CSNK1D casein kinase 1 delta [Homo sapiens (human)] - Gene

Summary

Official Symbol: CSNK1Dprovided by HGNC
Official Full Name: casein kinase 1 deltaprovided by HGNC
Primary source: HGNC:HGNC:2452
See related: Ensembl:ENSG00000141551 MIM:600864; AllianceGenome:HGNC:2452
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: ASPS; CKId; HCKID; FASPS2; CKIdelta; CKI-delta
Summary: This gene is a member of the casein kinase I (CKI) gene family whose members have been implicated in the control of cytoplasmic and nuclear processes, including DNA replication and repair. The encoded protein may also be involved in the regulation of apoptosis, circadian rhythm, microtubule dynamics, chromosome segregation, and p53-mediated effects on growth. The encoded protein is highly similar to the mouse and rat CK1 delta homologs. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2014]
Expression: Ubiquitous expression in spleen (RPKM 17.2), prostate (RPKM 17.2) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 17q25.3

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	17	NC_000017.11 (82239019..82273750, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	17	NC_060941.1 (83107753..83142487, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	17	NC_000017.10 (80196895..80231626, complement)

Chromosome 17 - NC_000017.11 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
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?

Prognostic value and immunological role of CSNK1D in human cancers.
Title: Prognostic value and immunological role of CSNK1D in human cancers.
CSNK1D-mediated phosphorylation of HNRNPA2B1 induces miR-25-3p/miR-93-5p maturation to promote prostate cancer cell proliferation and migration through m[6]A-dependent manner.
Title: CSNK1D-mediated phosphorylation of HNRNPA2B1 induces miR-25-3p/miR-93-5p maturation to promote prostate cancer cell proliferation and migration through m(6)A-dependent manner.
Casein Kinase 1delta Phosphorylates TDP-43 and Suppresses Its Function in Tau mRNA Processing.
Title: Casein Kinase 1δ Phosphorylates TDP-43 and Suppresses Its Function in Tau mRNA Processing.
Upregulation of Stress-Induced Protein Kinase CK1 Delta is associated with a Poor Prognosis for patients with Hepatocellular Carcinoma.
Title: Upregulation of Stress-Induced Protein Kinase CK1 Delta is associated with a Poor Prognosis for patients with Hepatocellular Carcinoma.
beta-Trcp and CK1delta-mediated degradation of LZTS2 activates PI3K/AKT signaling to drive tumorigenesis and metastasis in hepatocellular carcinoma.
Title: β-Trcp and CK1δ-mediated degradation of LZTS2 activates PI3K/AKT signaling to drive tumorigenesis and metastasis in hepatocellular carcinoma.
CK1delta-Derived Peptides as Novel Tools Inhibiting the Interactions between CK1delta and APP695 to Modulate the Pathogenic Metabolism of APP.
Title: CK1δ-Derived Peptides as Novel Tools Inhibiting the Interactions between CK1δ and APP695 to Modulate the Pathogenic Metabolism of APP.
Targeting Casein Kinase 1 Delta Sensitizes Pancreatic and Bladder Cancer Cells to Gemcitabine Treatment by Upregulating Deoxycytidine Kinase.
Title: Targeting Casein Kinase 1 Delta Sensitizes Pancreatic and Bladder Cancer Cells to Gemcitabine Treatment by Upregulating Deoxycytidine Kinase.
CRISPR-mediated gene targeting of CK1delta/epsilon leads to enhanced understanding of their role in endocytosis via phosphoregulation of GAPVD1.
Title: CRISPR-mediated gene targeting of CK1δ/ε leads to enhanced understanding of their role in endocytosis via phosphoregulation of GAPVD1.
Human Rad17 is constitutively phosphorylated in vivo on a C-terminal threonine, T670. Rad17-T670 is phosphorylated by casein kinase 1delta/epsilon.
Title: Human Rad17 C-terminal tail is phosphorylated by concerted action of CK1δ/ε and CK2 to promote interaction with the 9-1-1 complex.
The effect of CK1delta/epsilon inhibition strongly depends on endogenous PER2 protein levels, which differs depending on both the molecular cause of the circadian disruption and the patient's lighting environment.
Title: Systems approach reveals photosensitivity and PER2 level as determinants of clock-modulator efficacy.

Submit: New GeneRIF Correction See all GeneRIFs (46)

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
Advanced sleep phase syndrome 2 MedGen: C3808874 OMIM: 615224 GeneReviews: Not available	Compare labs

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH45324 (e-PCR)
- UniSTS:17422

