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

Gene ID: 12660, updated on 8-Dec-2022

Summary

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
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Genomic context

See Chka in Genome Data Viewer
Location:
19 A; 19 3.57 cM
Exon count:
15
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (3901585..3944369)
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 microRNA 12192 Neighboring gene T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3 Neighboring gene NADH:ubiquinone oxidoreductase core subunit S8

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1)  1 citation
  • Targeted (1) 
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

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
PubMed 
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
PubMed 
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
 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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

Preferred Names
choline kinase alpha
Names
choline/ethanolamine kinase alpha
ethanolamine kinase
NP_001258425.1
NP_038518.2
XP_006531709.1
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_001271496.2NP_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
    O54804, Q9QX56
    Related
    ENSMUSP00000025760.7, ENSMUST00000025760.13
    Conserved Domains (2) summary
    PLN02236
    Location:95451
    PLN02236; choline kinase
    cd05156
    Location:107448
    ChoK_euk; Euykaryotic Choline Kinase
  2. NM_001410133.1NP_001397062.1  choline kinase alpha isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC133523
  3. NM_013490.5NP_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/Swiss-Prot
    O54804
    Related
    ENSMUSP00000071933.7, ENSMUST00000072055.13
    Conserved Domains (2) summary
    PLN02236
    Location:95433
    PLN02236; choline kinase
    cd05156
    Location:107430
    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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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..3944369
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  2. XM_011248599.4XP_011246901.1  choline kinase alpha isoform X2

    See identical proteins and their annotated locations for XP_011246901.1

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  3. XM_030250726.2XP_030106586.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  4. XM_030250725.2XP_030106585.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  5. XM_030250728.2XP_030106588.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  6. XM_030250727.2XP_030106587.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  7. XM_030250730.2XP_030106590.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  8. XM_006531646.1XP_006531709.1  choline kinase alpha isoform X1

    Conserved Domains (1) summary
    cd05156
    Location:107458
    ChoK_euk; Euykaryotic Choline Kinase
  9. XM_006531648.4XP_006531711.1  choline kinase alpha isoform X2

    See identical proteins and their annotated locations for XP_006531711.1

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  10. XM_030250729.2XP_030106589.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  11. XM_017318048.3XP_017173537.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  12. XM_030250731.2XP_030106591.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase
  13. XM_017318049.3XP_017173538.1  choline kinase alpha isoform X2

    Conserved Domains (1) summary
    cd05156
    Location:1276
    ChoK_euk; Euykaryotic Choline Kinase

RNA

  1. XR_388248.4 RNA Sequence

  2. XR_003952740.1 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.