14065
    See related
    Ensembl:ENSG00000048052 MIM:606543; AllianceGenome:HGNC:14065
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    HD7; HD9; HD7b; HDAC; HDRP; MITR; HDAC7; ARCND4; HDAC7B; HDAC9B; HDAC9FL
    Summary
    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 has sequence homology to members of the histone deacetylase family. This gene is orthologous to the Xenopus and mouse MITR genes. The MITR protein lacks the histone deacetylase catalytic domain. It represses MEF2 activity through recruitment of multicomponent corepressor complexes that include CtBP and HDACs. This encoded protein may play a role in hematopoiesis. Multiple alternatively spliced transcripts have been described for this gene but the full-length nature of some of them has not been determined. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in lymph node (RPKM 2.1), brain (RPKM 2.0) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See HDAC9 in Genome Data Viewer
    Location:
    7p21.1
    Exon count:
    38
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (18086825..19002416)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (18216502..19132425)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (18126448..19042039)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr7:18017138-18017327 Neighboring gene MRM3 pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:18126389-18126937 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:18126938-18127485 Neighboring gene phosphoribosyl pyrophosphate synthetase 1 like 1 Neighboring gene MPRA-validated peak6414 silencer Neighboring gene MPRA-validated peak6415 silencer Neighboring gene GATA motif-containing MPRA enhancer 275 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25678 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25677 Neighboring gene microRNA 1302-6 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25679 Neighboring gene uncharacterized LOC124900248 Neighboring gene Sharpr-MPRA regulatory region 1729 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr7:18436382-18437097 Neighboring gene NANOG hESC enhancer GRCh37_chr7:18447067-18447568 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:18459909-18461108 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25680 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:18548259-18549458 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17987 Neighboring gene NANOG hESC enhancer GRCh37_chr7:18590148-18590649 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:18613316-18613854 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:18613855-18614393 Neighboring gene casein kinase 1 alpha 1 pseudogene Neighboring gene uncharacterized LOC124901598 Neighboring gene eExon 18 TWIST1 limb enhancer Neighboring gene eExon 19 TWIST1 limb enhancer Neighboring gene VISTA enhancer hs644 Neighboring gene RN7SK pseudogene 266 Neighboring gene HDAC9 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:19029605-19030106 Neighboring gene nucleophosmin 1 pseudogene 13 Neighboring gene uncharacterized LOC124901597 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25682 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:19156549-19157332 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:19158406-19159269 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:19183777-19184976 Neighboring gene twist family bHLH transcription factor 1 Neighboring gene Fer3 like bHLH transcription factor

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Histone deacetylase 9 downregulation decreases tumor growth and promotes apoptosis in non-small cell lung cancer after melatonin treatment. Ma Z, et al. J Pineal Res, 2019 Sep. PMID 31090223
    2. Truncated HDAC9 identified by integrated genome-wide screen as the key modulator for paclitaxel resistance in triple-negative breast cancer. Lian B, et al. Theranostics, 2020. PMID 33042272, Free PMC Article
    3. Histone deacetylase 9 activates gamma-globin gene expression in primary erythroid cells. Muralidhar SA, et al. J Biol Chem, 2011 Jan 21. PMID 21078662, Free PMC Article
    4. Targeting pancreatic cancer cells by a novel hydroxamate-based histone deacetylase (HDAC) inhibitor ST-3595. Minjie S, et al. Tumour Biol, 2015 Nov. PMID 26084607
    5. Decreased expression and hypomethylation of HDAC9 lead to poor prognosis and inhibit immune cell infiltration in clear cell renal cell carcinoma. Fu Y, et al. Urol Oncol, 2020 Sep. PMID 32402768