RH70599 (e-PCR)
- UniSTS:43823

D17S827E (e-PCR)
- UniSTS:147505

CSNK1D_7771 (e-PCR)
- UniSTS:471403

G34940 (e-PCR)
- UniSTS:117652

SHGC-64292 (e-PCR)
- UniSTS:49334

RH11500 (e-PCR)
- UniSTS:29901

A005O08 (e-PCR)
- UniSTS:81114

SHGC-31593 (e-PCR)
- UniSTS:53503

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables 3-phosphoinositide-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables AMP-activated protein kinase activity	IEA Inferred from Electronic Annotation more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables Rho-dependent protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables cadherin binding	HDA more info	PubMed
enables eukaryotic translation initiation factor 2alpha kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS1 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS121 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AT120 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AXS139 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS14 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS36 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S10 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S28 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S57 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T11 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T3 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T45 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T6 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H4S1 kinase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein kinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein kinase activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein kinase activity	TAS Traceable Author Statement more info	PubMed
enables protein serine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine kinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
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	TAS Traceable Author Statement more info
enables ribosomal protein S6 kinase activity	IEA Inferred from Electronic Annotation more info
enables tau-protein kinase activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in COPII vesicle coating	TAS Traceable Author Statement more info
acts_upstream_of_or_within Golgi organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in cellular response to nerve growth factor stimulus	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in circadian regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
involved_in endocytosis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within microtubule nucleation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in midbrain dopaminergic neuron differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in non-motile cilium assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within non-motile cilium assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of canonical Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of non-canonical Wnt signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of proteasomal ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of proteasomal ubiquitin-dependent protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein localization to Golgi apparatus	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein localization to centrosome	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein localization to cilium	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of circadian rhythm	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of circadian rhythm	ISS Inferred from Sequence or Structural Similarity more info
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in spindle assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in spindle assembly	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IDA Inferred from Direct Assay more info	PubMed
located_in centrosome	IDA Inferred from Direct Assay more info	PubMed
located_in ciliary basal body	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	TAS Traceable Author Statement more info
located_in endoplasmic reticulum-Golgi intermediate compartment membrane	TAS Traceable Author Statement more info
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in spindle	IDA Inferred from Direct Assay more info	PubMed
is_active_in spindle microtubule	IBA Inferred from Biological aspect of Ancestor more info
located_in spindle microtubule	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: casein kinase I isoform delta; casein kinase I

Names: tau-protein kinase CSNK1D

NP_001350678.1

EC 2.7.11.1

EC 2.7.11.26

NP_001884.2

EC 2.7.11.1

EC 2.7.11.26

NP_620693.1

EC 2.7.11.1

EC 2.7.11.26

XP_005256393.1

EC 2.7.11.1

EC 2.7.11.26

XP_047291335.1

EC 2.7.11.1

EC 2.7.11.26

XP_047291336.1

EC 2.7.11.1

EC 2.7.11.26

XP_047291337.1

EC 2.7.11.1

EC 2.7.11.26

XP_054171072.1

EC 2.7.11.1

EC 2.7.11.26

XP_054171073.1

EC 2.7.11.1

EC 2.7.11.26

XP_054171074.1

EC 2.7.11.1

EC 2.7.11.26

XP_054171075.1

EC 2.7.11.1

EC 2.7.11.26

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_012828.2 RefSeqGene

Range

5043..36076

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001363749.2 → NP_001350678.1 casein kinase I isoform delta isoform 3

Status: REVIEWED

Source sequence(s)

AC132872

Consensus CDS

CCDS86654.1

UniProtKB/TrEMBL

B4E0G1, H7BYT1

Related

ENSP00000381531.5, ENST00000398519.9

Conserved Domains (1) summary

cd14125
Location:8 → 282

STKc_CK1_delta_epsilon; Catalytic domain of the Serine/Threonine protein kinases, Casein Kinase 1 delta and epsilon
NM_001893.6 → NP_001884.2 casein kinase I isoform delta isoform 1

See identical proteins and their annotated locations for NP_001884.2

Status: REVIEWED

Source sequence(s)

AA825280, AC132872, BC003558, DC334821

Consensus CDS

CCDS11805.1

UniProtKB/Swiss-Prot

A2I2P2, P48730, Q96KZ6, Q9BTN5

UniProtKB/TrEMBL

B4E0G1

Related

ENSP00000324464.6, ENST00000314028.11

Conserved Domains (1) summary

cd14125
Location:8 → 282

STKc_CK1_delta_epsilon; Catalytic domain of the Serine/Threonine protein kinases, Casein Kinase 1 delta and epsilon
NM_139062.4 → NP_620693.1 casein kinase I isoform delta isoform 2

See identical proteins and their annotated locations for NP_620693.1

Status: REVIEWED

Source sequence(s)

AA825280, AC132872, BC015775, DC334821

Consensus CDS

CCDS11806.1

UniProtKB/TrEMBL

B4E0G1

Related

ENSP00000376146.2, ENST00000392334.7

Conserved Domains (1) summary

cd14125
Location:8 → 282

STKc_CK1_delta_epsilon; Catalytic domain of the Serine/Threonine protein kinases, Casein Kinase 1 delta and epsilon

RNA

NR_110578.2 RNA Sequence

Status: REVIEWED

Source sequence(s)

AA825280, AC132872, AK296969, BC015775, HY000691

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000017.11 Reference GRCh38.p14 Primary Assembly

Range

82239019..82273750 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047435380.1 → XP_047291336.1 casein kinase I isoform X3
XM_047435379.1 → XP_047291335.1 casein kinase I isoform X2
XM_005256336.5 → XP_005256393.1 casein kinase I isoform X1

Conserved Domains (2) summary

smart00219
Location:10 → 273

TyrKc; Tyrosine kinase, catalytic domain

cd14125
Location:8 → 282

STKc_CK1_delta_epsilon; Catalytic domain of the Serine/Threonine protein kinases, Casein Kinase 1 delta and epsilon
XM_047435381.1 → XP_047291337.1 casein kinase I isoform X4