FB2025_04 , released October 2, 2025
Gene: Dmel\ChAT
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General Information
Symbol
Dmel\ChAT
Species
D. melanogaster
Name
Choline acetyltransferase
Annotation Symbol
CG12345
Feature Type
FlyBase ID
FBgn0000303
Gene Model Status
Stock Availability
Enzyme Name (EC)
choline O-acetyltransferase (2.3.1.6)
Gene Summary
Choline acetyltransferase (ChAT) encodes a protein that catalyzes the biosynthesis of the neurotransmitter acetylcholine. It is considered to be a specific marker for cholinergic neurons. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)
Also Known As

Cha

Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
3-64
RefSeq locus
NT_033777 REGION:18705501..18732344
Sequence
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
Gene Ontology (GO) Annotations (9 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
inferred from mutant phenotype
inferred from direct assay
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from electronic annotation with InterPro:IPR000542
Biological Process (2 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
inferred from mutant phenotype
inferred from mutant phenotype
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000502016
inferred from biological aspect of ancestor with PANTHER:PTN000502016
Cellular Component (5 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in terminal bouton
inferred from direct assay
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
is_active_in cytoplasm
inferred from biological aspect of ancestor with PANTHER:PTN000502016
located_in cytosol
non-traceable author statement
is_active_in neuron projection
inferred from biological aspect of ancestor with PANTHER:PTN000502016
located_in nucleus
non-traceable author statement
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the carnitine/choline acetyltransferase family. (P07668)
Catalytic Activity (EC/Rhea)
choline O-acetyltransferase activity
choline + acetyl-CoA = acetylcholine + CoA (2.3.1.6)
RHEA 18821:
Summaries
Gene Snapshot
Choline acetyltransferase (ChAT) encodes a protein that catalyzes the biosynthesis of the neurotransmitter acetylcholine. It is considered to be a specific marker for cholinergic neurons. [Date last reviewed: 2019-03-07]
Gene Group (FlyBase)
O-ACETYLTRANSFERASES -
O-acetyltransferases catalyze the transfer of an acetyl group to a oxygen atom on the acceptor molecule.
Protein Function (UniProtKB)
Catalyzes the reversible synthesis of acetylcholine (ACh) from acetyl CoA and choline at cholinergic synapses.
(UniProt, P07668)
Phenotypic Description (Red Book; Lindsley and Zimm 1992)
Cha: Choline acetyltransferase (J.C. Hall)
Probable structural gene for choline acetyl transferase [ChAT, acetyl CoA-choline-O-acetyltransferase (EC 2.3.1.6)], which has been purified and whose molecular weight approximates 67 kilodaltons (Slemmon, Salvaterra, Crawford and Roberts, 1982, J. Biol. Chem. 257: 3847-52); monoclonal antibodies prepared and inhibit enzyme (Crawford, Slemmon, and Salvaterra, 1982, J. Biol. Chem. 257: 3853-56); homozygotes and hemizygotes for either of the original two non-conditionally mutant alleles, Chal1 or Chal2, show no detectable enzymatic activity as late embryos, which is when the mutants die; other non-conditional lethals at the locus not tested for lethal stage or ChAT activity; either of two temperature sensitive alleles, Chats1 or Chats2, causes a variety of phenotypic defects when hemizygous or homozygous: reduced viability at 25 and death at 29 (Chats1), reduced viability at 18 and death at 22 or above (Chats2) plus gradual but reversible decline of enzymatic activity and of acetylcholine levels following transfer of low-temperature reared Chats adults to 29-30 or above (Greenspan, 1980; Salvaterra and McCaman, 1985, J. Neurosci. 5: 903-10); correlated with decrements in these biochemical parameters (reversible on lowering temperature), are heat-induced abnormalities of general mobility, male courtship ability, plus electroretinogram (Greenspan, 1980), landing response (Gorczyca and Hall, 1985, Neurosci. Abstr. 11: 512), and of several elements of physiological responses made by thoracic indirect flight muscles following stimulation of giant fiber pathway, implying that certain interneuronal synapses in this pathway are cholinergic (Gorczyca and Hall, 1984, J. Neurogenet. 1: 289-313); whereas wild type exhibits two molecular forms of ChAT activity after isoelectric focusing, homogenates of Chats1 lead to a single form, and of Chats2 to two forms shifted to higher-than-normal pI (Salvaterra and McCaman, 1985); these two conditional Cha mutations also cause ChAT activity to have accentuated thermolability in vitro (Greenspan, 1980; Salvaterra and McCaman, 1985). Immunohistochemical staining of ChAT reveals wide distribution in CNS; this staining is strong in Chats1 at permissive temperature but diminishes after in-vivo heat treatment (Gorczyca and Hall, 1987, J. Neurosci. 7: 1361-69); Chats2 staining is poor even at permissive temperature and diminishes after heating the flies (Gorczyca and Hall, 1987). In situ hybridization to tissue sections detected transcriptional activity in most neuronal elements of the cell-rich areas of the cortical regions of the cerebrum and optic lobes; however, some cells in the lamina including the amacrine neurons showed no label. Highest expression is seen in laminar monopolar-cell region, and the cerebral cortical rind, and to a lesser degree, over cortical cells of medulla-lobula, the antennal sensory neurons, and the retinular-cell layer of the compound eye (Barber, Sugihara, Lee, Vaughn, and Salvaterra, 1989, J. Comp. Neurol. 280: 533-43). Immunolocalization of ChAT in the adult cephalic ganglion reveals weak staining in the lamina corresponding to the synaptic layer of photoreceptor cells 1-6 of the ommatidia, three layers of strong reaction corresponding to the synaptic layers in the medulla, and labeling of four layers in the lobula (Ikeda and Salvaterra, 1989, J. Comp. Neurol. 280: 283-90). In Chats1 staining seen at 19 but disappears by 120 hours after shift to 30; Chats2 shows reduced staining at 19 and none after 80 hours at 30.
Summary (Interactive Fly)

