CSNK2A1 casein kinase 2 alpha 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: CSNK2A1provided by HGNC
Official Full Name: casein kinase 2 alpha 1provided by HGNC
Primary source: HGNC:HGNC:2457
See related: Ensembl:ENSG00000101266 MIM:115440; AllianceGenome:HGNC:2457
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: CKII; Cka1; Cka2; CK2A1; OCNDS
Summary: Casein kinase II is a serine/threonine protein kinase that phosphorylates acidic proteins such as casein. It is involved in various cellular processes, including cell cycle control, apoptosis, and circadian rhythm. The kinase exists as a tetramer and is composed of an alpha, an alpha-prime, and two beta subunits. The alpha subunits contain the catalytic activity while the beta subunits undergo autophosphorylation. The protein encoded by this gene represents the alpha subunit. Multiple transcript variants encoding different protein isoforms have been found for this gene. [provided by RefSeq, Apr 2018]
Expression: Ubiquitous expression in testis (RPKM 33.5), brain (RPKM 25.8) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 20p13

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	20	NC_000020.11 (472498..543790, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	20	NC_060944.1 (516232..587494, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	20	NC_000020.10 (453142..524434, complement)

Chromosome 20 - NC_000020.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

CK2 activity is crucial for proper glucagon expression.
Title: CK2 activity is crucial for proper glucagon expression.
Inherited loss of function variant in CSNK2A1: the oldest reported cases of Okur-Chung syndrome in a single family.
Title: Inherited loss of function variant in CSNK2A1: the oldest reported cases of Okur-Chung syndrome in a single family.
Okur-Chung neurodevelopmental syndrome: Implications for phenotype and genotype expansion.
Title: Okur-Chung neurodevelopmental syndrome: Implications for phenotype and genotype expansion.
CSNK2A1 confers gemcitabine resistance to pancreatic ductal adenocarcinoma via inducing autophagy.
Title: CSNK2A1 confers gemcitabine resistance to pancreatic ductal adenocarcinoma via inducing autophagy.
A CK2 and SUMO-dependent, PML NB-involved regulatory mechanism controlling BLM ubiquitination and G-quadruplex resolution.
Title: A CK2 and SUMO-dependent, PML NB-involved regulatory mechanism controlling BLM ubiquitination and G-quadruplex resolution.
SLC39A10 promotes malignant phenotypes of gastric cancer cells by activating the CK2-mediated MAPK/ERK and PI3K/AKT pathways.
Title: SLC39A10 promotes malignant phenotypes of gastric cancer cells by activating the CK2-mediated MAPK/ERK and PI3K/AKT pathways.
P300 increases CSNK2A1 expression which accelerates colorectal cancer progression through activation of the PI3K-AKT-mTOR axis.
Title: P300 increases CSNK2A1 expression which accelerates colorectal cancer progression through activation of the PI3K-AKT-mTOR axis.
CKII Control of Axonal Plasticity Is Mediated by Mitochondrial Ca[2+] via Mitochondrial NCLX.
Title: CKII Control of Axonal Plasticity Is Mediated by Mitochondrial Ca(2+) via Mitochondrial NCLX.
Inhibition of CK2 mitigates Alzheimer's tau pathology by preventing NR2B synaptic mislocalization.
Title: Inhibition of CK2 mitigates Alzheimer's tau pathology by preventing NR2B synaptic mislocalization.
Long Non-Coding RNA KCNQ1OT1 Regulates Protein Kinase CK2 Via miR-760 in Senescence and Calorie Restriction.
Title: Long Non-Coding RNA KCNQ1OT1 Regulates Protein Kinase CK2 Via miR-760 in Senescence and Calorie Restriction.

