FlyBase Gene Report: Dmel\HDAC3

General Information

Symbol

Dmel\HDAC3

Species

D. melanogaster

Name

Histone deacetylase 3

Annotation Symbol

CG2128

Feature Type

protein_coding_gene

FlyBase ID

FBgn0025825

Gene Model Status

Current

Stock Availability

16 publicly available

Gene Summary

Histone deacetylase 3 (HDAC3) encodes a histone deacetylase involved in chromatin silencing. It controls cell growth through apoptosis suppression by regulating transcription of hid. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

dHDAC3, HDAC

Key Links

Genomic Location

Cytogenetic map

83A4-83A4

Sequence location

3R:5,472,810..5,474,600 [-]

Recombination map

3-47.5

RefSeq locus

NT_033777 REGION:5472810..5474600

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (17 terms)

Molecular Function (7 terms)

Terms Based on Experimental Evidence (7 terms)

CV Term

Evidence

References

enables histone deacetylase activity

inferred from direct assay

(Cho et al., 2005)

enables histone H4K12 deacetylase activity, hydrolytic mechanism

inferred from direct assay

(Barlow et al., 2001)

enables histone H4K16 deacetylase activity, hydrolytic mechanism

inferred from direct assay

(Barlow et al., 2001)

enables histone H4K5 deacetylase activity, hydrolytic mechanism

inferred from direct assay

(Barlow et al., 2001)

enables histone H4K8 deacetylase activity, hydrolytic mechanism

inferred from direct assay

(Barlow et al., 2001)

enables protein binding

inferred from physical interaction with FLYBASE:Smyd4-2; FB:FBgn0036282

(Thompson and Travers, 2008)

inferred from physical interaction with FLYBASE:ebi; FB:FBgn0263933

(Qi et al., 2008)

inferred from physical interaction with UniProtKB:P25439

(Koe et al., 2014)

enables protein domain specific binding

inferred from physical interaction with UniProtKB:Q9VQ56

(Koe et al., 2014)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables histone deacetylase activity

inferred from biological aspect of ancestor with PANTHER:PTN008143312

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR003084

(InterPro Project Members, 2004-)

non-traceable author statement

(Feller et al., 2015)

Biological Process (7 terms)

Terms Based on Experimental Evidence (6 terms)

CV Term

Evidence

References

involved_in cell dedifferentiation

inferred from genetic interaction with UniProtKB:Q9VQ56

(Koe et al., 2014)

involved_in heterochromatin formation

inferred from mutant phenotype

(Zhu et al., 2008)

inferred from genetic interaction with FLYBASE:HDAC1; FB:FBgn0015805

(Zhu et al., 2008)

involved_in negative regulation of apoptotic process

inferred from mutant phenotype

(Zhu et al., 2008)

involved_in negative regulation of neuroblast proliferation

inferred from genetic interaction with UniProtKB:P25439

(Koe et al., 2014)

inferred from genetic interaction with UniProtKB:Q9VQ56

(Koe et al., 2014)

involved_in positive regulation of cell growth

inferred from mutant phenotype

(Lv et al., 2012)

involved_in regulation of DNA-templated transcription

inferred from direct assay

(Cho et al., 2005)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in epigenetic regulation of gene expression

inferred from biological aspect of ancestor with PANTHER:PTN008143312

(GO Reference Genome Project, 2011-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in cytoplasm

inferred from direct assay

(Cho et al., 2005)

located_in nucleus

inferred from direct assay

(Cho et al., 2005)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of histone deacetylase complex

inferred from biological aspect of ancestor with PANTHER:PTN000835657

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

RPD3/HDA1 LYSINE DEACETYLASES

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

RPD3/HDA1 LYSINE DEACETYLASES -: The RPD3/HDA1 family are Zn²⁺-dependent lysine deacetylases that share a common catalytic core domain. (Adapted from FBrf0159755).