vesicular transport protein necessary for packaging the neurotransmitter acetylcholine into synaptic vesicles - expressed in premotor interneurons

Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\ChAT 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 P07668)

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

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

Shares 5' UTR with upstream gene.

Unconventional translation start (GUG) postulated; FBrf0052176.

Gene model reviewed during 5.54

Low-frequency RNA-Seq exon junction(s) not annotated.

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0089367
4011
721
FBtr0089368
2824
714
Additional Transcript Data and Comments
Reported size (kB)

4.0 (northern blot)

4 (northern blot)

Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
FBpp0088397
81.3
721
5.64
FBpp0088977
80.5
714
5.54
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)

67 (kD)

Comments
External Data
Subunit Structure (UniProtKB)

The 54 kDa and 13 kDa chains exist as a heterodimer.

(UniProt, P07668)
Post Translational Modification

The N-terminus of choline O-acetyltransferase 67 kDa and 54 kDa chains are blocked.

(UniProt, P07668)
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

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

External Data
Crossreferences
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).

-0.70

Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
RNase protection, primer extension, SI map
Stage
Tissue/Position (including subcellular localization)
Reference
RT-PCR
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data

VAChT and Cha transcripts are detected in heads and bodies of adult flies. The ratios of the two transcripts vary in different samples indicating that they are differentially regulated despite sharing a common first exon.

Cha transcripts were detected in adult head RNA.

Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data

ChAT co-localizes with expression driven by ScerGAL4S3.Hug in larval Hugin neuron of the protocerebrum, and larval Hugin neuron of the ventral nerve cord/larval Hugin neuron of the ventral nerve cord as well as, weakly, larval Hugin neuron of the corpus cardiacum.

Cha protein labels a subset of neurons in the adult medulla cortex, including the medullary intrinsic neuron Mi1.

Cha protein labels the axonal projections in the central brain of Rh5 and Rh6 photoreceptors of Bolwig organ.

Cha protein is expressed in a subset of neurons of the lamina, medulla, lobula and lobula plate.

ChAT is expressed at the junction of anterior midgut and acid-secreting portion of the larval midgut. Expression does not overlap that of ScerGAL4ChAT.7.4 in the midgut.

Expression of Cha is seen in both large and small monopolar neurons of the lamina.

Cha protein has widespread expression in the ventral nerve cord and it is in close apposition to the processes of neurons labelled by ScerGAL4Ccap.PP.

Cha protein is expressed in the presynaptic terminals in the ventral nerve cord, in a mutually exclusive pattern to Ace protein, and colocalising with VAChT protein.

The axon terminals of Bolwig's nerve that contact the dendritic arborizations of the lateral neurons (LNs) are immunopositive for Cha.

