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Aliases for CHAT Gene

Aliases for CHAT Gene

  • Choline O-Acetyltransferase 2 3 5
  • Choline Acetylase 3 4
  • EC 2.3.1.6 4 61
  • CHOACTASE 3 4
  • Acetyl CoA:Choline O-Acetyltransferase 3
  • Choline Acetyltransferase 2
  • EC 2.3.1 61
  • CMS1A2 3
  • CMS1A 3
  • CMS6 3
  • ChAT 4

External Ids for CHAT Gene

Previous GeneCards Identifiers for CHAT Gene

  • GC10P049721
  • GC10P050709
  • GC10P050161
  • GC10P050487
  • GC10P050817
  • GC10P045081

Summaries for CHAT Gene

Entrez Gene Summary for CHAT Gene

  • This gene encodes an enzyme which catalyzes the biosynthesis of the neurotransmitter acetylcholine. This gene product is a characteristic feature of cholinergic neurons, and changes in these neurons may explain some of the symptoms of Alzheimer's disease. Polymorphisms in this gene have been associated with Alzheimer's disease and mild cognitive impairment. Mutations in this gene are associated with congenital myasthenic syndrome associated with episodic apnea. Multiple transcript variants encoding different isoforms have been found for this gene, and some of these variants have been shown to encode more than one isoform. [provided by RefSeq, May 2010]

GeneCards Summary for CHAT Gene

CHAT (Choline O-Acetyltransferase) is a Protein Coding gene. Diseases associated with CHAT include Myasthenic Syndrome, Congenital, 6, Presynaptic and Congenital Myasthenic Syndrome. Among its related pathways are Neurotransmitter Release Cycle and Sudden Infant Death Syndrome (SIDS) Susceptibility Pathways. GO annotations related to this gene include transferase activity, transferring acyl groups and choline O-acetyltransferase activity. An important paralog of this gene is CRAT.

UniProtKB/Swiss-Prot for CHAT Gene

  • Catalyzes the reversible synthesis of acetylcholine (ACh) from acetyl CoA and choline at cholinergic synapses.

Gene Wiki entry for CHAT Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHAT Gene

Genomics for CHAT Gene

Regulatory Elements for CHAT Gene

Enhancers for CHAT Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH10G049567 1.3 FANTOM5 Ensembl ENCODE 5.5 -40.2 -40190 2.2 TBP MXI1 TAF1 JUN MAX CEBPG RELA RFX5 CBX5 NFYB ERCC6 SLC18A3 CHAT PGBD3 HMGB1P50 GC10P049595
GH10G049690 0.6 ENCODE 10.3 +81.3 81275 0.2 HDAC2 BCL11A POLR2A POU5F1 CBX2 KDM1A EZH2 OGDHL MAPK6PS6 CHAT SLC18A3 C10orf53 GC10M049685
GH10G049649 0.5 Ensembl 12.1 +40.5 40506 0.4 MAX FOXP2 PRDM10 HNF4A YY1 SLC18A3 CHAT AGAP6 C10orf53
GH10G049689 0.5 ENCODE 10.3 +81.0 80975 0.2 HDAC2 POLR2A KDM1A EZH2 OGDHL MAPK6PS6 SLC18A3 CHAT C10orf53 GC10M049685
GH10G049658 0.3 FANTOM5 16.9 +49.8 49781 0.2 CHAT SLC18A3 C10orf53
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CHAT on UCSC Golden Path with GeneCards custom track

Genomic Location for CHAT Gene

Chromosome:
10
Start:
49,609,095 bp from pter
End:
49,665,104 bp from pter
Size:
56,010 bases
Orientation:
Plus strand

Genomic View for CHAT Gene

Genes around CHAT on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CHAT Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CHAT Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHAT Gene

Proteins for CHAT Gene

  • Protein details for CHAT Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P28329-CLAT_HUMAN
    Recommended name:
    Choline O-acetyltransferase
    Protein Accession:
    P28329
    Secondary Accessions:
    • A2BDF4
    • A2BDF5
    • Q16488
    • Q9BQ23
    • Q9BQ35
    • Q9BQE1

    Protein attributes for CHAT Gene

    Size:
    748 amino acids
    Molecular mass:
    82536 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for CHAT Gene

