ENSDARG00000098349


Danio rerio

Features
Gene ID: ENSDARG00000098349
  
Biological name :hdac4
  
Synonyms : hdac4 / histone deacetylase 4
  
Possible biological names infered from orthology : P56524 / Q6NZM9
  
Species: Danio rerio
  
Chr. number: 9
Strand: -1
Band:
Gene start: 45884031
Gene end: 46276626
  
Corresponding Affymetrix probe sets: Dr.13084.1.A1_at (Zebrafish Array)   NM_001039358_at (Zebrafish Genome Array with custom cdf files)   
  
Cross references: Ensembl peptide - ENSDARP00000131327
Ensembl peptide - ENSDARP00000138997
NCBI entrez gene - 568877     See in Manteia.
RefSeq - NM_001039358
RefSeq Peptide - NP_001034447
swissprot - F1QRR4
swissprot - A0A0R4IAH0
ZFIN ID - ZDB-GENE-061013-95
Ensembl - ENSDARG00000098349
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 HDAC4ENSGALG00000004288Gallus gallus
 HDAC4ENSG00000068024Homo sapiens
 Hdac4ENSMUSG00000026313Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
hdac5 / histone deacetylase 5 / Q9UQL6* / histone deacetylase 5 isoform 4 *ENSDARG0000007513961
hdac7b / histone deacetylase 7b / HDAC7* / Q8WUI4* / Q8C2B3* / histone deacetylase 7*ENSDARG0000007385032
CABZ01074076.1 / HDAC7* / Q8C2B3* / Q8WUI4* / histone deacetylase 7*ENSDARG0000010517928
hdac9b / histone deacetylase 9b / HDAC9* / Q9UKV0* / histone deacetylase 9*ENSDARG0000005664226
hdac6 / histone deacetylase 6 / Q9UBN7* / Q9Z2V5*ENSDARG0000000838422
hdac10 / histone deacetylase 10 / Q6P3E7* / Q969S8*ENSDARG0000008645811


Protein motifs (from Interpro)
Interpro ID Name
 IPR000286  Histone deacetylase family
 IPR017320  Histone deacetylase class II, eukaryotic
 IPR023801  Histone deacetylase domain
 IPR024643  Histone deacetylase, glutamine rich N-terminal domain
 IPR033660  Histone deacetylase 4


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0001755 neural crest cell migration IMP
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006351 transcription, DNA-templated IEA
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0016575 histone deacetylation IEA
 biological_processGO:0048701 embryonic cranial skeleton morphogenesis IMP
 biological_processGO:0070932 histone H3 deacetylation IEA
 biological_processGO:0090299 regulation of neural crest formation IMP
 cellular_componentGO:0000118 histone deacetylase complex IEA
 cellular_componentGO:0005634 nucleus IEA
 molecular_functionGO:0004407 histone deacetylase activity IEA
 molecular_functionGO:0016787 hydrolase activity IEA
 molecular_functionGO:0032041 NAD-dependent histone deacetylase activity (H3-K14 specific) IEA
 molecular_functionGO:0046872 metal ion binding IEA


Pathways (from Reactome)
Pathway description
SUMOylation of intracellular receptors
SUMOylation of chromatin organization proteins
RUNX3 regulates p14-ARF


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 ZFA:0001114 head head anterior-most region decreased size , abnormal
head anterior-most region antero-posteriorly flattened , abnormal
head anterior-most region shortened , abnormal
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 ZFA:0001194 cranial neural crest cranial neural crest morphology , abnormal
cranial neural crest medial region has fewer parts of type cranial neural crest cell , abnormal
cranial neural crest antero-ventral region lacks all parts of type cranial neural crest cell , abnormal
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 ZFA:0001405 ethmoid cartilage ethmoid cartilage decreased width , abnormal
ethmoid cartilage hypoplastic , abnormal
ethmoid cartilage notched , abnormal
ethmoid cartilage perforate , abnormal
ethmoid cartilage shortened , abnormal
ethmoid cartilage morphology , abnormal
ethmoid cartilage deformed , abnormal
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 ZFA:0001507 trabecula cranii trabecula cranii decreased length , abnormal
Show

 ZFA:0001508 trabecula communis trabecula communis hypoplastic , abnormal
trabecula communis aplastic , abnormal
trabecula communis deformed , abnormal
Show

 ZFA:0005509 palate palate cleft , abnormal
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSDARG00000022280 brd2a / bromodomain containing 2a / BRD2* / Q7JJ13* / P25440* / bromodomain containing 2* / Bromodomain-containing protein 2 *  / reaction / complex
 ENSDARG00000052826 runx3 / runt-related transcription factor 3 / Q13761* / Q64131*  / reaction / complex
 ENSDARG00000101637 ccnd1 / Q90459 / cyclin D1 / P24385* / P25322* / G1/S-specific cyclin-D1 *  / complex / reaction
 ENSDARG00000028119 Q6NV25 / sumo3a / small ubiquitin-like modifier 3a / SUMO3* / Q9Z172* / P55854* / small ubiquitin-like modifier 3*  / reaction
 ENSDARG00000007438 ube2ib / Q9W6H5 / ubiquitin-conjugating enzyme E2Ib / UBE2I* / P63279* / ubiquitin conjugating enzyme E2 I*  / reaction
 ENSDARG00000102741 sumo2b / Q6DHL4 / small ubiquitin-like modifier 2b / SUMO4* / SUMO2* / Q6EEV6* / P61956* / P61957* / small ubiquitin-like modifier 4* / small ubiquitin-like modifier 2*  / reaction
 ENSDARG00000044267 sumo1 / Q7SZR5 / small ubiquitin-like modifier 1 / P63166* / P63165* / Small ubiquitin-related modifier 1 *  / complex / reaction
 ENSDARG00000035993 sumo3b / small ubiquitin-like modifier 3b / SUMO3* / P55854* / small ubiquitin-like modifier 3*  / reaction
 ENSDARG00000052649 Q9DDJ0 / ube2ia / ubiquitin-conjugating enzyme E2Ia / UBE2I* / P63280* / P63279* / ubiquitin conjugating enzyme E2 I*  / reaction






 

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