    See all (184) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CircHDAC9 regulates myocardial ischemia-reperfusion injury via miR-671-5p/SOX4 signaling axis.
      Title: CircHDAC9 regulates myocardial ischemia-reperfusion injury via miR-671-5p/SOX4 signaling axis.
    2. Identification of HDAC9 and ARRDC4 as potential biomarkers and targets for treatment of type 2 diabetes.
      Title: Identification of HDAC9 and ARRDC4 as potential biomarkers and targets for treatment of type 2 diabetes.
    3. Histone deacetylase 9-mediated phenotypic transformation of vascular smooth muscle cells is a potential target for treating aortic aneurysm/dissection.
      Title: Histone deacetylase 9-mediated phenotypic transformation of vascular smooth muscle cells is a potential target for treating aortic aneurysm/dissection.
    4. Endothelial beta-catenin upregulation and Y142 phosphorylation drive diabetic angiogenesis via upregulating KDR/HDAC9.
      Title: Endothelial β-catenin upregulation and Y142 phosphorylation drive diabetic angiogenesis via upregulating KDR/HDAC9.
    5. HDAC9-mediated calmodulin deacetylation induces memory impairment in Alzheimer's disease.
      Title: HDAC9-mediated calmodulin deacetylation induces memory impairment in Alzheimer's disease.
    6. HDAC9 inhibition reduces skeletal muscle atrophy and enhances regeneration in mice with cigarette smoke-induced COPD.
      Title: HDAC9 inhibition reduces skeletal muscle atrophy and enhances regeneration in mice with cigarette smoke-induced COPD.
    7. Aberrant expression and regulatory role of histone deacetylase 9 in vascular endothelial cell injury in intracranial aneurysm.
      Title: Aberrant expression and regulatory role of histone deacetylase 9 in vascular endothelial cell injury in intracranial aneurysm.
    8. Role of histone deacetylase 9 in human periodontal ligament stem cells autophagy in a tumour necrosis factor alpha-induced inflammatory environment.
      Title: Role of histone deacetylase 9 in human periodontal ligament stem cells autophagy in a tumour necrosis factor α-induced inflammatory environment.
    9. Reverse expression pattern of sirtuin-1 and histone deacetylase-9 in coronary artery disease.
      Title: Reverse expression pattern of sirtuin-1 and histone deacetylase-9 in coronary artery disease.
    10. Sex-Dependent Role of Adipose Tissue HDAC9 in Diet-Induced Obesity and Metabolic Dysfunction.
      Title: Sex-Dependent Role of Adipose Tissue HDAC9 in Diet-Induced Obesity and Metabolic Dysfunction.
    Submit: New GeneRIF Correction See all GeneRIFs (115)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Associated conditions

    Description Tests
    Auriculocondylar syndrome 4
    MedGen: C5830659 OMIM: 620457 GeneReviews: Not available
    		not available

    EBI GWAS Catalog

    Description
    Genetic predictors of medically refractory ulcerative colitis.
    EBI GWAS Catalog
    Genetic risk factors for ischaemic stroke and its subtypes (the METASTROKE collaboration): a meta-analysis of genome-wide association studies.
    EBI GWAS Catalog
    Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects.
    EBI GWAS Catalog
    Genome-wide association study identifies a variant in HDAC9 associated with large vessel ischemic stroke.
    EBI GWAS Catalog
    Genome-Wide Association Study of Intracranial Aneurysm Identifies a New Association on Chromosome 7.
    EBI GWAS Catalog
    Genome-wide association study of peripheral neuropathy with D-drug-containing regimens in AIDS Clinical Trials Group protocol 384.
    EBI GWAS Catalog
    Genome-wide association study of retinopathy in individuals without diabetes.
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog
    Shared genetic susceptibility to ischemic stroke and coronary artery disease: a genome-wide analysis of common variants.
    EBI GWAS Catalog
    Six novel susceptibility Loci for early-onset androgenetic alopecia and their unexpected association with common diseases.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA0744, DKFZp779K1053

