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    Pkdcc protein kinase domain containing, cytoplasmic [ Mus musculus (house mouse) ]

    Gene ID: 106522, updated on 9-Dec-2024

    Summary

    Official Symbol
    Pkdccprovided by MGI
    Official Full Name
    protein kinase domain containing, cytoplasmicprovided by MGI
    Primary source
    MGI:MGI:2147077
    See related
    Ensembl:ENSMUSG00000024247 AllianceGenome:MGI:2147077
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Vlk; MAd1; Adtk1; ESTM17; Sgk493
    Summary
    Enables non-membrane spanning protein tyrosine kinase activity. Involved in several processes, including negative regulation of Golgi to plasma membrane protein transport; positive regulation of bone mineralization; and positive regulation of chondrocyte differentiation. Acts upstream of or within bone mineralization; limb morphogenesis; and skeletal system development. Located in Golgi apparatus and extracellular region. Is expressed in several structures, including alimentary system; arm; embryo ectoderm; embryo mesenchyme; and mesothelium. Orthologous to human PKDCC (protein kinase domain containing, cytoplasmic). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in adrenal adult (RPKM 165.4), ovary adult (RPKM 147.7) and 22 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Pkdcc in Genome Data Viewer
    Location:
    17 E4; 17 52.25 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (83522708..83532496)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (83215283..83225069)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 41631 Neighboring gene STARR-seq mESC enhancer starr_43367 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:83606763-83606950 Neighboring gene predicted gene, 34686 Neighboring gene STARR-positive B cell enhancer ABC_E774 Neighboring gene STARR-positive B cell enhancer ABC_E5634 Neighboring gene STARR-positive B cell enhancer ABC_E7561 Neighboring gene predicted gene, 24240 Neighboring gene ribosomal protein L21, pseudogene 7

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (5)  1 citation

    General gene information

    Markers

    Clone Names

    • MGC99930

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2AXY142 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3Y41 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables non-membrane spanning protein tyrosine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables non-membrane spanning protein tyrosine kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables non-membrane spanning protein tyrosine kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within bone mineralization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in embryonic digestive tract development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within limb morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in lung alveolus development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within multicellular organism growth IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of Golgi to plasma membrane protein transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in peptidyl-tyrosine phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in peptidyl-tyrosine phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of bone mineralization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of chondrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in roof of mouth development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in skeletal system development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within skeletal system development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in skeletal system development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in skeletal system development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in extracellular region IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular region IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular region ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    extracellular tyrosine-protein kinase PKDCC
    Names
    protein kinase domain-containing protein, cytoplasmic
    protein kinase-like protein SgK493
    sugen kinase 493
    vertebrate lonesome kinase
    NP_001401172.1
    NP_598878.2
    XP_011244536.1

    NCBI Reference Sequences (RefSeq)

    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_001414243.1NP_001401172.1  extracellular tyrosine-protein kinase PKDCC isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC122406
    2. NM_134117.3NP_598878.2  extracellular tyrosine-protein kinase PKDCC isoform 1 precursor

      See identical proteins and their annotated locations for NP_598878.2

      Status: VALIDATED

      Source sequence(s)
      AC122406
      Consensus CDS
      CCDS28994.2
      UniProtKB/Swiss-Prot
      B6F136, Q3UZD3, Q5RJI4, Q8VBZ6
      Related
      ENSMUSP00000129238.2, ENSMUST00000170794.8
      Conserved Domains (1) summary
      cl21453
      Location:200370
      PKc_like; Protein Kinases, catalytic domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000083.7 Reference GRCm39 C57BL/6J

      Range
      83522708..83532496
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011246234.2XP_011244536.1  extracellular tyrosine-protein kinase PKDCC isoform X1

      See identical proteins and their annotated locations for XP_011244536.1

      UniProtKB/Swiss-Prot
      Q5RJI4
      Conserved Domains (1) summary
      cl21453
      Location:1171
      PKc_like; Protein Kinases, catalytic domain