    Alternative splice isoforms for CHAT Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CHAT Gene

Selected DME Specific Peptides for CHAT Gene

P28329:
  • TPEALAFV
  • INFRRLSEGDLFTQLRKI
  • YGKTFIK
  • SELPAPRRLRWKCSP
  • LPVPPLQQ
  • KDSTNRDSLDMIERC
  • ALQLLHGGG
  • LISGVLSYK
  • GRVDNIR
  • LASSAEKLQ
  • RLVPTYESASIRRF
  • DMYLNNRLALPVNSSP
  • QFVVGRDG

Post-translational modifications for CHAT Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • R&D Systems Antibodies for CHAT (Choline Acetyltransferase/ChAT)

Domains & Families for CHAT Gene

Protein Domains for CHAT Gene

Suggested Antigen Peptide Sequences for CHAT Gene

Graphical View of Domain Structure for InterPro Entry

P28329

UniProtKB/Swiss-Prot:

CLAT_HUMAN :
  • Belongs to the carnitine/choline acetyltransferase family.
Family:
  • Belongs to the carnitine/choline acetyltransferase family.
genes like me logo Genes that share domains with CHAT: view

No data available for Gene Families for CHAT Gene

Function for CHAT Gene

Molecular function for CHAT Gene

GENATLAS Biochemistry:
choline acetyltransferase neurotransmitter acetylcholine catalyzing enzyme synthesis,expressed in the brain and spinal cord
UniProtKB/Swiss-Prot CatalyticActivity:
Acetyl-CoA + choline = CoA + O-acetylcholine.
UniProtKB/Swiss-Prot Function:
Catalyzes the reversible synthesis of acetylcholine (ACh) from acetyl CoA and choline at cholinergic synapses.

Enzyme Numbers (IUBMB) for CHAT Gene

Gene Ontology (GO) - Molecular Function for CHAT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004102 choline O-acetyltransferase activity TAS --
GO:0016740 transferase activity IEA --
GO:0016746 transferase activity, transferring acyl groups IEA --
genes like me logo Genes that share ontologies with CHAT: view
genes like me logo Genes that share phenotypes with CHAT: view

Human Phenotype Ontology for CHAT Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for CHAT Gene

MGI Knock Outs for CHAT:

Animal Model Products

miRNA for CHAT Gene

miRTarBase miRNAs that target CHAT

Inhibitory RNA Products

Flow Cytometry Products

No data available for Transcription Factor Targets and HOMER Transcription for CHAT Gene

Localization for CHAT Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CHAT gene
Compartment Confidence
nucleus 5
cytosol 5
peroxisome 3
plasma membrane 2
extracellular 2
cytoskeleton 2
mitochondrion 2

Gene Ontology (GO) - Cellular Components for CHAT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 10861222
GO:0005737 cytoplasm TAS 10861222
GO:0005829 cytosol TAS --
GO:0098793 presynapse IEA --
genes like me logo Genes that share ontologies with CHAT: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for CHAT Gene

Pathways & Interactions for CHAT Gene

genes like me logo Genes that share pathways with CHAT: view

SIGNOR curated interactions for CHAT Gene

Is activated by:

Gene Ontology (GO) - Biological Process for CHAT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006656 phosphatidylcholine biosynthetic process TAS --
GO:0007269 neurotransmitter secretion TAS --
GO:0042136 neurotransmitter biosynthetic process IEA --
genes like me logo Genes that share ontologies with CHAT: view

Drugs & Compounds for CHAT Gene

(58) Drugs for CHAT Gene - From: DrugBank, PharmGKB, ClinicalTrials, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Choline Approved Nutra Enzyme, substrate 154
Donepezil Approved Pharma 286
Nicotine Approved Pharma Antagonist, Target 1103
Olanzapine Approved, Investigational Pharma Antagonist 399
Acetylcholine Approved Pharma Full agonist, Agonist 805

(49) Additional Compounds for CHAT Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
acetyl-coa
  • Ac-CoA
  • Ac-Coenzyme A
  • Ac-S-CoA
  • Ac-S-Coenzyme A
  • Acetyl coenzyme-A
72-89-9
genes like me logo Genes that share compounds with CHAT: view