Marker for
Subcellular Localization
CV Term
Evidence
References
located_in terminal bouton
inferred from direct assay
Expression Deduced from Reporters
Stage
Tissue/Position (including subcellular localization)
Reference
Stage
Tissue/Position (including subcellular localization)
Reference
adult doublesex pCd (male) neuron

Comment: when combined with P{R41A01-p65.AD} (combination referred to as 'Chat ∩ R41A01')

neuron | subset of adult central nervous system

Comment: when combined with P{R41A01-p65.AD} (combination referred to as 'Chat ∩ R41A01')

Stage
Tissue/Position (including subcellular localization)
Reference
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{ChAT.7.4kb-lacZ}
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{ChAT-dsRed.7347}
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{ChAT-GAL4.1.2}
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{ChAT-GAL4.7.4}
Stage
Tissue/Position (including subcellular localization)
Reference
ellipsoid body

Comment: strong expression

adult mushroom body

Comment: strong expression

eye

Comment: strong expression

Reporter: P{ChAT-GAL4.DBD}
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{ChAT-GAL4.U}
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{ChAT-LexA.GAD}
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{GawB}ChATNP4784
Stage
Tissue/Position (including subcellular localization)
Reference
Reporter: P{GawB}NP1131
Stage
Tissue/Position (including subcellular localization)
Reference
Stage
Tissue/Position (including subcellular localization)
Reference
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\ChAT in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 13-16
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 47 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 24 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of ChAT
Transgenic constructs containing regulatory region of ChAT
Aberrations (Deficiencies and Duplications) ( 7 )
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
Sterility
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
eye photoreceptor cell & axon & pupa | somatic clone | conditional ts
Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (7)
14 of 14
Yes
Yes
6 of 14
No
No
2 of 14
No
No
1  
2 of 14
No
No
2 of 14
No
No
1  
2 of 14
No
No
1  
2 of 14
No
No
1  
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (7)
13 of 14
Yes
Yes
5 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
Mus musculus (laboratory mouse) (7)
14 of 14
Yes
Yes
5 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
Xenopus tropicalis (Western clawed frog) (12)
8 of 13
Yes
Yes
6 of 13
No
Yes
4 of 13
No
No
3 of 13
No
No
2 of 13
No
No
1 of 13
No
No
1 of 13
No
Yes
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
Yes
1 of 13
No
No
Danio rerio (Zebrafish) (14)
14 of 14
Yes
Yes
6 of 14
No
No
5 of 14
No
No
4 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
1 of 14
No
Yes
1 of 14
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (11)
12 of 14
Yes
Yes
5 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
2 of 14
No
No
Anopheles gambiae (African malaria mosquito) (5)
12 of 12
Yes
Yes
Arabidopsis thaliana (thale-cress) (1)
1 of 13
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (3)
9 of 13
Yes
No
2 of 13
No
No
1 of 13
No
No
Schizosaccharomyces pombe (Fission yeast) (0)
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:ChAT. Refer to their site for version information.
Paralogs
Paralogs (via DIOPT v9.1)
Drosophila melanogaster (Fruit fly) (6)
10 of 13
10 of 13
9 of 13
5 of 13
4 of 13
4 of 13
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 1 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 1 )
    Allele
    Disease
    Interaction
    References
    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.
    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
    Summary of Genetic Interactions
    Interaction Browsers

    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    External Data
    Subunit Structure (UniProtKB)
    The 54 kDa and 13 kDa chains exist as a heterodimer.
    (UniProt, P07668 )
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    FlyBase
    External Links
    KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.
    Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.
    External Data
    Linkouts
    KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
    Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
    Class of Gene
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3R
    Recombination map
    3-64
    Cytogenetic map
    Sequence location
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    91C1-91C5
    Limits computationally determined from genome sequence between P{PZ}sprd05284 and P{PZ}cdi07013&P{lacW}nosj3B6
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    91B8-91C3
    (determined by in situ hybridisation)
    91B-91D
    (determined by in situ hybridisation)
    Experimentally Determined Recombination Data
    Location

    3-64.6

    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (41)
    Genomic Clones (34)
    cDNA Clones (30)
     

    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
    Other clones
      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.

      cDNA Clones, End Sequenced (ESTs)
      RNAi and Array Information
      Linkouts
      DRSC - Results frm RNAi screens
      Antibody Information
      Laboratory Generated Antibodies
      Commercially Available Antibodies
       
      Developmental Studies Hybridoma Bank - Monoclonal antibodies for use in research
      Cell Line Information
      Publicly Available Cell Lines
       
        Other Stable Cell Lines
         
          Other Comments

          The effect of restrictive temperature on the in vivo expression of Cha mRNA and immunohistochemical observations of the central brain indicate Cha expression is differentially regulated in particular cholinergic neurons in response to a temperature shift.