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables DNA-binding transcription factor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA polymerase II-specific DNA-binding transcription factor binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables histone H3K14 deacetylase activity, hydrolytic mechanism ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables histone H3K4 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K9 deacetylase activity, hydrolytic mechanism ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables histone H4K12 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K16 deacetylase activity, hydrolytic mechanism IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H4K5 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K8 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone deacetylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    NOT enables histone deacetylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone deacetylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone deacetylase binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone deacetylase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein kinase C binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein lysine deacetylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription corepressor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in B cell activation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in B cell differentiation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in cellular response to insulin stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cholesterol homeostasis IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in epigenetic regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in heart development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in inflammatory response TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of cytokine production IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of gene expression, epigenetic IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of gene expression, epigenetic ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in peptidyl-lysine deacetylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of cell migration involved in sprouting angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of skeletal muscle fiber development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of striated muscle cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in response to amphetamine IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm TAS
    Traceable Author Statement
    more info
    		 PubMed 
    part_of histone deacetylase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of histone deacetylase complex TAS
    Traceable Author Statement
    more info
    		 PubMed 
    part_of histone methyltransferase complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    histone deacetylase 9
    Names
    MEF-2 interacting transcription repressor (MITR) protein
    histone deacetylase 4/5-related protein
    histone deacetylase 7B
    NP_001191073.1
    NP_001191074.1
    NP_001191075.1
    NP_001191076.1
    NP_001191077.1
    NP_001308797.1
    NP_001308798.1
    NP_001308799.1
    NP_001308800.1
    NP_001308801.1
    NP_001308802.1
    NP_001308803.1
    NP_001308804.1
    NP_001308805.1
    NP_001308806.1
    NP_001308807.1
    NP_001308808.1
    NP_001308813.1
    NP_001308814.1
    NP_001308815.1
    NP_001308816.1
    NP_001308817.1
    NP_001308818.1
    NP_001308819.1
    NP_001308820.1
    NP_001308822.1
    NP_001308823.1
    NP_001308824.1
    NP_001308825.1
    NP_001308826.1
    NP_001308827.1
    NP_001308828.1
    NP_001308829.1
    NP_001308830.1
    NP_001308831.1
    NP_055522.1
    NP_478056.1
    NP_848510.1
    NP_848512.1

    NCBI Reference Sequences (RefSeq)

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    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.

    Genomic

    1. NG_023250.3 RefSeqGene

      Range
      413801..920468
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001204144.3 → NP_001191073.1  histone deacetylase 9 isoform 6 precursor

      See identical proteins and their annotated locations for NP_001191073.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and coding sequence, the 3' UTR and coding sequence, and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (6) is longer at the N-terminus, has a shorter and distinct C-terminus, and lacks an internal segment compared to isoform 1.
      Source sequence(s)
      AC074193, AK304298, BC150328, DC333353
      Consensus CDS
      CCDS56465.1
      UniProtKB/TrEMBL
      A0A9L9PY89
      Related
      ENSP00000401669.2, ENST00000417496.6
      Conserved Domains (1) summary
      cl25407
      Location:80 → 166
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    2. NM_001204145.3 → NP_001191074.1  histone deacetylase 9 isoform 7

      See identical proteins and their annotated locations for NP_001191074.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) has an extended 5' UTR, differs in the 3' UTR and coding sequence, and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (7) has a shorter and distinct C-terminus and lacks an internal segment compared to isoform 1. Variants 7, 30 and 31 encode the same isoform (7).
      Source sequence(s)
      AC002433, AK297404, BC150328, DC333611
      Consensus CDS
      CCDS56466.1
      UniProtKB/TrEMBL
      A0A9L9PY89
      Related
      ENSP00000395655.2, ENST00000428307.6
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    3. NM_001204146.2 → NP_001191075.1  histone deacetylase 9 isoform 8

      See identical proteins and their annotated locations for NP_001191075.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (8) has an extended 5' UTR, differs in the 3' UTR and coding sequence, lacks an alternate in-frame exon, and uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (8) has a shorter and distinct C-terminus, lacks an internal segment, and contains an alternate short internal segment compared to isoform 1.
      Source sequence(s)
      AC002433, AK316109, BC150328, DC333611
      Consensus CDS
      CCDS75565.1
      UniProtKB/TrEMBL
      A0A9L9PY89, B7Z3P7
      Related
      ENSP00000478829.1, ENST00000622668.4
      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