Transcripts for CHAT Gene

Unigene Clusters for CHAT Gene

Choline O-acetyltransferase:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CHAT Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b · 14c ^ 15 ^ 16 ^ 17 ^ 18a · 18b
SP1: - - -
SP2: - - - - -
SP3: - - - -
SP4:
SP5: -
SP6:

Relevant External Links for CHAT Gene

GeneLoc Exon Structure for
CHAT
ECgene alternative splicing isoforms for
CHAT

Expression for CHAT Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CHAT Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CHAT Gene

This gene is overexpressed in Brain - Putamen (basal ganglia) (x16.6), Brain - Caudate (basal ganglia) (x15.3), and Brain - Nucleus accumbens (basal ganglia) (x6.1).

Protein differential expression in normal tissues from HIPED for CHAT Gene

This gene is overexpressed in Monocytes (34.9), Tlymphocyte (20.1), and Placenta (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CHAT Gene



Protein tissue co-expression partners for CHAT Gene

NURSA nuclear receptor signaling pathways regulating expression of CHAT Gene:

CHAT

SOURCE GeneReport for Unigene cluster for CHAT Gene:

Hs.302002

Evidence on tissue expression from TISSUES for CHAT Gene

  • Nervous system(4.7)
  • Blood(4.3)
  • Eye(2.3)
  • Intestine(2)
  • Muscle(2)

Phenotype-based relationships between genes and organs from Gene ORGANizer for CHAT Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • digestive
  • immune
  • integumentary
  • nervous
  • respiratory
  • skeletal muscle
  • skeleton
Organs:
Head and neck:
  • brain
  • cranial nerve
  • eye
  • eyelid
  • face
  • head
  • jaw
  • larynx
  • mandible
  • maxilla
  • mouth
  • neck
  • nose
  • pharynx
  • skull
  • tongue
  • vocal cord
Thorax:
  • chest wall
  • diaphragm
  • esophagus
  • lung
  • rib
  • rib cage
  • sternum
Abdomen:
  • stomach
Limb:
  • ankle
  • digit
  • elbow
  • finger
  • foot
  • hand
  • hip
  • knee
  • lower limb
  • shoulder
  • toe
  • upper limb
  • wrist
General:
  • blood
  • peripheral nerve
  • peripheral nervous system
  • skin
  • spinal cord
  • white blood cell
genes like me logo Genes that share expression patterns with CHAT: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for CHAT Gene

Orthologs for CHAT Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CHAT Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CHAT 34 35
  • 99.1 (n)
cow
(Bos Taurus)
Mammalia CHAT 34 35
  • 88.37 (n)
dog
(Canis familiaris)
Mammalia CHAT 34 35
  • 87.58 (n)
rat
(Rattus norvegicus)
Mammalia Chat 34
  • 86.14 (n)
mouse
(Mus musculus)
Mammalia Chat 34 16 35
  • 85.98 (n)
oppossum
(Monodelphis domestica)
Mammalia CHAT 35
  • 84 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CHAT 35
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves CHAT 34 35
  • 72.26 (n)
lizard
(Anolis carolinensis)
Reptilia CHAT 35
  • 76 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia chat 34
  • 67.19 (n)
zebrafish
(Danio rerio)
Actinopterygii chat 34 35
  • 64.78 (n)
CHAT (2 of 2) 35
  • 58 (a)
OneToMany
zgc64220 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002370 34
  • 52.94 (n)
fruit fly
(Drosophila melanogaster)
Insecta Cha 36 34 35
  • 52.59 (n)
CG5122 36
  • 38 (a)
CG5265 36
  • 32 (a)
worm
(Caenorhabditis elegans)
Secernentea cha-1 36 34 35
  • 45.84 (n)
B0395.3 36
  • 34 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CAT2 35
  • 28 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 47 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14198 34
Species where no ortholog for CHAT was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CHAT Gene

ENSEMBL:
Gene Tree for CHAT (if available)
TreeFam:
Gene Tree for CHAT (if available)

Paralogs for CHAT Gene

Paralogs for CHAT Gene

(4) SIMAP similar genes for CHAT Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with CHAT: view