          Analysis of Cha constructs containing different lengths of 5' flanking sequences has defined a 0.3kb region which is essential for rescuing the Cha lethal mutant phenotype.

          The cis-regulatory regions involved in expression of Cha have been analysed using germline transformants. The 5' flanking DNA of Cha can be divided into several separable positive and negative regulatory regions, which define various subsets of cholinergic neurons in the nervous system.

          A complete Cha cDNA is able to direct the expression of hydrophilic and amphiphilic enzyme activity in Xenopus oocyte.

          Proper expression of Cha requires at least 7.4kb of upstream region.

          Homozygotes and hemizygotes for either of the original two non-conditionally mutant alleles, Df(3R)Cha9 or Chal2, show no detectable choline acetyl transferase enzymatic activity as late embryos, which is when the mutants die; Either of two temperature-sensitive alleles, Chats1 or Chats2, causes a variety of phenotypic defects when hemizygous or homozygous: reduced viability at 25oC and death at 29oC (Chats1), reduced viability at 18oC and death at 22oC or above (Chats2). Chats1 or Chats2 show heat-induced abnormalities of general mobility and male courtship ability.

          Recombinant Cha enzyme shares the same kinetic properties and same catalytic residues as the enzyme from a variety of different sources.

          A major point of regulation of Cha expression may occur at the transcriptional level.

          The site of cleavage of the 67kD enzyme that gives rise to the clipped enzyme polypeptide has been determined. The cleavage site has identified an important functional domain and may be the result of cellular processing.

          Immunohistochemical staining of ChAT reveals wide distribution in CNS; this staining is strong in Chats1 at permissive temperature but diminishes after in-vivo heat treatment (FBrf0046829); Chats2 staining is poor even at permissive temperature and diminishes after heating the flies.

          Chats1 or Chats2 show heat-induced abnormalities in the landing response.

          Whereas wild type exhibits two molecular forms of ChAT activity after isoelectric focusing, homogenates of Chats1 lead to a single form and of Chats2 to two forms shifted to higher-than-normal pI. Chats1 and Chats2 also cause ChAT activity to have accentuated thermolability in vitro, plus gradual but reversible decline of enzymatic activity and of acetylcholine levels following transfer of low-temperature reared mutants to 29-30oC or above.

          Chats1 or Chats2 show heat-induced abnormalities of several elements of physiological responses made by thoracic indirect flight muscles following stimulation of giant fiber pathway, implying that certain interneuronal synapses in this pathway are cholinergic.

          Chats1 or Chats2 show heat-induced abnormalities in the electroretinogram.

          Relationship to Other Genes
          Source for database merge of
          Additional comments

          One or more of the processed transcripts for this gene share(s) untranslated sequences with a transcript of an adjacent gene, but encode(s) a single open reading frame (ORF). The non-overlapping ORFs that share untranslated sequences are represented by Cha and VAChT.

          Cha and VAChT share a common first exon. The remainder of the VAChT transcript contains a single coding exon residing entirely within the first intron of Cha. The relative levels of Cha and VAChT transcript differ in different tissues or Cha mutants indicating independent regulation of Cha and VAChT transcripts may occur post-transcriptionally.

          Nomenclature History
          Source for database identify of

          Source for identity of: ChAT Cha

          Nomenclature comments

          The gene symbol "Cha" has been changed to "ChAT" in order to reflect the clear preference in the literature, and also to reduce confusion with the "cha" ("chaff") gene symbol, from which it differed only by case.

