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    Dek DEK proto-oncogene [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306817, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Dekprovided by RGD
    Official Full Name
    DEK proto-oncogeneprovided by RGD
    Primary source
    RGD:1303246
    See related
    Ensembl:ENSRNOG00000016152 AllianceGenome:RGD:1303246
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable histone binding activity. Predicted to be involved in regulation of double-strand break repair. Predicted to act upstream of or within regulation of double-strand break repair via nonhomologous end joining. Predicted to be located in contractile fiber and nucleoplasm. Predicted to be active in nucleus. Orthologous to human DEK (DEK proto-oncogene). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 475.8), Spleen (RPKM 442.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dek in Genome Data Viewer
    Location:
    17p14
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (17786989..17809096)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (17580804..17602825)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (17965872..17987836)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120097909 Neighboring gene ring finger protein 144B Neighboring gene small nucleolar RNA U13 Neighboring gene lysine demethylase 1B Neighboring gene NLR family, pyrin domain containing 4E like, pseudogene 1 Neighboring gene thiopurine S-methyltransferase

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The human DEK oncogene regulates DNA damage response signaling and repair. Kavanaugh GM, et al. Nucleic Acids Res, 2011 Sep 1. PMID 21653549, Free PMC Article
    2. Daxx and histone deacetylase II associate with chromatin through an interaction with core histones and the chromatin-associated protein Dek. Hollenbach AD, et al. J Cell Sci, 2002 Aug 15. PMID 12140263
    3. Maintenance of muscle stem-cell quiescence by microRNA-489. Cheung TH, et al. Nature, 2012 Feb 23. PMID 22358842, Free PMC Article
    4. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    5. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    Clone Names

    • MGC94795

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase III IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase III ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of double-strand break repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of double-strand break repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of double-strand break repair via nonhomologous end joining IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of double-strand break repair via nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of B-WICH complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of B-WICH complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in contractile muscle fiber IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in contractile muscle fiber ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein DEK
    Names
    DEK oncogene (DNA binding)

    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)

    1. NM_001004255.1 → NP_001004255.1  protein DEK

      See identical proteins and their annotated locations for NP_001004255.1

      Status: PROVISIONAL

      Source sequence(s)
      BC079344
      UniProtKB/Swiss-Prot
      Q6AXS3
      UniProtKB/TrEMBL
      A0A8I6A9D8, A6J702
      Related
      ENSRNOP00000021751.4, ENSRNOT00000021751.5
      Conserved Domains (2) summary
      smart00513
      Location:151 → 185
      SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
      pfam08766
      Location:323 → 377
      DEK_C; DEK C terminal domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086035.1 Reference GRCr8

      Range
      17786989..17809096
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276370.1 → XP_063132440.1  protein DEK isoform X1

    2. XM_063276371.1 → XP_063132441.1  protein DEK isoform X1

    3. XM_039095669.2 → XP_038951597.1  protein DEK isoform X2

      UniProtKB/Swiss-Prot
      Q6AXS3
      UniProtKB/TrEMBL
      A0A8I6A9D8, A6J702
      Conserved Domains (2) summary
      smart00513
      Location:151 → 185
      SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
      pfam08766
      Location:323 → 377
      DEK_C; DEK C terminal domain

    4. XM_063276372.1 → XP_063132442.1  protein DEK isoform X3

    5. XM_039095670.2 → XP_038951598.1  protein DEK isoform X4

      Conserved Domains (2) summary
      smart00513
      Location:82 → 116
      SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
      pfam08766
      Location:254 → 308
      DEK_C; DEK C terminal domain

    RNA

    1. XR_010058862.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6AXS3.1 GenPept UniProtKB/Swiss-Prot:Q6AXS3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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