Summary (Interactive Fly)

chromatin component - deacetylates histone H4 - counteracts the overgrowth induced by InR, PI3K or S6K over-expression - a target of the PI3K pathway - helps retain chromatin compaction and gene silencing in nuclear lamina-interacting multigenic chromatin domains

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\HDAC3 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q7KTS4)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.49

Gene model reviewed during 5.54

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

HDAC3-RA

FBtr0078767

NM_143721

1660

438

Additional Transcript Data and Comments

Reported size (kB)

1.746 (longest cDNA)

(Johnson et al., 1998)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

HDAC3-PA

FBpp0078414

49.6

438

5.07

Q7KTS4

NP_651978

AAF52023

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

438 (aa)

(Johnson et al., 1998)

Comments

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\HDAC3 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Hdac3_1

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

NA

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

presumptive embryonic/larval central nervous system

(Zhu et al., 2008)

larval central nervous system

(Zhu et al., 2008)

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 13 -- 16

organism | faint | ubiquitous

(Fisher et al., 2012)

larval stage

larval central nervous system

(Zhu et al., 2008)

(Zhu et al., 2008)

(Zhu et al., 2008)

(Zhu et al., 2008)

Additional Descriptive Data

HDAC1 transcripts are more abundant during development than HDAC3 transcripts.

(Zhu et al., 2008)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cytoplasm

inferred from direct assay

(Cho et al., 2005)

located_in nucleus

inferred from direct assay

(Cho et al., 2005)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\HDAC3 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\HDAC3

View exonic expression by tissue for Dmel\HDAC3

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0025825

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

44446/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0025825

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0025825

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0025825

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG2128

Flygut - An atlas of the Drosophila adult midgut

FBgn0025825

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 10 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 20 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of HDAC3

Transgenic constructs containing regulatory region of HDAC3

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene partially disrupted in

Df(3R)Hdac3^6C

(Zhu et al., 2008)

Inferred from location ( 2 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

lethal, with Scer\GAL4^Act5C.PI

HDAC3^HMS00087

lethal, with Scer\GAL4^en.PU

HDAC3^HMS00087

lethal, with Scer\GAL4^ey.PH

HDAC3^HMS00087

lethal - all die before end of pupal stage

HDAC3^N

lethal - all die before end of pupal stage, with Scer\GAL4^pnr-MD237

HDAC3^GD9732

lethal - all die during larval stage, with Scer\GAL4^Act5C.PI

HDAC3^RNAi.Sym.UAS

partially lethal, with Scer\GAL4^ppl.PP

HDAC3^RNAi.Sym.UAS

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

HDAC3^GD9732

viable, with Scer\GAL4^Mef2.PR

HDAC3^GD9732

viable, with Scer\GAL4^tin.CΔ4

HDAC3^GD9732

Other Phenotypes

Allele

abnormal neuroanatomy | somatic clone

HDAC3^N

abnormal pain response | adult stage, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

HDAC3^GD9732

abnormal size | adult stage, with Scer\GAL4^ey.PH

HDAC3^HMS00087

decreased body size, with Scer\GAL4^ppl.PP

HDAC3^RNAi.Sym.UAS

decreased cell growth rate, with Scer\GAL4^e22c

HDAC3^RNAi.Sym.UAS

decreased cell growth rate, with Scer\GAL4^ey.PH

HDAC3^RNAi.Sym.UAS

decreased cell number | adult stage, with Scer\GAL4^Tk.PS

HDAC3^UAS.cNa

increased body size, with Scer\GAL4^Act5C.PI

HDAC3^UAS.cLa

increased cell death | third instar larval stage (with HDAC3^I)

HDAC3^J

increased cell death | third instar larval stage (with HDAC3^J)

