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HDAC5 histone deacetylase 5 [ Callithrix jacchus (white-tufted-ear marmoset) ]

Gene ID: 100400747, updated on 3-Apr-2024

Summary

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Gene symbol
HDAC5
Gene description
histone deacetylase 5
See related
Ensembl:ENSCJAG00000010230
Gene type
protein coding
RefSeq status
MODEL
Organism
Callithrix jacchus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Platyrrhini; Cebidae; Callitrichinae; Callithrix; Callithrix
Orthologs
human mouse all
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Genomic context

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See HDAC5 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2023_03 current mCalJa1.2.pat.X (GCF_011100555.1) 5 NC_071446.1 (67055778..67094001, complement)
105 previous assembly Callithrix_jacchus_cj1700_1.1 (GCF_009663435.1) 5 NC_048387.1 (69672460..69718507, complement)

Chromosome 5 - NC_071446.1Genomic Context describing neighboring genes Neighboring gene LSM12 homolog Neighboring gene uncharacterized LOC128932254 Neighboring gene glucose-6-phosphatase catalytic subunit 3 Neighboring gene uncharacterized LOC118153996 Neighboring gene homologous recombination factor with OB-fold Neighboring gene ankyrin repeat and SOCS box containing 16

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. De novo assembly of the common marmoset transcriptome from NextGen mRNA sequences. Maudhoo MD, et al. Gigascience, 2014. PMID 25243066, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables histone deacetylase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
part_of histone deacetylase complex IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
histone deacetylase 5

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_011100555.1-RS_2023_03

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

Reference mCalJa1.2.pat.X

Genomic

  1. NC_071446.1 Reference mCalJa1.2.pat.X

    Range
    67055778..67094001 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054256984.1 → XP_054112959.1  histone deacetylase 5 isoform X15

  2. XM_035303037.2 → XP_035158928.1  histone deacetylase 5 isoform X10

    UniProtKB/TrEMBL
    U3CUE3
    Conserved Domains (2) summary
    cd10164
    Location:68 → 164
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:675 → 1058
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  3. XM_035303027.2 → XP_035158918.1  histone deacetylase 5 isoform X4

    UniProtKB/TrEMBL
    U3CUE3, U3E2F1
    Conserved Domains (2) summary
    cd10164
    Location:68 → 164
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:675 → 1094
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  4. XM_054256982.1 → XP_054112957.1  histone deacetylase 5 isoform X13

    UniProtKB/TrEMBL
    F6PUT1

  5. XM_035303033.2 → XP_035158924.1  histone deacetylase 5 isoform X9

    UniProtKB/TrEMBL
    U3CUE3
    Conserved Domains (2) summary
    cd10164
    Location:68 → 164
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:680 → 1063
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  6. XM_035303026.2 → XP_035158917.1  histone deacetylase 5 isoform X2

    UniProtKB/TrEMBL
    U3CUE3, U3ES97
    Conserved Domains (2) summary
    cd10164
    Location:68 → 164
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:680 → 1099
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  7. XM_054256983.1 → XP_054112958.1  histone deacetylase 5 isoform X14

  8. XM_008996720.4 → XP_008994968.2  histone deacetylase 5 isoform X3

    UniProtKB/TrEMBL
    U3CUE3, U3DP42
    Conserved Domains (2) summary
    cd10164
    Location:69 → 165
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:676 → 1095
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  9. XM_054256985.1 → XP_054112960.1  histone deacetylase 5 isoform X16

  10. XM_054256981.1 → XP_054112956.1  histone deacetylase 5 isoform X12

  11. XM_035303032.2 → XP_035158923.1  histone deacetylase 5 isoform X8

    UniProtKB/TrEMBL
    U3CUE3
    Conserved Domains (2) summary
    cd10164
    Location:69 → 165
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:681 → 1064
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  12. XM_008996719.4 → XP_008994967.1  histone deacetylase 5 isoform X1

    See identical proteins and their annotated locations for XP_008994967.1

    UniProtKB/TrEMBL
    U3CRZ1, U3CUE3
    Related
    ENSCJAP00000019004.2
    Conserved Domains (2) summary
    cd10164
    Location:69 → 165
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:681 → 1100
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  13. XM_035303030.2 → XP_035158921.1  histone deacetylase 5 isoform X7

    UniProtKB/TrEMBL
    F7GQ46
    Conserved Domains (2) summary
    cd10164
    Location:44 → 140
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:651 → 1070
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  14. XM_035303029.2 → XP_035158920.1  histone deacetylase 5 isoform X6

    UniProtKB/TrEMBL
    F7GQ46
    Conserved Domains (2) summary
    cd10164
    Location:44 → 140
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:656 → 1075
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  15. XM_054256980.1 → XP_054112955.1  histone deacetylase 5 isoform X11

  16. XM_035303028.2 → XP_035158919.1  histone deacetylase 5 isoform X5

    UniProtKB/TrEMBL
    U3CUE3
    Conserved Domains (2) summary
    cd10164
    Location:69 → 165
    ClassIIa_HDAC5_Gln-rich-N; Glutamine-rich N-terminal helical domain of HDAC5, a Class IIa histone deacetylase
    cl17011
    Location:681 → 1100
    Arginase_HDAC; Arginase-like and histone-like hydrolases
Nucleotide Protein
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