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    CDKL2 cyclin dependent kinase like 2 [ Homo sapiens (human) ]

    Gene ID: 8999, updated on 2-May-2024

    Summary

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    Official Symbol
    CDKL2provided by HGNC
    Official Full Name
    cyclin dependent kinase like 2provided by HGNC
    Primary source
    HGNC:HGNC:1782
    See related
    Ensembl:ENSG00000138769 MIM:603442; AllianceGenome:HGNC:1782
    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
    P56; KKIAMRE
    Summary
    This gene product is a member of a large family of CDC2-related serine/threonine protein kinases. It accumulates primarily in the cytoplasm, with lower levels in the nucleus. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in testis (RPKM 7.0), brain (RPKM 3.3) and 6 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CDKL2 in Genome Data Viewer
    Location:
    4q21.1
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (75576496..75630528, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (78916642..78970655, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (76501706..76555712, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900717 Neighboring gene THAP domain containing 6 Neighboring gene Sharpr-MPRA regulatory region 12890 Neighboring gene odontogenesis associated phosphoprotein Neighboring gene cytochrome c oxidase subunit 6C pseudogene 9 Neighboring gene G3BP stress granule assembly factor 2 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:76597475-76598452 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21620 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:76599431-76600408 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:76600409-76601385 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15481 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21621 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:76627962-76628708 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:76630201-76630946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:76641306-76641821 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:76648951-76649871 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:76649872-76650791 Neighboring gene USO1 vesicle transport factor

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Decreased CDKL2 expression is correlated with the progression and poor prognosis of glioma. Yi R, et al. Pathol Res Pract, 2020 May. PMID 32173142
    2. Clinical significance of aberrant cyclin-dependent kinase-like 2 methylation in hepatocellular carcinoma. Zhou Y, et al. Gene, 2019 Jan 30. PMID 30292871
    3. CDKL2 promotes epithelial-mesenchymal transition and breast cancer progression. Li L, et al. Oncotarget, 2014 Nov 15. PMID 25333262, Free PMC Article
    4. CDKL2 Is Associated with HER2 Status and Overall Survival in Gastric Cancer: Comparative Analysis of CDKL2 Protein Expression and Gene Copy Number. Shao Q, et al. Biomed Res Int, 2020. PMID 33178818, Free PMC Article
    5. HSV-2-encoded miRNA-H4 Regulates Cell Cycle Progression and Act-D-induced Apoptosis in HeLa Cells by Targeting CDKL2 and CDKN2A. Zhao Y, et al. Virol Sin, 2019 Jun. PMID 30953292, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Identification of a Set of Genes Improving Survival Prediction in Kidney Renal Clear Cell Carcinoma through Integrative Reanalysis of Transcriptomic Data.
      Title: Identification of a Set of Genes Improving Survival Prediction in Kidney Renal Clear Cell Carcinoma through Integrative Reanalysis of Transcriptomic Data.
    2. CDKL2 Is Associated with HER2 Status and Overall Survival in Gastric Cancer: Comparative Analysis of CDKL2 Protein Expression and Gene Copy Number.
      Title: CDKL2 Is Associated with HER2 Status and Overall Survival in Gastric Cancer: Comparative Analysis of CDKL2 Protein Expression and Gene Copy Number.
    3. Decreased CDKL2 expression is correlated with the progression and poor prognosis of glioma.
      Title: Decreased CDKL2 expression is correlated with the progression and poor prognosis of glioma.
    4. In HeLa cells infected with HSV-2, we detected significantly reduced expression of CDKN2A and CDKL2 and demonstrated the negative regulation effect of miRNA-H4-5p on these two target genes.
      Title: HSV-2-encoded miRNA-H4 Regulates Cell Cycle Progression and Act-D-induced Apoptosis in HeLa Cells by Targeting CDKL2 and CDKN2A.
    5. Results showed that the methylation levels of CDKL2 were higher in hepatocellular carcinoma (HCC) cell lines and tissues but the mRNA expression levels decreased both in HCC tissues and cell lines. CDKL2 status seems to correlate with tumor size and may play an important role in hepatocarcinogenesis.
      Title: Clinical significance of aberrant cyclin-dependent kinase-like 2 methylation in hepatocellular carcinoma.
    6. High CDKL2 promotes epithelial-mesenchymal transition and breast cancer progression.
      Title: CDKL2 promotes epithelial-mesenchymal transition and breast cancer progression.
    7. We hypothesized that LA might induce dissociation of p56(Lck) from CD4, thus leading to its downmodulation.
      Title: Lipoic acid downmodulates CD4 from human T lymphocytes by dissociation of p56(Lck).
    Submit: New GeneRIF Correction

    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)

