CDKL3 cyclin dependent kinase like 3 [Homo sapiens (human)] - Gene

Summary

Official Symbol: CDKL3provided by HGNC
Official Full Name: cyclin dependent kinase like 3provided by HGNC
Primary source: HGNC:HGNC:15483
See related: Ensembl:ENSG00000006837 MIM:608459; AllianceGenome:HGNC:15483
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: NKIAMRE
Summary: The protein encoded by this gene is a member of cyclin-dependent protein kinase (CDK) family. CDK family members are highly similar to the gene products of Saccharomyces cerevisiae cdc28, and Schizosaccharomyces pombe cdc2, and are known to be important regulators of cell cycle progression. This gene was identified as a gene absent in leukemic patients with chromosome 5q deletion. This loss may be an important determinant of dysmyelopoiesis. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
Expression: Biased expression in testis (RPKM 4.9), brain (RPKM 1.0) and 12 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 5q31.1

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	5	NC_000005.10 (134283345..134371624, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	5	NC_060929.1 (134806646..134895410, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	5	NC_000005.9 (133634115..133706734, complement)

Chromosome 5 - NC_000005.10 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?

CDKL3 Promotes Non-small Cell Lung Cancer by Suppressing Autophagy Via Activation of PI3K/Akt/mTOR Pathway.
Title: CDKL3 Promotes Non-small Cell Lung Cancer by Suppressing Autophagy Via Activation of PI3K/Akt/mTOR Pathway.
CircTP53 promotes colorectal cancer by acting as a miR-876-3p sponge to increase cyclin-dependent kinase-like 3 expression.
Title: CircTP53 promotes colorectal cancer by acting as a miR-876-3p sponge to increase cyclin-dependent kinase-like 3 expression.
Cyclin-dependent kinase like 3 promotes triple-negative breast cancer progression via inhibiting the p53 signaling pathway.
Title: Cyclin-dependent kinase like 3 promotes triple-negative breast cancer progression via inhibiting the p53 signaling pathway.
Identification of CDKL3 as a critical regulator in development of glioma through regulating RRM2 and the JNK signaling pathway.
Title: Identification of CDKL3 as a critical regulator in development of glioma through regulating RRM2 and the JNK signaling pathway.
CDKL3 promotes osteosarcoma progression by activating Akt/PKB.
Title: CDKL3 promotes osteosarcoma progression by activating Akt/PKB.
Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
data suggest that the CDKL3 gene is a strong candidate for nonsyndromal autosomal dominant mild mental retardation
Title: Inactivation of the CDKL3 gene at 5q31.1 by a balanced t(X;5) translocation associated with nonspecific mild mental retardation.
cdkl3 transfected in anchorage-independent (suspension) HeLa cells overexpressed relative to attached cells and lead to elevated proliferation and faster transition G0/G1 phases to S phase relative to controls. Same in two HEK-293 and a CHO cell lines.
Title: Enhancement of cell proliferation in various mammalian cell lines by gene insertion of a cyclin-dependent kinase homolog.
NKIAMRE is a member of a conserved family of kinases with homology to both MAP kinases and cyclin-dependent kinases
Title: NKIAMRE, a novel conserved CDC2-related kinase with features of both mitogen-activated protein kinases and cyclin-dependent kinases.

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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

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

D5S1947 (e-PCR)
- UniSTS:48160

RH103563 (e-PCR)
- UniSTS:97888

T03714 (e-PCR)
- UniSTS:73402

WI-21654 (e-PCR)
- UniSTS:24270

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables cyclin-dependent protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	TAS Traceable Author Statement 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

Process	Evidence Code	Pubs
involved_in dendrite extension	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of axon extension	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of dendrite morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein modification process	TAS Traceable Author Statement more info	PubMed
involved_in regulation of cell cycle	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: cyclin-dependent kinase-like 3