          Etymology
          Synonyms and Secondary IDs (23)
          Reported As
          Symbol Synonym
          Cat
          ChAT
          (Lehman et al., 2025, Chvilicek et al., 2024, Jiang et al., 2024, Ko et al., 2024, Odierna et al., 2024, Chen et al., 2023, Lee and Lim, 2023, Maiya et al., 2023, Petsakou et al., 2023, Sun et al., 2023, Beaver et al., 2022, Chockley et al., 2022, Gregor et al., 2022, Chow et al., 2021, Pagni et al., 2021, Rosenthal and Yuan, 2021, Simon and Konstantinides, 2021, Wang et al., 2021, Chvilicek et al., 2020, Damulewicz et al., 2020, Eschbach et al., 2020, Estacio-Gómez et al., 2020, Gao et al., 2020, Kondo et al., 2020, Morimoto et al., 2020, Omamiuda-Ishikawa et al., 2020, Saikumar et al., 2020, Yalgin et al., 2020, Alekseyenko et al., 2019, Deng et al., 2019, Dolan et al., 2019, Hamid et al., 2019, Khuong et al., 2019, Kong et al., 2019, Ni et al., 2019, Palavicino-Maggio et al., 2019, Rao and Deng, 2019.10.23, Shih et al., 2019, Dey and Ray, 2018, Fisher et al., 2017, Keleş and Frye, 2017, Kulkarni et al., 2017, Liao et al., 2017, Transgenic RNAi Project members, 2017-, Huang et al., 2016, Kidd and Lieber, 2016, Liu and Bossing, 2016, Pankova and Borst, 2016, Schlegel et al., 2016, Karuppudurai et al., 2014, Mauss et al., 2014, Selcho et al., 2014, Karsai et al., 2013, Pech et al., 2013, Yi et al., 2013, Sadananda et al., 2012, Zwarts et al., 2012, Hasegawa et al., 2011, Kahsai and Winther, 2011, Liu et al., 2011, Séjourné et al., 2011, Thum et al., 2011, Varija Raghu et al., 2011, Colodner and Feany, 2010, de Haro et al., 2010, Nicolaï et al., 2010, Pauls et al., 2010, Pauls et al., 2010, Doodhi et al., 2009, Johard et al., 2008, Kolodziejczyk et al., 2008, Vömel and Wegener, 2007, Ashraf et al., 2006, Baqri et al., 2006, Ramaekers et al., 2005, Yang and Kunes, 2004, Yasuyama, 2003, Yasuyama et al., 2003, Lee and Salvaterra, 2002, Malpel et al., 2002, Python and Stocker, 2002, Yasuyama et al., 2002, Lee et al., 2001, Salvaterra and Kitamoto, 2001, Yasuyama et al., 2001, Certel et al., 2000, Kitamoto et al., 2000, Yao et al., 2000, Bowman et al., 1999, Cole, 1999, Lee and O'Dowd, 1999, Ray et al., 1999, Yasuyama and Meinertzhagen, 1999, Yasuyama and Salvaterra, 1999, Kitamoto et al., 1998, Pahud et al., 1998, Kitamoto and Salvaterra, 1995, Kitamoto and Salvaterra, 1995, Kitamoto et al., 1995, Pahud et al., 1995, Raeber et al., 1995, Yasuyama et al., 1995, Salem et al., 1994, Salem et al., 1994, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Sugihara, 1994.3.29, Wu and Hersh, 1994, Carbini and Hersh, 1993, Wu et al., 1993, Kitamoto et al., 1992, Salem and Eder-Colli, 1992, Salvaterra et al., 1991, Sugihara et al., 1991, Carbini et al., 1990, Salem et al., 1990)
          l(3)91Cc
          Secondary FlyBase IDs
          • FBgn0064131
          Datasets (0)
          Study focus (0)
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          Result
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          External Crossreferences and Linkouts ( 63 )
          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.
          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.
          UniProt/Swiss-Prot - Manually annotated and reviewed 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.
          BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
          DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
          EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
          FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
          FlyMine - An integrated database for Drosophila genomics
          KEGG Genes - Molecular building blocks of life in the genomic space.
          MARRVEL_MODEL - MARRVEL (model organism gene)
          Linkouts
          Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
          DroID - A comprehensive database of gene and protein interactions.
          DRSC - Results frm RNAi screens
          Developmental Studies Hybridoma Bank - Monoclonal antibodies for use in research
          FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
          FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
          Flygut - An atlas of the Drosophila adult midgut
          FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
          iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
          Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
          KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.
          KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
          MIST (protein-protein) - An integrated Molecular Interaction Database
          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.
          References (369)