HDAC3^I

increased cell number | adult stage, with Scer\GAL4^Tk.PS

HDAC3^JF01420

increased cell number | larval stage, with Scer\GAL4^wor.PA, Scer\GAL80^ase.PN

HDAC3^HMS00087

some die during pupal stage

HDAC3^N

some die during pupal stage, with Scer\GAL4^pnr-MD237

HDAC3^GD9732

visible | adult stage, with Scer\GAL4^en.PU

HDAC3^JF01420

visible | adult stage, with Scer\GAL4^ey.PH

HDAC3^HMS00087

visible | adult stage, with Scer\GAL4^nub.PK

visible | dominant

HDAC3^B

Phenotype manifest in

Allele

adult anterior midgut, with Scer\GAL4^Tk.PS

adult enteroendocrine cell | increased number, with Scer\GAL4^Tk.PS

HDAC3^JF01420

adult fat body, with Scer\GAL4^Tk.PS

HDAC3^JF01420

embryonic/larval fat body, with Scer\GAL4^ppl.PP

HDAC3^RNAi.Sym.UAS

eye, with Scer\GAL4^ey.PH

imaginal disc | third instar larval stage

HDAC3^6C

imaginal disc | third instar larval stage (with HDAC3^I)

HDAC3^J

imaginal disc | third instar larval stage (with HDAC3^J)

HDAC3^I

larval brain | larval stage, with Scer\GAL4^wor.PA, Scer\GAL80^ase.PN

HDAC3^HMS00087

lipid droplet | adult stage, with Scer\GAL4^Tk.PS

HDAC3^JF01420

lipid droplet | adult stage | increased number, with Scer\GAL4^Tk.PS

HDAC3^UAS.cNa

ommatidium, with Scer\GAL4^ey.PH

HDAC3^RNAi.Sym.UAS

projection neuron | somatic clone

HDAC3^N

type II neuroblast | increased number | larval stage, with Scer\GAL4^wor.PA, Scer\GAL80^ase.PN

HDAC3^HMS00087

wing

HDAC3^B

wing, with Scer\GAL4^e22c

HDAC3^RNAi.Sym.UAS

wing, with Scer\GAL4^nub.PK

HDAC3^HMS00087

wing blade, with Scer\GAL4^en.PU

HDAC3^JF01420

wing blade, with Scer\GAL4^nub.PK

HDAC3^JF01420

wing vein, with Scer\GAL4^en.PU

HDAC3^JF01420

wing vein, with Scer\GAL4^nub.PK

HDAC3^JF01420

wing vein | ectopic

HDAC3^B

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (11)

Hsap\HDAC3

12 of 14

Yes

4 of 14

4 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (11)

Rnor\Hdac3

12 of 14

Yes

4 of 14

4 of 14

4 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

Mus musculus (laboratory mouse) (11)

Mmus\Hdac3

12 of 14

Yes

4 of 14

4 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (6)

Xtro\hdac3

10 of 13

Yes

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (12)

Drer\hdac3

13 of 14

Yes

4 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (10)

Cele\hda-1

5 of 14

Yes

4 of 14

4 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (5)

Agam\AgaP_AGAP001143

11 of 12

Yes

3 of 12

2 of 12

2 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (14)

Atha\HDA9

6 of 13

Yes

4 of 13

4 of 13

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

Yes

Atha\HDA14

2 of 13

Atha\HDA15

2 of 13

Atha\hda17

2 of 13

Yes

Atha\HDA18

2 of 13

Atha\AT4G09784

1 of 13

Atha\AT5G61050

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (5)

Scer\HOS2

6 of 13

Yes

Scer\RPD3

6 of 13

Yes

Scer\HDA1

2 of 13

Scer\HOS1

2 of 13

Scer\HOS3

2 of 13

Schizosaccharomyces pombe (Fission yeast) (3)

Spom\hos2

7 of 12

Yes

Spom\clr6

4 of 12

Spom\clr3

2 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:HDAC3. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (9)

7 of 13

4 of 13

4 of 13

4 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

cancer, multiple, epigenetic mechanisms

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 2 )

Allele

Disease

Evidence

References

HDAC3^HMS00087

model of cardiomyopathy

CEA

(Ren et al., 2023)

HDAC3^HMC05493

model of cardiomyopathy

CEA

(Ren et al., 2023)

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 4 )

Allele

Disease

Interaction

References

HDAC3^HMS00087

model of cardiomyopathy

is ameliorated by HDAC3^K26A.RR

(Ren et al., 2023)

is ameliorated by HDAC3^WT.RR

(Ren et al., 2023)

