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Chka choline kinase alpha [ Mus musculus (house mouse) ]

Gene ID: 12660, updated on 21-Apr-2024

Summary

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Official Symbol
Chkaprovided by MGI
Official Full Name
choline kinase alphaprovided by MGI
Primary source
MGI:MGI:107760
See related
Ensembl:ENSMUSG00000024843 AllianceGenome:MGI:107760
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
CK; EK; Chk; ChoK; EtnK-alpha; CK/EK-alpha; Chetk-alpha
Summary
Enables choline kinase activity; cholinesterase activity; and identical protein binding activity. Acts upstream of or within phosphatidylcholine biosynthetic process. Predicted to be active in cytoplasm. Is expressed in intestine; metanephros; neural retina; and telencephalon. Orthologous to human CHKA (choline kinase alpha). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in duodenum adult (RPKM 12.5), small intestine adult (RPKM 12.2) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
19 A; 19 3.57 cM
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (3901585..3944368)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (3851585..3894369)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor pseudogene Neighboring gene STARR-seq mESC enhancer starr_45331 Neighboring gene STARR-positive B cell enhancer mm9_chr19:3851584-3851885 Neighboring gene microRNA 12192 Neighboring gene STARR-seq mESC enhancer starr_45333 Neighboring gene STARR-seq mESC enhancer starr_45334 Neighboring gene T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3 Neighboring gene STARR-positive B cell enhancer ABC_E9987 Neighboring gene NADH:ubiquinone oxidoreductase core subunit S8

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Early embryonic lethality caused by disruption of the gene for choline kinase alpha, the first enzyme in phosphatidylcholine biosynthesis. Wu G, et al. J Biol Chem, 2008 Jan 18. PMID 18029352, Free PMC Article
  2. Phosphatidylcholine biosynthesis during neuronal differentiation and its role in cell fate determination. Marcucci H, et al. J Biol Chem, 2010 Aug 13. PMID 20525991, Free PMC Article
  3. Differential expression of choline kinase isoforms in skeletal muscle explains the phenotypic variability in the rostrocaudal muscular dystrophy mouse. Wu G, et al. Biochim Biophys Acta, 2010 Apr. PMID 20026284
  4. Induction of choline kinase alpha by carbon tetrachloride (CCl4) occurs via increased binding of c-jun to an AP-1 element. Aoyama C, et al. Biochim Biophys Acta, 2007 Sep. PMID 17728180
  5. Generation and characterization of monoclonal antibodies against choline kinase alpha and their potential use as diagnostic tools in cancer. Gallego-Ortega D, et al. Int J Oncol, 2006 Aug. PMID 16820874

See all (36) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. hepatic phosphatidylcholine is regulated by the circadian clock through a Bmal1-Rev-erbalpha-Chkalpha axis
    Title: The hepatic circadian clock regulates the choline kinase α gene through the BMAL1-REV-ERBα axis.
  2. Enforced expression of either CK(alpha) or CCTalpha increased the rate of synthesis and the amount of PtdCho, and these cells initiated neuronal differentiation.
    Title: Phosphatidylcholine biosynthesis during neuronal differentiation and its role in cell fate determination.
  3. Lack of muscle degeneration in forelimbs of Chkb(-/-) mice is due to abundant choline kinase alpha and the stable homeostasis of phosphatidylcholine.
    Title: Differential expression of choline kinase isoforms in skeletal muscle explains the phenotypic variability in the rostrocaudal muscular dystrophy mouse.
  4. Chka is an essential gene for early embryonic development, but adult mice do not require full expression of the gene for normal levels of phosphatidylcholine.
    Title: Early embryonic lethality caused by disruption of the gene for choline kinase alpha, the first enzyme in phosphatidylcholine biosynthesis.
  5. Data suggest that the choline kinase alpha promoter has a distal element (-875/-867) that binds c-jun and the binding of c-jun is enhanced by treatment with CCl4.
    Title: Induction of choline kinase alpha by carbon tetrachloride (CCl4) occurs via increased binding of c-jun to an AP-1 element.
  6. ChoK may have a role in carcinogenesis
    Title: Generation and characterization of monoclonal antibodies against choline kinase alpha and their potential use as diagnostic tools in cancer.
  7. Full-length cDNAs or their truncated or alanine-mutated versions for mouse CK-alpha1 and CK-beta were expressed in COS-7 cells.
    Title: Deletion and alanine mutation analyses for the formation of active homo- or hetero-dimer complexes of mouse choline kinase-alpha and -beta.
  8. Experimental evidence for the presence of heteromeric ChoK/EtnK in any source. The activity of ChoK/EtnK in the cell is controlled not only by the level of each isoform but also by their combination to form the active oligomer complex.
    Title: Expression and characterization of the active molecular forms of choline/ethanolamine kinase-alpha and -beta in mouse tissues, including carbon tetrachloride-induced liver.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1)  1 citation
  • Targeted (1) 
  • Endonuclease-mediated (4) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding ISO
Inferred from Sequence Orthology
more info
  