Names: serine-threonine protein kinase NKIAMRE

NP_001107047.1

EC 2.7.11.22

NP_001287782.1

EC 2.7.11.22

NP_001336292.1

EC 2.7.11.22

NP_001336293.1

EC 2.7.11.22

NP_001336294.1

EC 2.7.11.22

NP_001336295.1

EC 2.7.11.22

NP_057592.2

EC 2.7.11.22

XP_011541731.1

EC 2.7.11.22

XP_016865021.1

EC 2.7.11.22

XP_016865022.1

EC 2.7.11.22

XP_016865023.1

EC 2.7.11.22

XP_016865025.1

EC 2.7.11.22

XP_024301854.1

EC 2.7.11.22

XP_024301855.1

EC 2.7.11.22

XP_024301856.1

EC 2.7.11.22

XP_024301857.1

EC 2.7.11.22

XP_024301858.1

EC 2.7.11.22

XP_024301859.1

EC 2.7.11.22

XP_024301861.1

EC 2.7.11.22

XP_024301862.1

EC 2.7.11.22

XP_024301863.1

EC 2.7.11.22

XP_024301867.1

EC 2.7.11.22

XP_024301869.1

EC 2.7.11.22

XP_024301870.1

EC 2.7.11.22

XP_024301872.1

EC 2.7.11.22

XP_024301873.1

EC 2.7.11.22

XP_047273223.1

EC 2.7.11.22

XP_047273224.1

EC 2.7.11.22

XP_047273225.1

EC 2.7.11.22

XP_047273226.1

EC 2.7.11.22

XP_054208701.1

EC 2.7.11.22

XP_054208702.1

EC 2.7.11.22

XP_054208703.1

EC 2.7.11.22

XP_054208704.1

EC 2.7.11.22

XP_054208705.1

EC 2.7.11.22

XP_054208706.1

EC 2.7.11.22

XP_054208707.1

EC 2.7.11.22

XP_054208708.1

EC 2.7.11.22

XP_054208709.1

EC 2.7.11.22

XP_054208710.1

EC 2.7.11.22

XP_054208711.1

EC 2.7.11.22

XP_054208712.1

EC 2.7.11.22

XP_054208713.1

EC 2.7.11.22

XP_054208714.1

EC 2.7.11.22

XP_054208715.1

EC 2.7.11.22

XP_054208716.1

EC 2.7.11.22

XP_054208717.1

EC 2.7.11.22

XP_054208718.1

EC 2.7.11.22

XP_054208719.1

EC 2.7.11.22

XP_054208720.1

EC 2.7.11.22

XP_054208721.1

EC 2.7.11.22

XP_054208722.1

EC 2.7.11.22

XP_054208723.1

EC 2.7.11.22

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_042179.2 RefSeqGene

Range

5005..77624

Download

GenBank, FASTA, Sequence Viewer (Graphics), LRG_1006

mRNA and Protein(s)

NM_001113575.2 → NP_001107047.1 cyclin-dependent kinase-like 3 isoform 1

See identical proteins and their annotated locations for NP_001107047.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AC109454, BC041799, BX104333

Consensus CDS

CCDS47264.1

UniProtKB/Swiss-Prot

D3DQA0, D3DQA1, Q8IVW4, Q9P114

UniProtKB/TrEMBL

E7ET86

Related

ENSP00000265334.4, ENST00000265334.9

Conserved Domains (1) summary

cd07846
Location:2 → 286

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
NM_001300853.2 → NP_001287782.1 cyclin-dependent kinase-like 3 isoform 3

See identical proteins and their annotated locations for NP_001287782.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) has an alternate 5' exon, which results in a different 5' UTR and translation initiation at a downstream start codon, compared to variant 1. The resulting isoform (3) has a shorter N-terminus, compared to isoform 1.

Source sequence(s)

AK301802, AK310955, BC041799, BX104333

Consensus CDS

CCDS75303.1

UniProtKB/TrEMBL

B4DX41, B7Z2C5

Related

ENSP00000428500.1, ENST00000523054.5

Conserved Domains (1) summary

cl21453
Location:1 → 97

PKc_like; Protein Kinases, catalytic domain
NM_001349363.2 → NP_001336292.1 cyclin-dependent kinase-like 3 isoform 4

Status: REVIEWED

Description

Transcript Variant: This variant (4) differs in the 5' UTR, lacks a portion of the 5' coding region, initiates translation at a downstream start codon, and includes an alternate penultimate exon, compared to variant 1, resulting in a novel 3' coding region and longer 3' UTR, compared to variant 1. The resulting isoform (4) has a shorter N-terminus and a distinct C-terminus compared to isoform 1.