    4. NM_001204147.3 → NP_001191076.1  histone deacetylase 9 isoform 9

      Status: REVIEWED

      Description
      Transcript Variant: This variant (9) differs in the 5' UTR and coding sequence, the 3' UTR and coding sequence, and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (9) is shorter at the N-terminus, has a shorter and distinct C-terminus, and lacks an internal segment compared to isoform 1.
      Source sequence(s)
      AC002433, AK304343, AK304410, BC150328, DC369899
      Consensus CDS
      CCDS56468.1
      UniProtKB/TrEMBL
      A0A9L9PY89
      Related
      ENSP00000430036.1, ENST00000524023.1
      Conserved Domains (1) summary
      cl25407
      Location:7 → 93
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    5. NM_001204148.3 → NP_001191077.1  histone deacetylase 9 isoform 10

      See identical proteins and their annotated locations for NP_001191077.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (10) differs in the 5' UTR and coding sequence, the 3' UTR and coding sequence, and uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (10) is shorter at the N-terminus, has a shorter and distinct C-terminus, and contains an alternate internal segment compared to isoform 1.
      Source sequence(s)
      AC002124, AC002433, AK304343, AK304410, BC150328, DC369899
      Consensus CDS
      CCDS56467.1
      UniProtKB/TrEMBL
      Q68D71
      Related
      ENSP00000388568.2, ENST00000456174.6
      Conserved Domains (1) summary
      cd10163
      Location:7 → 96
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    6. NM_001321868.2 → NP_001308797.1  histone deacetylase 9 isoform 11

      Status: REVIEWED

      Source sequence(s)
      AC004744, AC074193, AJ459808, AK304298, BQ575888, DC333353
      UniProtKB/Swiss-Prot
      Q9UKV0
      Conserved Domains (2) summary
      cd10163
      Location:60 → 146
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
      cd11681
      Location:609 → 986
      HDAC_classIIa; Histone deacetylases, class IIa

    7. NM_001321869.2 → NP_001308798.1  histone deacetylase 9 isoform 12

      Status: REVIEWED

      Source sequence(s)
      AC074193, AJ459808, AK304298, AK316109, BC150328, DC333353
      UniProtKB/TrEMBL
      Q68D71
      Conserved Domains (1) summary
      cd10163
      Location:60 → 149
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    8. NM_001321870.2 → NP_001308799.1  histone deacetylase 9 isoform 13

      Status: REVIEWED

      Source sequence(s)
      AC074193, AJ459808, AK304298, AK316109, BC150328, DC333353
      UniProtKB/TrEMBL
      A0A9L9PXM4
      Conserved Domains (1) summary
      cl25407
      Location:60 → 146
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    9. NM_001321871.2 → NP_001308800.1  histone deacetylase 9 isoform 14

      Status: REVIEWED

      Source sequence(s)
      AC002433, AC074193, AK304298, BC150328, DC333353
      UniProtKB/TrEMBL
      A0A9L9PXL9, A0A9L9PY89
      Related
      ENSP00000516728.1, ENST00000707077.1
      Conserved Domains (1) summary
      cl25407
      Location:60 → 146
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    10. NM_001321872.2 → NP_001308801.1  histone deacetylase 9 isoform 15

      Status: REVIEWED

      Source sequence(s)
      AC074193, AJ459808, AK304298, AK316109, BC150328, DC333353
      UniProtKB/TrEMBL
      A0A9L9PY89
      Conserved Domains (1) summary
      cd10163
      Location:60 → 149
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    11. NM_001321873.2 → NP_001308802.1  histone deacetylase 9 isoform 16

      Status: REVIEWED

      Source sequence(s)
      AC074193, AK304298, AK316109, BC150328, DC333353
      UniProtKB/TrEMBL
      A0A9L9PY89
      Conserved Domains (1) summary
      cd10163
      Location:60 → 149
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    12. NM_001321874.2 → NP_001308803.1  histone deacetylase 9 isoform 17

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      Q68D71
      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

    13. NM_001321875.2 → NP_001308804.1  histone deacetylase 9 isoform 18

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      Q68D71
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    14. NM_001321876.2 → NP_001308805.1  histone deacetylase 9 isoform 19

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      Consensus CDS
      CCDS94058.1
      UniProtKB/TrEMBL
      A0A7P0T8F4, A0A9L9PY57
      Related
      ENSP00000505081.1, ENST00000681950.1
      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