enables choline binding ISO
Inferred from Sequence Orthology
more info
  
enables choline kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables choline kinase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables choline kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables cholinesterase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ethanolamine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ethanolamine kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
enables protein tyrosine kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in CDP-choline pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within CDP-choline pathway IDA
Inferred from Direct Assay
more info
  
involved_in cellular response to glucose starvation ISO
Inferred from Sequence Orthology
more info
  
involved_in choline metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in ethanolamine metabolic process ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_positive_effect lipid droplet disassembly ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within lipid metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within phosphatidylcholine biosynthetic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in phosphatidylcholine biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in phosphatidylethanolamine biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in phosphatidylethanolamine biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within phospholipid biosynthetic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within phosphorylation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in lipid droplet ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
choline kinase alpha
Names
choline/ethanolamine kinase alpha
ethanolamine kinase
NP_001258425.1
NP_001397062.1
NP_038518.2
XP_006531711.1
XP_011246901.1
XP_017173537.1
XP_017173538.1
XP_030106584.1
XP_030106585.1
XP_030106586.1
XP_030106587.1
XP_030106588.1
XP_030106589.1
XP_030106590.1
XP_030106591.1

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)

  1. NM_001271496.2 → NP_001258425.1  choline kinase alpha isoform 3

    See identical proteins and their annotated locations for NP_001258425.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate in-frame exon, compared to variant 1. The encoded isoform (3) is longer than isoform 1.
    Source sequence(s)
    AC133523
    Consensus CDS
    CCDS70913.1
    UniProtKB/Swiss-Prot
    G5E853, O54804, Q8BPL3, Q8BPW6, Q9CXP3, Q9QX56
    UniProtKB/TrEMBL
    Q3TLJ9
    Related
    ENSMUSP00000025760.7, ENSMUST00000025760.13
    Conserved Domains (2) summary
    PLN02236
    Location:95 → 451
    PLN02236; choline kinase
    cd05156
    Location:107 → 448
    ChoK_euk; Euykaryotic Choline Kinase

  2. NM_001410133.1 → NP_001397062.1  choline kinase alpha isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC133523

  3. NM_013490.5 → NP_038518.2  choline kinase alpha isoform 1

    See identical proteins and their annotated locations for NP_038518.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AC133523
    Consensus CDS
    CCDS29400.1
    UniProtKB/TrEMBL
    Q3TLJ9
    Related
    ENSMUSP00000071933.7, ENSMUST00000072055.13
    Conserved Domains (2) summary
    PLN02236
    Location:95 → 433
    PLN02236; choline kinase
    cd05156
    Location:107 → 430
    ChoK_euk; Euykaryotic Choline Kinase

RNA

  1. NR_073190.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC133523
    Related
    ENSMUST00000128694.8

  2. NR_176954.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC133523

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000085.7 Reference GRCm39 C57BL/6J

    Range
    3901585..3944368
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030250724.2 → XP_030106584.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  2. XM_011248599.4 → XP_011246901.1  choline kinase alpha isoform X2

    See identical proteins and their annotated locations for XP_011246901.1

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  3. XM_030250726.2 → XP_030106586.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  4. XM_030250725.2 → XP_030106585.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  5. XM_030250728.2 → XP_030106588.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  6. XM_030250727.2 → XP_030106587.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  7. XM_030250730.2 → XP_030106590.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  8. XM_006531648.4 → XP_006531711.1  choline kinase alpha isoform X2

    See identical proteins and their annotated locations for XP_006531711.1

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  9. XM_030250729.2 → XP_030106589.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  10. XM_017318048.3 → XP_017173537.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  11. XM_030250731.2 → XP_030106591.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

  12. XM_017318049.3 → XP_017173538.1  choline kinase alpha isoform X2

    UniProtKB/TrEMBL
    Q99KD4
    Conserved Domains (1) summary
    cd05156
    Location:1 → 276
    ChoK_euk; Euykaryotic Choline Kinase

RNA

  1. XR_388248.4 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001025566.1: Suppressed sequence

    Description
    NM_001025566.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O54804.3 GenPept UniProtKB/Swiss-Prot:O54804

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