HDAC3^{UAS.Tag:V5,Tag:polyHis}

ameliorates neurodegenerative disease

modeled by Zzzz\CGG^90.UAS.EGFP

(Todd et al., 2010)

HDAC3^WT.RR

ameliorates cardiomyopathy

modeled by HDAC3^HMS00087

(Ren et al., 2023)

HDAC3^K26A.RR

ameliorates cardiomyopathy

modeled by HDAC3^HMS00087

(Ren et al., 2023)

Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

HDAC3; histone deacetylase 3

12 of 14

605166

HDAC1; histone deacetylase 1

4 of 14

601241

HDAC2; histone deacetylase 2

4 of 14

605164

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

HDAC3 - Pvr

anti tag coimmunoprecipitation, peptide massfingerprinting

(Friedman et al., 2011)

HDAC3 - Smr

anti tag coimmunoprecipitation, anti tag western blot

(Tang et al., 2023)

HDAC3 - Smyd4-2

pull down, anti tag western blot, anti tag coimmunoprecipitation, autoradiography

(Thompson and Travers, 2008)

HDAC3 - brm

anti tag coimmunoprecipitation, anti tag western blot

(Koe et al., 2014)

HDAC3 - ebi

anti bait coimmunoprecipitation, western blot

(Qi et al., 2008)

HDAC3 - erm

anti tag coimmunoprecipitation, anti tag western blot, pull down

(Koe et al., 2014)

Summary of Genetic Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

HDAC3|Snr1

suppressible

brm

(Zraly et al., 2004)

HDAC3

enhanceable

erm

(Rives-Quinto et al., 2020)

HDAC3

enhanceable

ham

(Rives-Quinto et al., 2020)

suppressible

(Lv et al., 2012)

enhanceable

(Zraly et al., 2004)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

ham

enhanceable

HDAC3

(Rives-Quinto et al., 2020)

suppressible

(Lv et al., 2012)

suppressible

(Lv et al., 2012)

suppressible

(Lv et al., 2012)

enhanceable

(Zraly et al., 2004)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

69064

DroID - A comprehensive database of gene and protein interactions.

FBgn0025825

MIST (genetic) - An integrated Molecular Interaction Database

44446

MIST (protein-protein) - An integrated Molecular Interaction Database

44446

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.

Regulation of lipid metabolism by PPARalpha

External Data

Linkouts

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Class of Gene

gene_with_dicistronic_mRNA

(FlyBase Genome Annotators, 2013)

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-47.5

Cytogenetic map

83A4-83A4

Sequence location

3R:5,472,810..5,474,600 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

83A4-83A4

Limits computationally determined from genome sequence between P{PZ}Snr1⁰¹³¹⁹&P{PZ}Itp-r83A⁰⁵⁶¹⁶ and P{lacW}Atu^s1938

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

83A3-83A4

(Johnson, 1998.6.11)

83A3-83A4

(determined by in situ hybridisation)

(Johnson et al., 1998)

Experimentally Determined Recombination Data

Location

3-47.5

(FlyBase, 2016)

3-44.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (16)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

55069

w^*; P{UAS-HDAC3.H140A}3-2

55071

P{UAS-HDAC3.H140A}3-10, w^*

55077

w^*; P{UAS-HDAC3.N}2a-1/CyO

32247

w^*; P{UAS-HDAC3.V5}attP24/CyO

31633

y¹ v¹; P{TRiP.JF01420}attP2

55078

w^*; P{UAS-HDAC3.N}2a-6/TM3, Sb¹

55070

w^*; P{UAS-HDAC3.H140A}3-5/TM3, Sb¹

34778

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00087}attP2

NIG-Fly

2128R-2

P{NIG.2128R}2

HMS00087

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00087}attP2

VDRC

v107073

P{KK102732}VIE-260B

v20814

w¹¹¹⁸; P{GD9732}v20814

More stocks available...

Genomic Clones (21)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (24)

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

LD23745

Other clones

DPiM_LD23745

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0025825

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0025825

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

S2 cells which have been treated with dsRNA made from templates generated with primers directed against Hdac3 show inhibition of cell growth.