    15. NM_001321877.2 → NP_001308806.1  histone deacetylase 9 isoform 20

      Status: REVIEWED

      Source sequence(s)
      AC002088, AC002124, AC002410, AC002433, AC004744, AC004994, BQ575888, DC333611
      Consensus CDS
      CCDS83163.1
      UniProtKB/Swiss-Prot
      Q9UKV0
      Related
      ENSP00000383912.1, ENST00000401921.5
      Conserved Domains (2) summary
      cd10163
      Location:38 → 127
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
      cd11681
      Location:590 → 967
      HDAC_classIIa; Histone deacetylases, class IIa

    16. NM_001321878.2 → NP_001308807.1  histone deacetylase 9 isoform 21

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      Consensus CDS
      CCDS94059.1
      UniProtKB/TrEMBL
      A0A7P0TAB5, Q68D71
      Related
      ENSP00000506070.1, ENST00000681273.1
      Conserved Domains (1) summary
      cl23765
      Location:38 → 124
      iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

    17. NM_001321879.2 → NP_001308808.1  histone deacetylase 9 isoform 22

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      A0A9L9PY89
      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

    18. NM_001321884.2 → NP_001308813.1  histone deacetylase 9 isoform 23

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      Q68D71
      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

    19. NM_001321885.2 → NP_001308814.1  histone deacetylase 9 isoform 24

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      A0A9L9PY89
      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

    20. NM_001321886.2 → NP_001308815.1  histone deacetylase 9 isoform 25

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      Q68D71
      Conserved Domains (1) summary
      cl23765
      Location:7 → 93
      iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

    21. NM_001321887.2 → NP_001308816.1  histone deacetylase 9 isoform 26

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328
      UniProtKB/TrEMBL
      Q68D71
      Conserved Domains (1) summary
      cd10163
      Location:7 → 96
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    22. NM_001321888.2 → NP_001308817.1  histone deacetylase 9 isoform 27

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328
      UniProtKB/TrEMBL
      A0A9L9PY89
      Related
      ENSP00000516732.1, ENST00000707081.1
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    23. NM_001321889.2 → NP_001308818.1  histone deacetylase 9 isoform 28

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      A0A9L9PY89
      Conserved Domains (1) summary
      cd10163
      Location:7 → 96
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    24. NM_001321890.2 → NP_001308819.1  histone deacetylase 9 isoform 29

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      Q68D71
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    25. NM_001321891.2 → NP_001308820.1  histone deacetylase 9 isoform 7

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      Consensus CDS
      CCDS56466.1
      UniProtKB/TrEMBL
      A0A9L9PY89
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    26. NM_001321893.2 → NP_001308822.1  histone deacetylase 9 isoform 7

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328
      Consensus CDS
      CCDS56466.1
      UniProtKB/TrEMBL
      A0A9L9PY89
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    27. NM_001321894.2 → NP_001308823.1  histone deacetylase 9 isoform 8

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      Consensus CDS
      CCDS75565.1
      UniProtKB/TrEMBL
      A0A9L9PY89, B7Z3P7
      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

    28. NM_001321895.2 → NP_001308824.1  histone deacetylase 9 isoform 8

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      Consensus CDS
      CCDS75565.1
      UniProtKB/TrEMBL
      A0A9L9PY89, B7Z3P7
      Related
      ENSP00000384017.1, ENST00000406072.5
      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

    29. NM_001321896.2 → NP_001308825.1  histone deacetylase 9 isoform 10

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, AC091697, BC150328
      Consensus CDS
      CCDS56467.1
      UniProtKB/TrEMBL
      Q68D71
      Conserved Domains (1) summary
      cd10163
      Location:7 → 96
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase

    30. NM_001321897.2 → NP_001308826.1  histone deacetylase 9 isoform 20

      Status: REVIEWED

      Source sequence(s)
      AC002088, AC002124, AC002410, AC002433, AC004744, AC004994, BQ575888, DC333611
      Consensus CDS
      CCDS83163.1
      UniProtKB/Swiss-Prot
      Q9UKV0
      Conserved Domains (2) summary
      cd10163
      Location:38 → 127
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
      cd11681
      Location:590 → 967
      HDAC_classIIa; Histone deacetylases, class IIa

