Human Gene PRKCD (ENST00000487897.5) from GENCODE V44
  Description: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data. (from UniProt C9J9P1)
RefSeq Summary (NM_001316327): The protein encoded by this gene is a member of the protein kinase C family of serine- and threonine-specific protein kinases. The encoded protein is activated by diacylglycerol and is both a tumor suppressor and a positive regulator of cell cycle progression. Also, this protein can positively or negatively regulate apoptosis. Defects in this gene are a cause of autoimmune lymphoproliferative syndrome. [provided by RefSeq, Aug 2017].
Gencode Transcript: ENST00000487897.5
Gencode Gene: ENSG00000163932.16
Transcript (Including UTRs)
   Position: hg38 chr3:53,161,521-53,181,267 Size: 19,747 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg38 chr3:53,178,423-53,181,267 Size: 2,845 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:53,161,521-53,181,267)mRNA (may differ from genome)Protein (125 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGencodeGeneCardsHGNC
LynxMalacardsMGIPubMedUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: C9J9P1_HUMAN
DESCRIPTION: SubName: Full=Protein kinase C delta type; Flags: Fragment;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PRKCD
Diseases sorted by gene-association score: autoimmune lymphoproliferative syndrome, type iii* (900), prkcd-related autoimmune lymphoproliferative syndrome* (500), systemic lupus erythematosus 16* (247), autoimmune lymphoproliferative syndrome* (192), common variable immunodeficiency* (112), b cell deficiency (22), lymphoproliferative syndrome (14), spinocerebellar ataxia 10 (9), adjustment disorder (8), ras-associated autoimmune leukoproliferative disorder (7), pneumonic plague (5)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 68.80 RPKM in Whole Blood
Total median expression: 771.16 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -76.10186-0.409 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000008 - C2_Ca-dep
IPR008973 - C2_Ca/lipid-bd_dom_CaLB

ModBase Predicted Comparative 3D Structure on C9J9P1
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  BC043350 - Homo sapiens protein kinase C, delta, mRNA (cDNA clone MGC:49908 IMAGE:5539909), complete cds.
Z22521 - H.sapiens protein kinase C delta cDNA, 5'end.
L07860 - Human protein kinase C-delta 13 mRNA, complete cds.
L07861 - Human protein kinase C-delta 13 mRNA, complete cds.
AK313216 - Homo sapiens cDNA, FLJ93717, highly similar to Homo sapiens protein kinase C, delta (PRKCD), mRNA.
JD280625 - Sequence 261649 from Patent EP1572962.
LF209985 - JP 2014500723-A/17488: Polycomb-Associated Non-Coding RNAs.
MA445562 - JP 2018138019-A/17488: Polycomb-Associated Non-Coding RNAs.
JD104420 - Sequence 85444 from Patent EP1572962.
LF214008 - JP 2014500723-A/21511: Polycomb-Associated Non-Coding RNAs.
MA449585 - JP 2018138019-A/21511: Polycomb-Associated Non-Coding RNAs.
AB527724 - Synthetic construct DNA, clone: pF1KB6236, Homo sapiens PRKCD gene for protein kinase C, delta, without stop codon, in Flexi system.
AK131548 - Homo sapiens cDNA FLJ16784 fis, clone CTONG2003764.
BC127261 - Homo sapiens jagged 2, mRNA (cDNA clone IMAGE:40128111).
D10495 - Homo sapiens mRNA for protein kinase C delta-type, complete cds.
LF333694 - JP 2014500723-A/141197: Polycomb-Associated Non-Coding RNAs.
MA569271 - JP 2018138019-A/141197: Polycomb-Associated Non-Coding RNAs.
AK294272 - Homo sapiens cDNA FLJ57052 complete cds, highly similar to Protein kinase C delta type (EC 2.7.11.13).

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04062 - Chemokine signaling pathway
hsa04270 - Vascular smooth muscle contraction
hsa04530 - Tight junction
hsa04664 - Fc epsilon RI signaling pathway
hsa04666 - Fc gamma R-mediated phagocytosis
hsa04722 - Neurotrophin signaling pathway
hsa04912 - GnRH signaling pathway
hsa04930 - Type II diabetes mellitus

BioCarta from NCI Cancer Genome Anatomy Project
h_keratinocytePathway - Keratinocyte Differentiation
h_HivnefPathway - HIV-I Nef: negative effector of Fas and TNF

-  Other Names for This Gene
  Alternate Gene Symbols: AK313216, C9J9P1, C9J9P1_HUMAN, ENST00000487897.1, ENST00000487897.2, ENST00000487897.3, ENST00000487897.4, uc062krw.1
UCSC ID: ENST00000487897.5
RefSeq Accession: NM_001316327
Protein: C9J9P1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.