    Genotypes

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    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 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 protein phosphorylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in sex differentiation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in signal transduction TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in centrosome IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    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 2
    Names
    CDC2-related kinase
    p56 KKIAMRE protein kinase
    protein kinase p56 KKIAMRE
    serine/threonine protein kinase KKIAMRE
    testicular tissue protein Li 35
    NP_001317653.1
    NP_003939.1
    XP_006714469.1
    XP_016864298.1
    XP_016864299.1
    XP_016864300.1
    XP_047272338.1
    XP_047272339.1
    XP_047272340.1
    XP_047272341.1
    XP_047272342.1
    XP_047272343.1
    XP_054207161.1
    XP_054207162.1
    XP_054207163.1
    XP_054207164.1
    XP_054207165.1
    XP_054207166.1
    XP_054207167.1
    XP_054207168.1

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001330724.2 → NP_001317653.1  cyclin-dependent kinase-like 2 isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains two consecutive alternate in-frame exons in the 3' coding region, compared to variant 1. The encoded isoform (2) is longer, but has the same N- and C-termini as isoform 1.
      Source sequence(s)
      AA813092, AC096759, AC104828, AK294866, BX095447, DA309702, DC400929, U35146
      Consensus CDS
      CCDS82933.1
      UniProtKB/TrEMBL
      B4DH08, J3KNE8
      Related
      ENSP00000306340.4, ENST00000307465.9
      Conserved Domains (2) summary
      smart00220
      Location:4 → 287
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd07846
      Location:2 → 287
      STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3

    2. NM_003948.5 → NP_003939.1  cyclin-dependent kinase-like 2 isoform 1

      See identical proteins and their annotated locations for NP_003939.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript and encodes the shorter isoform (1).
      Source sequence(s)
      AA813092, AC096759, AK294866, BX095447, DA309702, DC400929, U35146
      Consensus CDS
      CCDS3570.1
      UniProtKB/Swiss-Prot
      B2R695, Q92772
      UniProtKB/TrEMBL
      A0A140VJG1, B4DH08
      Related
      ENSP00000412365.2, ENST00000429927.6
      Conserved Domains (2) summary
      smart00220
      Location:4 → 287
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd07846
      Location:2 → 287
      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_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      75576496..75630528 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017008811.2 → XP_016864300.1  cyclin-dependent kinase-like 2 isoform X5

      UniProtKB/TrEMBL
      B4DH08

    2. XM_017008810.2 → XP_016864299.1  cyclin-dependent kinase-like 2 isoform X4

      UniProtKB/Swiss-Prot
      B2R695, Q92772
      UniProtKB/TrEMBL
      A0A140VJG1, B4DH08
      Conserved Domains (2) summary
      smart00220
      Location:4 → 287
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd07846
      Location:2 → 287
      STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3

    3. XM_017008809.2 → XP_016864298.1  cyclin-dependent kinase-like 2 isoform X2

      UniProtKB/TrEMBL
      B4DH08, J3KNE8
      Conserved Domains (2) summary
      smart00220
      Location:4 → 287
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd07846
      Location:2 → 287
      STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3

    4. XM_047416384.1 → XP_047272340.1  cyclin-dependent kinase-like 2 isoform X4

      UniProtKB/Swiss-Prot
      B2R695, Q92772
      UniProtKB/TrEMBL
      A0A140VJG1

    5. XM_047416383.1 → XP_047272339.1  cyclin-dependent kinase-like 2 isoform X2

      UniProtKB/TrEMBL
      J3KNE8

    6. XM_006714406.3 → XP_006714469.1  cyclin-dependent kinase-like 2 isoform X3

      UniProtKB/TrEMBL
      B4DH08
      Conserved Domains (2) summary
      smart00220
      Location:4 → 287
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd07846
      Location:2 → 287
      STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3

    7. XM_047416386.1 → XP_047272342.1  cyclin-dependent kinase-like 2 isoform X7

    8. XM_047416382.1 → XP_047272338.1  cyclin-dependent kinase-like 2 isoform X1

    9. XM_047416385.1 → XP_047272341.1  cyclin-dependent kinase-like 2 isoform X6

    10. XM_047416387.1 → XP_047272343.1  cyclin-dependent kinase-like 2 isoform X8

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      78916642..78970655 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054351190.1 → XP_054207165.1  cyclin-dependent kinase-like 2 isoform X5

    2. XM_054351189.1 → XP_054207164.1  cyclin-dependent kinase-like 2 isoform X4

      UniProtKB/Swiss-Prot
      B2R695, Q92772
      UniProtKB/TrEMBL
      A0A140VJG1

    3. XM_054351187.1 → XP_054207162.1  cyclin-dependent kinase-like 2 isoform X2

      UniProtKB/TrEMBL
      J3KNE8

    4. XM_054351188.1 → XP_054207163.1  cyclin-dependent kinase-like 2 isoform X3

    5. XM_054351192.1 → XP_054207167.1  cyclin-dependent kinase-like 2 isoform X7

    6. XM_054351186.1 → XP_054207161.1  cyclin-dependent kinase-like 2 isoform X1

    7. XM_054351191.1 → XP_054207166.1  cyclin-dependent kinase-like 2 isoform X6

    8. XM_054351193.1 → XP_054207168.1  cyclin-dependent kinase-like 2 isoform X8

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q92772.1 GenPept UniProtKB/Swiss-Prot:Q92772

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