Source sequence(s)

AK301802, AK310955, BC041799, BX104333, CR740901

UniProtKB/TrEMBL

B7Z2C5

Conserved Domains (1) summary

cl21453
Location:1 → 97

PKc_like; Protein Kinases, catalytic domain
NM_001349364.2 → NP_001336293.1 cyclin-dependent kinase-like 3 isoform 5

Status: REVIEWED

Description

Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region, initiates translation at a downstream start codon, and includes an alternate penultimate exon, compared to variant 1, resulting in a novel 3' coding region and longer 3' UTR, compared to variant 1. The resulting isoform (5) has a shorter N-terminus and a distinct C-terminus compared to isoform 1. Variants 5, 6, and 7 encode the same isoform (5).

Source sequence(s)

AK294740, AK310955, BX104333, CR740901

UniProtKB/TrEMBL

B4DRK6
NM_001349365.2 → NP_001336294.1 cyclin-dependent kinase-like 3 isoform 5

Status: REVIEWED

Description

Transcript Variant: This variant (6) differs in the 5' UTR, lacks a portion of the 5' coding region, initiates translation at a downstream start codon, and includes an alternate penultimate exon, compared to variant 1, resulting in a novel 3' coding region and longer 3' UTR, compared to variant 1. The resulting isoform (5) has a shorter N-terminus and a distinct C-terminus compared to isoform 1. Variants 5, 6, and 7 encode the same isoform (5).

Source sequence(s)

AK294740, BX104333, CR740901, DC372363

UniProtKB/TrEMBL

B4DRK6
NM_001349366.2 → NP_001336295.1 cyclin-dependent kinase-like 3 isoform 5

Status: REVIEWED

Description

Transcript Variant: This variant (7) differs in the 5' UTR, lacks a portion of the 5' coding region, initiates translation at a downstream start codon, and includes an alternate penultimate exon, compared to variant 1, resulting in a novel 3' coding region and longer 3' UTR, compared to variant 1. The resulting isoform (5) has a shorter N-terminus and a distinct C-terminus compared to isoform 1. Variants 5, 6, and 7 encode the same isoform (5).

Source sequence(s)

AK294740, BX104333, CR740901, DC353401

UniProtKB/TrEMBL

B4DRK6
NM_016508.4 → NP_057592.2 cyclin-dependent kinase-like 3 isoform 2

See identical proteins and their annotated locations for NP_057592.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) differs in the 3' UTR and has multiple coding region differences, compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.

Source sequence(s)

AC109454, AF130372, BC041799

Consensus CDS

CCDS47265.1

UniProtKB/Swiss-Prot

Q8IVW4

Related

ENSP00000430496.1, ENST00000523832.1

Conserved Domains (2) summary

smart00220
Location:4 → 286

S_TKc; Serine/Threonine protein kinases, catalytic domain

cd07846
Location:2 → 286

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3

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_000005.10 Reference GRCh38.p14 Primary Assembly

Range

134283345..134371624 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_024446091.2 → XP_024301859.1 cyclin-dependent kinase-like 3 isoform X5

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cl21453
Location:2 → 298

PKc_like; Protein Kinases, catalytic domain
XM_024446093.2 → XP_024301861.1 cyclin-dependent kinase-like 3 isoform X7

Conserved Domains (1) summary

cl21453
Location:77 → 182

PKc_like; Protein Kinases, catalytic domain
XM_024446099.2 → XP_024301867.1 cyclin-dependent kinase-like 3 isoform X11

UniProtKB/TrEMBL

B7Z2C5

Conserved Domains (1) summary

cl21453
Location:1 → 97

PKc_like; Protein Kinases, catalytic domain
XM_024446101.2 → XP_024301869.1 cyclin-dependent kinase-like 3 isoform X11