    31. NM_001321898.2 → NP_001308827.1  histone deacetylase 9 isoform 24

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328
      UniProtKB/TrEMBL
      A0A9L9PY89
      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

    32. NM_001321899.2 → NP_001308828.1  histone deacetylase 9 isoform 17

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328
      UniProtKB/TrEMBL
      Q68D71
      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

    33. NM_001321900.2 → NP_001308829.1  histone deacetylase 9 isoform 3

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      Consensus CDS
      CCDS47557.1
      UniProtKB/TrEMBL
      Q68D71
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    34. NM_001321901.2 → NP_001308830.1  histone deacetylase 9 isoform 23

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328
      UniProtKB/TrEMBL
      Q68D71
      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

    35. NM_001321902.2 → NP_001308831.1  histone deacetylase 9 isoform 17

      Status: REVIEWED

      Source sequence(s)
      AC002124, AC002433, BC150328, DC333611
      UniProtKB/TrEMBL
      Q68D71
      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

    36. NM_014707.4 → NP_055522.1  histone deacetylase 9 isoform 3

      See identical proteins and their annotated locations for NP_055522.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks multiple 3' exons and has an alternate 3' segment including the coding region and UTR, compared to variant 1. The resulting isoform 3, also known as HDRP, has a much shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      BC152405
      Consensus CDS
      CCDS47557.1
      UniProtKB/TrEMBL
      Q68D71
      Related
      ENSP00000384382.3, ENST00000405010.7
      Conserved Domains (1) summary
      cl25407
      Location:38 → 124
      ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

    37. NM_058176.2 → NP_478056.1  histone deacetylase 9 isoform 1

      See identical proteins and their annotated locations for NP_478056.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the predominant isoform (1).
      Source sequence(s)
      AA405905, AY032737, BC152405
      Consensus CDS
      CCDS47555.1
      UniProtKB/Swiss-Prot
      A7E2F3, B7Z4I4, B7Z917, B7Z928, B7Z940, C9JS87, E7EX34, F8W9E0, O94845, O95028, Q2M2R6, Q86SL1, Q86US3, Q9UKV0
      Related
      ENSP00000410337.2, ENST00000432645.6
      Conserved Domains (2) summary
      cd10163
      Location:38 → 124
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
      cd10009
      Location:631 → 1009
      HDAC9; Histone deacetylase 9

    38. NM_178423.3 → NP_848510.1  histone deacetylase 9 isoform 4

      See identical proteins and their annotated locations for NP_848510.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) has an alternate 3' sequence including the coding region and UTR, compared to variant 1. The resulting isoform 4, also known as HDAC9fl, has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AC004744, AJ459808, BQ575888
      Consensus CDS
      CCDS47554.1
      UniProtKB/Swiss-Prot
      Q9UKV0
      Related
      ENSP00000384657.3, ENST00000406451.8
      Conserved Domains (2) summary
      cd10163
      Location:38 → 124
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
      cd11681
      Location:631 → 1008
      HDAC_classIIa; Histone deacetylases, class IIa

    39. NM_178425.4 → NP_848512.1  histone deacetylase 9 isoform 5

      See identical proteins and their annotated locations for NP_848512.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) has an alternate 3' sequence including the coding region and UTR, compared to variant 1. The resulting isoform 5 has a distinct C-terminus, compared to isoform 1. This variant is incomplete at the 5' end.
      Source sequence(s)
      AC002088, AC002124, AC002410, AC002433, AC004744, AC004994
      Consensus CDS
      CCDS47553.1
      UniProtKB/Swiss-Prot
      Q9UKV0
      Related
      ENSP00000509161.1, ENST00000686413.1
      Conserved Domains (2) summary
      cd10163
      Location:38 → 127
      ClassIIa_HDAC9_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC9, a Class IIa histone deacetylase
      cd11681
      Location:634 → 1011
      HDAC_classIIa; Histone deacetylases, class IIa

    RNA

    1. NR_135835.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002433, BC092441, DC333611

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      18086825..19002416
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      18216502..19132425
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_058177.2: Suppressed sequence

      Description
      NM_058177.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9UKV0.2 GenPept UniProtKB/Swiss-Prot:Q9UKV0

    Gene LinkOut

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

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