Human Gene PDCD5 (ENST00000590247.7_4) from GENCODE V47lift37
  Description: programmed cell death 5 (from RefSeq NM_004708.4)
Gencode Transcript: ENST00000590247.7_4
Gencode Gene: ENSG00000105185.12_7
Transcript (Including UTRs)
   Position: hg19 chr19:33,072,096-33,078,359 Size: 6,264 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr19:33,072,168-33,078,206 Size: 6,039 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:33,072,096-33,078,359)mRNA (may differ from genome)Protein (125 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PDCD5_HUMAN
DESCRIPTION: RecName: Full=Programmed cell death protein 5; AltName: Full=TF-1 cell apoptosis-related protein 19; Short=Protein TFAR19;
FUNCTION: May function in the process of apoptosis.
TISSUE SPECIFICITY: Widely expressed. Highest levels in heart, testis, kidney, pituitary gland, adrenal gland and placenta.
DEVELOPMENTAL STAGE: Expression in fetal tissues is significantly lower than in adult tissues.
INDUCTION: Activated in cells undergoing apoptosis.
SIMILARITY: Belongs to the PDCD5 family.

-  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: PDCD5
Diseases sorted by gene-association score: childhood oligodendroglioma (9)

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 44.77 RPKM in Testis
Total median expression: 1237.85 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 -34.6072-0.481 Picture PostScript Text
3' UTR -18.90153-0.124 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
IPR002836 - TFAR19_DNA-bd

Pfam Domains:
PF01984 - Double-stranded DNA-binding domain

SCOP Domains:
46950 - Double-stranded DNA-binding domain
52833 - Thioredoxin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1YYB - NMR MuPIT 2CRU - NMR MuPIT 2K6B - NMR MuPIT


ModBase Predicted Comparative 3D Structure on O14737
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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
No orthologNo orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0005515 protein binding
GO:0008201 heparin binding
GO:0010698 acetyltransferase activator activity
GO:0048487 beta-tubulin binding

Biological Process:
GO:0006915 apoptotic process
GO:0008285 negative regulation of cell proliferation
GO:0010628 positive regulation of gene expression
GO:0043065 positive regulation of apoptotic process
GO:0043280 positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0071560 cellular response to transforming growth factor beta stimulus
GO:0090200 positive regulation of release of cytochrome c from mitochondria
GO:1903638 positive regulation of protein import into mitochondrial outer membrane
GO:1903645 negative regulation of chaperone-mediated protein folding

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK293486 - Homo sapiens cDNA FLJ52456 complete cds, moderately similar to Programmed cell death protein 5.
AB209040 - Homo sapiens mRNA for programmed cell death 5 variant protein.
BC015519 - Homo sapiens programmed cell death 5, mRNA (cDNA clone MGC:9294 IMAGE:3888459), complete cds.
AF014955 - Homo sapiens TFAR19 mRNA, complete cds.
DQ208400 - Homo sapiens programmed cell death 5 short isoform (PDCD5) mRNA, complete cds.
AB590247 - Synthetic construct DNA, clone: pFN21AE1540, Homo sapiens PDCD5 gene for programmed cell death 5, without stop codon, in Flexi system.
DQ894611 - Synthetic construct Homo sapiens clone IMAGE:100009071; FLH176918.01L; RZPDo839A12123D programmed cell death 5 (PDCD5) gene, encodes complete protein.
DQ893577 - Synthetic construct clone IMAGE:100006207; FLH176921.01X; RZPDo839A12124D programmed cell death 5 (PDCD5) gene, encodes complete protein.
KJ892696 - Synthetic construct Homo sapiens clone ccsbBroadEn_02090 PDCD5 gene, encodes complete protein.
BT006694 - Homo sapiens programmed cell death 5 mRNA, complete cds.
CR456934 - Homo sapiens full open reading frame cDNA clone RZPDo834A0216D for gene PDCD5, programmed cell death 5; complete cds, incl. stopcodon.
AK124774 - Homo sapiens cDNA FLJ42784 fis, clone BRAWH3006547.
JD553561 - Sequence 534585 from Patent EP1572962.
JD558049 - Sequence 539073 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DE64, ENST00000590247.1, ENST00000590247.2, ENST00000590247.3, ENST00000590247.4, ENST00000590247.5, ENST00000590247.6, NM_004708, O14737, PDCD5_HUMAN, Q53YC9, Q6IB70, TFAR19, uc326uwc.1, uc326uwc.2
UCSC ID: ENST00000590247.7_4
RefSeq Accession: NM_004708.4
Protein: O14737 (aka PDCD5_HUMAN or PCD5_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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