UniProtKB/TrEMBL

B7Z2C5

Conserved Domains (1) summary

cl21453
Location:1 → 97

PKc_like; Protein Kinases, catalytic domain
XM_024446104.2 → XP_024301872.1 cyclin-dependent kinase-like 3 isoform X11

UniProtKB/TrEMBL

B7Z2C5

Conserved Domains (1) summary

cl21453
Location:1 → 97

PKc_like; Protein Kinases, catalytic domain
XM_024446086.2 → XP_024301854.1 cyclin-dependent kinase-like 3 isoform X1

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cd07846
Location:2 → 298

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_024446089.2 → XP_024301857.1 cyclin-dependent kinase-like 3 isoform X2

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cd07846
Location:2 → 286

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_024446087.2 → XP_024301855.1 cyclin-dependent kinase-like 3 isoform X1

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cd07846
Location:2 → 298

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_024446088.2 → XP_024301856.1 cyclin-dependent kinase-like 3 isoform X2

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cd07846
Location:2 → 286

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_011543429.3 → XP_011541731.1 cyclin-dependent kinase-like 3 isoform X1

See identical proteins and their annotated locations for XP_011541731.1

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cd07846
Location:2 → 298

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_017009532.2 → XP_016865021.1 cyclin-dependent kinase-like 3 isoform X2

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cd07846
Location:2 → 286

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_017009536.2 → XP_016865025.1 cyclin-dependent kinase-like 3 isoform X6

UniProtKB/TrEMBL

E7ET86

Conserved Domains (2) summary

smart00220
Location:4 → 243

S_TKc; Serine/Threonine protein kinases, catalytic domain

cl21453
Location:2 → 276

PKc_like; Protein Kinases, catalytic domain
XM_024446095.2 → XP_024301863.1 cyclin-dependent kinase-like 3 isoform X10

Conserved Domains (1) summary

cl21453
Location:2 → 298

PKc_like; Protein Kinases, catalytic domain
XM_017009533.2 → XP_016865022.1 cyclin-dependent kinase-like 3 isoform X3

UniProtKB/TrEMBL

E7ET86

Conserved Domains (2) summary

smart00220
Location:4 → 298

S_TKc; Serine/Threonine protein kinases, catalytic domain

cl21453
Location:2 → 298

PKc_like; Protein Kinases, catalytic domain
XM_017009534.2 → XP_016865023.1 cyclin-dependent kinase-like 3 isoform X4

UniProtKB/TrEMBL

E7ET86

Conserved Domains (1) summary

cd07846
Location:2 → 298

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_047417267.1 → XP_047273223.1 cyclin-dependent kinase-like 3 isoform X1
XM_047417269.1 → XP_047273225.1 cyclin-dependent kinase-like 3 isoform X11
XM_024446094.2 → XP_024301862.1 cyclin-dependent kinase-like 3 isoform X9

UniProtKB/TrEMBL

B7Z2C5

Conserved Domains (1) summary

cl21453
Location:28 → 145

PKc_like; Protein Kinases, catalytic domain
XM_024446102.1 → XP_024301870.1 cyclin-dependent kinase-like 3 isoform X11

UniProtKB/TrEMBL

B7Z2C5

Conserved Domains (1) summary

cl21453
Location:1 → 97

PKc_like; Protein Kinases, catalytic domain
XM_024446105.1 → XP_024301873.1 cyclin-dependent kinase-like 3 isoform X12

UniProtKB/TrEMBL

B4DRK6
XM_024446090.2 → XP_024301858.1 cyclin-dependent kinase-like 3 isoform X4

UniProtKB/TrEMBL

E7ET86

Related

ENSP00000428689.1, ENST00000521118.5

Conserved Domains (1) summary

cd07846
Location:2 → 298

STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3
XM_047417268.1 → XP_047273224.1 cyclin-dependent kinase-like 3 isoform X8
XM_047417270.1 → XP_047273226.1 cyclin-dependent kinase-like 3 isoform X13