Submit: New GeneRIF Correction See all GeneRIFs (304)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description	Tests
Okur-Chung neurodevelopmental syndrome MedGen: C4310739 OMIM: 617062 GeneReviews: Okur-Chung Neurodevelopmental Syndrome	not available

Copy number response

Description
Copy number response Haploinsufficency Little evidence for dosage pathogenicity (Last evaluated 2024-06-26) ClinGen Genome Curation PagePubMed Triplosensitivity No evidence available (Last evaluated 2024-06-26) ClinGen Genome Curation Page

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Rev	rev	HIV-1 Rev interacting protein, casein kinase 2 alpha 1 polypeptide (CSNK2A1), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with CSNK2A1 is decreased by RRE	PubMed
	rev	CK2 modulates the interaction of Rev with nucleolar phosphoprotein B23 by phosphorylating B23	PubMed
	rev	Rev activates CK2, an effect hypothesized to promote HIV-1 replication	PubMed
	rev	phosphorylation of Rev is dependent on the beta subunit of CK2	PubMed
	rev	amino acids 35-50 of Rev are involved with electrostatic interactions with CK2 while amino acids 12-24 of Rev are involved with hydrophobic interactions	PubMed
	rev	CK2 phosphorylates Rev on Serine 5 and Serine 8	PubMed
Vpu	vpu	Phosphorylation of HIV-1 Vpu by casein kinase 2 is required for Vpu-mediated degradation of CD4, regulation of HIV-1 envelope secretion and control of syncytium formation	PubMed
	vpu	The HIV-1 Vpu protein is phosphorylated by casein kinase 2 on serine amino acids 52 and 56	PubMed
matrix	gag	CK2 has been shown to phosphorylate HIV-1 Matrix in vitro	PubMed
retropepsin	gag-pol	Purified recombinant HIV-1 protease (rPR) is phosphorylated by casein kinase II, and the activity of rPR is stimulated approximately 2.9-fold as a result of this phosphorylation	PubMed
reverse transcriptase	gag-pol	Casein kinase II phosphorylates HIV-1 RT p66 and p51 in human cells	PubMed
	gag-pol	Phosphorylation of HIV-1 RT p66 and p51 by Casein kinase II mediates the stimulation of RNA-dependent DNA polymerase (RDDP) activity in vitro	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

CSNK2A1 (e-PCR)
- UniSTS:253713

RH70221 (e-PCR)
- UniSTS:39218

GDB:197832 (e-PCR)
- UniSTS:155955

U51866 (e-PCR)
- UniSTS:125766

WI-16945 (e-PCR)
- UniSTS:75863

STS-M78020 (e-PCR)
- UniSTS:27753

SHGC-79161 (e-PCR)
- UniSTS:95858

STS-T29481 (e-PCR)
- UniSTS:66449

16.MMHAP54FLF1.seq (e-PCR)
- UniSTS:123309

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables Hsp90 protein binding	TAS Traceable Author Statement more info	PubMed
enables histone H2AS1 kinase activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein serine/threonine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine/threonine kinase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables protein serine/threonine kinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein serine/threonine kinase activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA damage response	IDA Inferred from Direct Assay more info	PubMed
involved_in Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in chaperone-mediated protein folding	TAS Traceable Author Statement more info	PubMed
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of apoptotic signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of cysteine-type endopeptidase activity involved in apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of double-strand break repair via homologous recombination	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of translation	IDA Inferred from Direct Assay more info	PubMed
involved_in peptidyl-serine phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in peptidyl-threonine phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of aggrephagy	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell growth	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell population proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in protein stabilization	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of cell cycle	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of chromosome separation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in rhythmic process	IEA Inferred from Electronic Annotation more info
involved_in signal transduction	TAS Traceable Author Statement more info	PubMed
involved_in symbiont-mediated disruption of host cell PML body	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
is_active_in PML body	IDA Inferred from Direct Assay more info	PubMed
part_of PcG protein complex	IDA Inferred from Direct Assay more info	PubMed
part_of Sin3-type complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	TAS Traceable Author Statement more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	HDA more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	TAS Traceable Author Statement more info	PubMed
part_of protein kinase CK2 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of protein kinase CK2 complex	IDA Inferred from Direct Assay more info	PubMed
part_of protein kinase CK2 complex	IPI Inferred from Physical Interaction more info	PubMed
part_of protein kinase CK2 complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: casein kinase II subunit alpha

Names: CK2 catalytic subunit alpha; casein kinase 2, alpha 1 polypeptide; casein kinase II alpha 1 polypeptide pseudogene; casein kinase II alpha 1 subunit; protein kinase CK2

NP_001349699.1

EC 2.7.11.1

NP_001349700.1

EC 2.7.11.1

NP_001886.1

EC 2.7.11.1

NP_808227.1

EC 2.7.11.1

NP_808228.1

EC 2.7.11.1

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.