Variants for CHAT Gene

Sequence variations from dbSNP and Humsavar for CHAT Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs121912815 Pathogenic, Myasthenic syndrome, congenital, 6, presynaptic (CMS6) [MIM:254210] 49,620,546(+) CCCTG(C/G)CTGTC reference, missense
rs121912817 Pathogenic, Myasthenic syndrome, congenital, 6, presynaptic (CMS6) [MIM:254210] 49,651,888(+) GAATA(G/T)TAAAG reference, missense
rs121912819 Pathogenic, Myasthenic syndrome, congenital, 6, presynaptic (CMS6) [MIM:254210] 49,655,139(+) CATCC(A/G)CCGAT reference, missense
rs121912821 Pathogenic, Myasthenic syndrome, congenital, 6, presynaptic (CMS6) [MIM:254210] 49,649,618(+) CTCCT(C/T)GGCAG reference, missense
rs121912822 Pathogenic, Myasthenic syndrome, congenital, 6, presynaptic (CMS6) [MIM:254210] 49,646,651(+) CCAAT(C/T)GCTGG reference, missense

Structural Variations from Database of Genomic Variants (DGV) for CHAT Gene

Variant ID Type Subtype PubMed ID
esv1348586 CNV insertion 17803354
nsv1042677 CNV loss 25217958
nsv1134007 CNV deletion 24896259
nsv1145454 CNV deletion 24896259
nsv510217 OTHER sequence alteration 20534489
nsv550819 CNV loss 21841781
nsv950954 CNV deletion 24416366

Variation tolerance for CHAT Gene

Residual Variation Intolerance Score: 97.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.10; 87.70% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CHAT Gene

Human Gene Mutation Database (HGMD)
CHAT
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CHAT

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHAT Gene

Disorders for CHAT Gene

MalaCards: The human disease database

(25) MalaCards diseases for CHAT Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, Novoseek, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search CHAT in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

CLAT_HUMAN
  • Myasthenic syndrome, congenital, 6, presynaptic (CMS6) [MIM:254210]: A form of congenital myasthenic syndrome, a group of disorders characterized by failure of neuromuscular transmission, including pre-synaptic, synaptic, and post-synaptic disorders that are not of autoimmune origin. Clinical features are easy fatigability and muscle weakness affecting the axial and limb muscles (with hypotonia in early-onset forms), the ocular muscles (leading to ptosis and ophthalmoplegia), and the facial and bulbar musculature (affecting sucking and swallowing, and leading to dysphonia). The symptoms fluctuate and worsen with physical effort. CMS6 affected individuals have myasthenic symptoms since birth or early infancy, negative tests for anti-AChR antibodies, and abrupt episodic crises with increased weakness, bulbar paralysis, and apnea precipitated by undue exertion, fever, or excitement. CMS6 inheritance is autosomal recessive. {ECO:0000269 PubMed:11172068, ECO:0000269 PubMed:12756141}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for CHAT

Genetic Association Database (GAD)
CHAT
Human Genome Epidemiology (HuGE) Navigator
CHAT
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CHAT
genes like me logo Genes that share disorders with CHAT: view

No data available for Genatlas for CHAT Gene

Publications for CHAT Gene

  1. Variability of AChE, BChE, and ChAT genes in the late-onset form of Alzheimer's disease and relationships with response to treatment with Donepezil and Rivastigmine. (PMID: 18780301) Scacchi R. … Corbo R.M. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2009) 3 22 46 64
  2. Choline acetyltransferase variants and their influence in schizophrenia and olanzapine response. (PMID: 17503482) Mancama D. … Arranz M.J. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2007) 3 22 46 64
  3. Alzheimer's disease: case-control association study of polymorphisms in ACHE, CHAT, and BCHE genes in a Sardinian sample. (PMID: 17503475) Piccardi M. … Del Zompo M. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2007) 3 22 46 64
  4. A single nucleotide polymorphism in CHAT influences response to acetylcholinesterase inhibitors in Alzheimer's disease. (PMID: 16424819) Harold D. … Jones L. (Pharmacogenet. Genomics 2006) 3 22 46 64
  5. Substrate binding and catalytic mechanism of human choline acetyltransferase. (PMID: 17144655) Kim A.-R. … Shilton B.H. (Biochemistry 2006) 3 4 22 64

Products for CHAT Gene

Sources for CHAT Gene

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