hdac3 histone deacetylase 3 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: hdac3provided by ZNC
Official Full Name: histone deacetylase 3provided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-847
See related: Ensembl:ENSDARG00000037514 AllianceGenome:ZFIN:ZDB-GENE-040426-847
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: zgc:55927
Summary: Predicted to enable chromatin binding activity; hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides; and transcription corepressor activity. Acts upstream of or within several processes, including angiogenesis; liver development; and posterior lateral line development. Predicted to be located in cytoplasm. Predicted to be part of transcription repressor complex. Predicted to be active in nucleus. Is expressed in several structures, including axial blood vessel; blood vessel; digestive system; otic vesicle; and sensory system. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma. Orthologous to human HDAC3 (histone deacetylase 3). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (12178994..12205865)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (11872980..11899851)

Chromosome 14 - NC_007125.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HDAC3 plays a crucial role in regulating posterior lateral line (PLL) formation and provide evidence for epigenetic regulation in auditory organ development.
Title: HDAC3 Is Required for Posterior Lateral Line Development in Zebrafish.
These results revealed a novel and specific role of hdac3 in liver development and the distinct functions between hdac1 and hdac3 in zebrafish embryonic development.
Title: Histone deacetylase 3 (hdac3) is specifically required for liver development in zebrafish.

Submit: New GeneRIF Correction

General gene information

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Markers

fi30d11.x1 (e-PCR)
- UniSTS:197241

fk35c06.x1 (e-PCR)
- UniSTS:200888

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone deacetylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone deacetylase activity	IEA Inferred from Electronic Annotation more info
enables histone decrotonylase activity	ISS Inferred from Sequence or Structural Similarity more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	IEA Inferred from Electronic Annotation more info
enables protein de-2-hydroxyisobutyrylase activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein decrotonylase activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein lysine deacetylase activity	ISS Inferred from Sequence or Structural Similarity more info
enables transcription corepressor activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in circadian regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within dorsal/ventral pattern formation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in epigenetic regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within liver development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within posterior lateral line development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of circadian rhythm	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within rhythmic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of transcription repressor complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: histone deacetylase 3

Names: HD3; protein deacetylase HDAC3; protein deacylase HDAC3

NP_957284.1

EC 3.5.1.98

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)

NM_200990.1 → NP_957284.1 histone deacetylase 3

See identical proteins and their annotated locations for NP_957284.1

Status: PROVISIONAL

Source sequence(s)

BC044543

UniProtKB/Swiss-Prot

Q803C3

Related

ENSDARP00000054625.5, ENSDART00000054626.7

Conserved Domains (2) summary

cd10005
Location:3 → 383

HDAC3; Histone deacetylase 3 (HDAC3)

PTZ00063
Location:1 → 394

PTZ00063; histone deacetylase; Provisional