(Foglietti et al., 2006)

Relationship to Other Genes

Source for database merge of

Source for merge of: HDAC3 CG2128

(Bayraktaroglu, 2000.4.17)

Additional comments

One or more of the processed

(FlyBase Genome Annotators, 2013)

transcripts for these genes contain two non-overlapping open reading frames (ORFs). The non-overlapping

(FlyBase Genome Annotators, 2013)

ORFs are represented by Hdac3 (FBgn0025825), CG45100 (FBgn0266539).

(FlyBase Genome Annotators, 2013)

Nomenclature History

Source for database identify of

Source for identity of: HDAC3 Hdac3

(FlyBase, 2009-)

Nomenclature comments

Renamed from 'Hdac3' to 'HDAC3' to be consistent with the format of the other D. melanogaster HDAC genes.

(FlyBase, 2009-)

Etymology

Synonyms and Secondary IDs (14)

Reported As

Symbol Synonym

CG2128

(Lin et al., 2018, Hosono et al., 2015, Ni et al., 2011.7.19, Ardehali et al., 2009, Keleman et al., 2009.8.5, Perkins et al., 2009, Hayden and Bosco, 2008, Ni et al., 2008, Foglietti et al., 2006)

DHDAC3

(Foglietti et al., 2006)

DmHDAC3

(Chen and Courey, 2000)

Dromel_CG2128_FBtr0078767_hdac3_mORF

(Hayden and Bosco, 2008)

HDAC

(Padmanabhan et al., 2006, Guenther and Lazar, 2001, Jones and Kadonaga, 2000)

HDAC3

Hdac 3

(Davis et al., 2011)

Hdac3

(Tang et al., 2023, Prakash et al., 2022, Weina et al., 2022, Schwartz et al., 2016, Alkhori et al., 2014, Nybakken, 2014.2.28, FlyBase Genome Annotators, 2013, Handler et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Lim and Thiery, 2012, Lv et al., 2012, Friedman et al., 2011, Gan et al., 2010, Li et al., 2010, Dworkin et al., 2009, Hayden and Bosco, 2008)

dHDAC3

(Todd et al., 2010, Scharf et al., 2009, Thompson and Travers, 2008, Kim et al., 2005, Taylor-Harding et al., 2004, Barlow et al., 2001, Bornemann et al., 2001, Johnson, 1998.6.11, Johnson et al., 1998)

dmHDA402

(Pandey et al., 2002)

hdac3

(Rajan et al., 2021, Amcheslavsky et al., 2014, Kirilly et al., 2011, Zhu et al., 2008)

Name Synonyms

Hdac3

Histone Deacetylase-3

(Zhu et al., 2008)

Histone deacetylase 3

(Hayden and Bosco, 2008)

histone deacetylase 3

(Lv et al., 2012, Li et al., 2010)

Secondary FlyBase IDs

FBgn0037331

Datasets (1)

Study focus (1)

Experimental Role

Project

Project Type

Title

bait_protein

modENCODE_regulation_chromatin

genome binding

Genome-wide localization of chromatin factors by ChIP-chip and ChIP-Seq.

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 47 )

Sequence Crossreferences

NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.

44446

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

Q7KTS4

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

Q7KTS4

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0025825

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

44446/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0025825

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0025825

FlyMine - An integrated database for Drosophila genomics

FBgn0025825

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG2128

MARRVEL_MODEL - MARRVEL (model organism gene)

44446

Linkouts

BioGRID - A database of protein and genetic interactions.

69064

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0025825

DroID - A comprehensive database of gene and protein interactions.

FBgn0025825

DRSC - Results frm RNAi screens

FBgn0025825

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Hdac3_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0025825

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0025825

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG2128

Flygut - An atlas of the Drosophila adult midgut

FBgn0025825

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC006104

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

MIST (genetic) - An integrated Molecular Interaction Database

44446

MIST (protein-protein) - An integrated Molecular Interaction Database

44446

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.

Regulation of lipid metabolism by PPARalpha

References (128)

The following external sites may use different assemblies or annotations than FlyBase.

NA

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