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

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 located in lipid droplet. Predicted to be active in cytosol. Is expressed in several structures, including future brain; gut; liver; metanephros; and neural retina. Orthologous to human CHKA (choline kinase alpha). [provided by Alliance of Genome Resources, Nov 2024]
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

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_000085.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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.
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.
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.
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.
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.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (4)
Gene trapped (1) 1 citation
Targeted (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH125233 (e-PCR)
- UniSTS:162055

Chk (e-PCR), detects polymorphism
- UniSTS:141337

D10Mit157.2 (e-PCR), detects polymorphism
- UniSTS:126061

UniSTS:225274 (e-PCR)
- UniSTS:225274

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
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 choline kinase activity	ISS Inferred from Sequence or Structural Similarity 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 ethanolamine kinase activity	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine kinase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in CDP-choline pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in CDP-choline pathway	IEA Inferred from Electronic Annotation more info
involved_in cellular response to glucose starvation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to glucose starvation	ISS Inferred from Sequence or Structural Similarity 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_positive_effect lipid droplet disassembly	ISS Inferred from Sequence or Structural Similarity 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 phosphatidylcholine biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in phosphatidylethanolamine biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in phosphatidylethanolamine biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in phosphatidylethanolamine biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in phosphatidylethanolamine biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in 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
is_active_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
located_in lipid droplet	IEA Inferred from Electronic Annotation more info
located_in lipid droplet	ISO Inferred from Sequence Orthology more info
located_in lipid droplet	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: choline kinase alpha

Names: choline/ethanolamine kinase alpha; ethanolamine kinase

NP_001258425.1

EC 2.7.1.32

EC 2.7.1.82

NP_001397062.1

EC 2.7.1.32

EC 2.7.1.82

NP_038518.2

EC 2.7.1.32

EC 2.7.1.82

XP_006531711.1

EC 2.7.1.32

EC 2.7.1.82

XP_011246901.1

EC 2.7.1.32

EC 2.7.1.82

XP_017173537.1

EC 2.7.1.32

EC 2.7.1.82

XP_017173538.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106584.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106585.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106586.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106587.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106588.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106589.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106590.1

EC 2.7.1.32

EC 2.7.1.82

XP_030106591.1

EC 2.7.1.32

EC 2.7.1.82

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)

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

Status: VALIDATED

Source sequence(s)

AC133523
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

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
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

NC_000085.7 Reference GRCm39 C57BL/6J

Range

3901585..3944368

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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
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
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
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
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
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
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
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
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
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
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

XR_388248.4 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

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.