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HDAC11 histone deacetylase 11 [ Homo sapiens (human) ]

Gene ID: 79885, updated on 2-Mar-2021

Summary

Official Symbol
HDAC11provided by HGNC
Official Full Name
histone deacetylase 11provided by HGNC
Primary source
HGNC:HGNC:19086
See related
Ensembl:ENSG00000163517 MIM:607226
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
HD11
Summary
This gene encodes a class IV histone deacetylase. The encoded protein is localized to the nucleus and may be involved in regulating the expression of interleukin 10. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Apr 2009]
Expression
Broad expression in brain (RPKM 17.4), testis (RPKM 14.8) and 22 other tissues See more
Orthologs
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Genomic context

See HDAC11 in Genome Data Viewer
Location:
3p25.1
Exon count:
14
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (13478903..13506416)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (13521806..13547916)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene NUP210-HDAC11 intergenic CAGE-defined high expression enhancer Neighboring gene proline-rich protein 3 pseudogene Neighboring gene HDAC11 antisense RNA 1 Neighboring gene fibulin 2 Neighboring gene small nucleolar RNA, H/ACA box 93 Neighboring gene uncharacterized LOC100293612 Neighboring gene long intergenic non-protein coding RNA 620

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ22237

Gene Ontology Provided by GOA

Function Evidence Code Pubs
NAD-dependent histone deacetylase activity (H3-K14 specific) IEA
Inferred from Electronic Annotation
more info
 
histone deacetylase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription factor binding TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
chromatin organization TAS
Traceable Author Statement
more info
PubMed 
histone H3 deacetylation IEA
Inferred from Electronic Annotation
more info
 
histone deacetylation IDA
Inferred from Direct Assay
more info
PubMed 
oligodendrocyte development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
histone deacetylase complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
histone deacetylase 11
NP_001129513.1
NP_001317565.1
NP_079103.2
XP_005265548.1
XP_006713401.1
XP_011532433.1
XP_011532434.2
XP_011532437.1
XP_016862723.1
XP_024309529.1
XP_024309530.1
XP_024309531.1
XP_024309532.1
XP_024309533.1

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_001136041.3NP_001129513.1  histone deacetylase 11 isoform 2

    See identical proteins and their annotated locations for NP_001129513.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC027124, AK293223, AW291816, BG708402
    Consensus CDS
    CCDS46760.1
    UniProtKB/Swiss-Prot
    Q96DB2
    Related
    ENSP00000429794.1, ENST00000522202.5
    Conserved Domains (1) summary
    cd09993
    Location:7268
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  2. NM_001330636.2NP_001317565.1  histone deacetylase 11 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks three exons in the coding region, compared to variant 1. It encodes isoform 3, which lacks an internal in-frame segment and is shorter, compared to isoform 1.
    Source sequence(s)
    AC027124, DA157041, DC315722, HY351163
    Consensus CDS
    CCDS82738.1
    UniProtKB/TrEMBL
    B5MCQ6
    Related
    ENSP00000384123.1, ENST00000402271.5
    Conserved Domains (1) summary
    cd09993
    Location:35240
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  3. NM_024827.4NP_079103.2  histone deacetylase 11 isoform 1

    See identical proteins and their annotated locations for NP_079103.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC027124, AW291816, BC009676, DB025431
    Consensus CDS
    CCDS2615.1
    UniProtKB/Swiss-Prot
    Q96DB2
    UniProtKB/TrEMBL
    A0A024R2I1
    Related
    ENSP00000295757.3, ENST00000295757.8
    Conserved Domains (1) summary
    cd09993
    Location:35319
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    13478903..13506416
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024453764.1XP_024309532.1  histone deacetylase 11 isoform X2

    Conserved Domains (1) summary
    cd09993
    Location:7212
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  2. XM_024453761.1XP_024309529.1  histone deacetylase 11 isoform X1

    Conserved Domains (1) summary
    cd09993
    Location:7291
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  3. XM_006713338.1XP_006713401.1  histone deacetylase 11 isoform X4

    Conserved Domains (1) summary
    cd09993
    Location:35240
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  4. XM_011534135.1XP_011532437.1  histone deacetylase 11 isoform X7

    See identical proteins and their annotated locations for XP_011532437.1

    UniProtKB/Swiss-Prot
    Q96DB2
    UniProtKB/TrEMBL
    Q6IA14
    Conserved Domains (1) summary
    cd09993
    Location:1197
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  5. XM_005265491.1XP_005265548.1  histone deacetylase 11 isoform X1

    See identical proteins and their annotated locations for XP_005265548.1

    UniProtKB/TrEMBL
    E7ETT9
    Related
    ENSP00000395188.2, ENST00000437379.2
    Conserved Domains (1) summary
    cd09993
    Location:7291
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  6. XM_024453765.1XP_024309533.1  histone deacetylase 11 isoform X6

    Conserved Domains (1) summary
    cd09993
    Location:7212
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  7. XM_024453762.1XP_024309530.1  histone deacetylase 11 isoform X3

    Conserved Domains (1) summary
    cd09993
    Location:54259
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  8. XM_024453763.1XP_024309531.1  histone deacetylase 11 isoform X5

    Conserved Domains (1) summary
    cl17011
    Location:54103
    Arginase_HDAC; Arginase-like and histone-like hydrolases
  9. XM_011534132.2XP_011532434.2  histone deacetylase 11 isoform X2

    Conserved Domains (1) summary
    cd09993
    Location:7212
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  10. XM_011534131.1XP_011532433.1  histone deacetylase 11 isoform X1

    See identical proteins and their annotated locations for XP_011532433.1

    UniProtKB/TrEMBL
    E7ETT9
    Conserved Domains (1) summary
    cd09993
    Location:7291
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
  11. XM_017007234.1XP_016862723.1  histone deacetylase 11 isoform X6

    Conserved Domains (1) summary
    cd09993
    Location:7212
    HDAC_classIV; Histone deacetylase class IV also known as histone deacetylase 11
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