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    Dgkd diacylglycerol kinase, delta [ Rattus norvegicus (Norway rat) ]

    Gene ID: 368088, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Dgkdprovided by RGD
    Official Full Name
    diacylglycerol kinase, deltaprovided by RGD
    Primary source
    RGD:1563309
    See related
    Ensembl:ENSRNOG00000023238 AllianceGenome:RGD:1563309
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1563309
    Summary
    Predicted to enable diacylglycerol kinase activity; kinase binding activity; and protein dimerization activity. Predicted to be involved in several processes, including glycerolipid metabolic process; lipid phosphorylation; and regulation of signal transduction. Predicted to be located in clathrin-coated pit; cytoplasmic vesicle; and cytosol. Orthologous to human DGKD (diacylglycerol kinase delta). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 137.8), Thymus (RPKM 137.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dgkd in Genome Data Viewer
    Location:
    9q35
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (95964507..96055160)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (88516686..88607349)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (94980328..95071531)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene autophagy related 16-like 1 Neighboring gene small Cajal body-specific RNA 6 Neighboring gene S-antigen visual arrestin Neighboring gene ubiquitin specific peptidase 40 Neighboring gene UDP glucuronosyltransferase family 1 member A9 Neighboring gene UDP glycosyltransferase 1 family, polypeptide A9, pseudogene

    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. Regulation of enzyme localization by polymerization: polymer formation by the SAM domain of diacylglycerol kinase delta1. Harada BT, et al. Structure, 2008 Mar. PMID 18334213
    2. Alternative splicing of the human diacylglycerol kinase delta gene generates two isoforms differing in their expression patterns and in regulatory functions. Sakane F, et al. J Biol Chem, 2002 Nov 8. PMID 12200442
    3. Downregulation of diacylglycerol kinase delta contributes to hyperglycemia-induced insulin resistance. Chibalin AV, et al. Cell, 2008 Feb 8. PMID 18267070
    4. Identification and characterization of two splice variants of human diacylglycerol kinase eta. Murakami T, et al. J Biol Chem, 2003 Sep 5. PMID 12810723
    5. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. In diabetic animals, reduced DGKdelta protein and DGK kinase activity were restored upon correction of glycemia.
      Title: Downregulation of diacylglycerol kinase delta contributes to hyperglycemia-induced insulin resistance.
    Submit: New GeneRIF Correction

    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 RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent diacylglycerol kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ATP-dependent diacylglycerol kinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables kinase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in diacylglycerol metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in diacylglycerol metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intracellular signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in lipid phosphorylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in lipid phosphorylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of protein kinase C signaling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in phosphatidic acid biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in phosphatidic acid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of clathrin-dependent endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of epidermal growth factor receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein kinase C-activating G protein-coupled receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in clathrin-coated pit ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    diacylglycerol kinase delta
    NP_001414381.1
    XP_017452342.2
    XP_038940652.1

    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.

    mRNA and Protein(s)

    1. NM_001427452.1 → NP_001414381.1  diacylglycerol kinase delta

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009

    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_086027.1 Reference GRCr8

      Range
      95964507..96055160
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039084724.2 → XP_038940652.1  diacylglycerol kinase delta isoform X1

      UniProtKB/TrEMBL
      A0A8I6A6A9
      Related
      ENSRNOP00000086933.1
      Conserved Domains (5) summary
      smart00045
      Location:765 → 922
      DAGKa; Diacylglycerol kinase accessory domain (presumed)
      smart00046
      Location:323 → 445
      DAGKc; Diacylglycerol kinase catalytic domain (presumed)
      cd13274
      Location:55 → 151
      PH_DGK_type2; Type 2 Diacylglycerol kinase Pleckstrin homology (PH) domain
      cd20893
      Location:231 → 291
      C1_DGKdelta_rpt2; second protein kinase C conserved region 1 (C1 domain) found in diacylglycerol kinase delta (DAG kinase delta) and similar proteins
      cl00040
      Location:140 → 224
      C1; protein kinase C conserved region 1 (C1 domain) superfamily

    2. XM_017596853.3 → XP_017452342.2  diacylglycerol kinase delta isoform X2

      UniProtKB/TrEMBL
      A6JQE1
      Conserved Domains (5) summary
      cd09575
      Location:1014 → 1078
      SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
      smart00045
      Location:632 → 789
      DAGKa; Diacylglycerol kinase accessory domain (presumed)
      smart00046
      Location:190 → 312
      DAGKc; Diacylglycerol kinase catalytic domain (presumed)
      cd20893
      Location:98 → 158
      C1_DGKdelta_rpt2; second protein kinase C conserved region 1 (C1 domain) found in diacylglycerol kinase delta (DAG kinase delta) and similar proteins
      cl00040
      Location:7 → 91
      C1; protein kinase C conserved region 1 (C1 domain) superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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