Genomic

NG_011970.2 RefSeqGene

Range

5049..76341

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001362770.2 → NP_001349699.1 casein kinase II subunit alpha isoform a

Status: REVIEWED

Description

Transcript Variant: This variant (4) differs in the 3' UTR compared to variant 1. Variants 1, 2, 4 and 5 encode the same protein.

Source sequence(s)

AL049761

Consensus CDS

CCDS13003.1

UniProtKB/Swiss-Prot

B4DYS6, D3DVV8, P19138, P20426, P68400, Q14013, Q5U065

UniProtKB/TrEMBL

B2R6D7, B5BUH5

Related

ENSP00000495998.1, ENST00000645623.1

Conserved Domains (1) summary

cd14132
Location:20 → 325

STKc_CK2_alpha; Catalytic subunit (alpha) of the Serine/Threonine Kinase, Casein Kinase 2
NM_001362771.2 → NP_001349700.1 casein kinase II subunit alpha isoform a

Status: REVIEWED

Description

Transcript Variant: This variant (5) differs in the 5' and 3' UTR compared to variant 1. Variants 1, 2, 4 and 5 encode the same protein.

Source sequence(s)

AL049761

Consensus CDS

CCDS13003.1

UniProtKB/Swiss-Prot

B4DYS6, D3DVV8, P19138, P20426, P68400, Q14013, Q5U065

UniProtKB/TrEMBL

B2R6D7, B5BUH5

Related

ENSP00000495248.1, ENST00000643660.1

Conserved Domains (1) summary

cd14132
Location:20 → 325

STKc_CK2_alpha; Catalytic subunit (alpha) of the Serine/Threonine Kinase, Casein Kinase 2
NM_001895.4 → NP_001886.1 casein kinase II subunit alpha isoform a

See identical proteins and their annotated locations for NP_001886.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2, 4 and 5 encode the same protein.

Source sequence(s)

AL049761, AU133318, BC053532, M55265

Consensus CDS

CCDS13003.1

UniProtKB/Swiss-Prot

B4DYS6, D3DVV8, P19138, P20426, P68400, Q14013, Q5U065

UniProtKB/TrEMBL

B2R6D7, B5BUH5

Related

ENSP00000496569.1, ENST00000646561.1

Conserved Domains (1) summary

cd14132
Location:20 → 325

STKc_CK2_alpha; Catalytic subunit (alpha) of the Serine/Threonine Kinase, Casein Kinase 2
NM_177559.3 → NP_808227.1 casein kinase II subunit alpha isoform a

See identical proteins and their annotated locations for NP_808227.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longer isoform (a). Variants 1, 2, 4 and 5 encode the same protein.

Source sequence(s)

AL049761, AU132198, BC053532, M55265

Consensus CDS

CCDS13003.1

UniProtKB/Swiss-Prot

B4DYS6, D3DVV8, P19138, P20426, P68400, Q14013, Q5U065

UniProtKB/TrEMBL

B2R6D7, B5BUH5

Related

ENSP00000217244.3, ENST00000217244.9

Conserved Domains (1) summary

cd14132
Location:20 → 325

STKc_CK2_alpha; Catalytic subunit (alpha) of the Serine/Threonine Kinase, Casein Kinase 2
NM_177560.3 → NP_808228.1 casein kinase II subunit alpha isoform b

See identical proteins and their annotated locations for NP_808228.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks an alternate exon in the 5' UTR as well as the first coding exon compared to variant 1, resulting in an isoform (b) which is shorter at the N-terminus compared to isoform a.

Source sequence(s)

AL049761, AU132198, AY735339, BC053532, M55265

Consensus CDS

CCDS13004.1

UniProtKB/Swiss-Prot

P68400

Related

ENSP00000339247.6, ENST00000349736.10

Conserved Domains (1) summary

cd14132
Location:1 → 189

STKc_CK2_alpha; Catalytic subunit (alpha) of the Serine/Threonine Kinase, Casein Kinase 2