Human Gene PDAP1 (ENST00000350498.8) from GENCODE V44
  Description: Homo sapiens PDGFA associated protein 1 (PDAP1), mRNA. (from RefSeq NM_014891)
RefSeq Summary (NM_014891): The protein encoded by this gene is a phosphoprotein that may upregulate the PDGFA-stimulated growth of fibroblasts and also downregulate the mitogenicity of PDGFB. The encoded protein in rodents has been shown to bind PDGFA with a low affinity. [provided by RefSeq, Dec 2010]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments.
Gencode Transcript: ENST00000350498.8
Gencode Gene: ENSG00000106244.13
Transcript (Including UTRs)
   Position: hg38 chr7:99,394,673-99,408,597 Size: 13,925 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg38 chr7:99,396,682-99,408,548 Size: 11,867 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:99,394,673-99,408,597)mRNA (may differ from genome)Protein (181 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: HAP28_HUMAN
DESCRIPTION: RecName: Full=28 kDa heat- and acid-stable phosphoprotein; AltName: Full=PDGF-associated protein; Short=PAP; AltName: Full=PDGFA-associated protein 1; Short=PAP1;
FUNCTION: Enhances PDGFA-stimulated cell growth in fibroblasts, but inhibits the mitogenic effect of PDGFB (By similarity).
SIMILARITY: Belongs to the PDAP1 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


-  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: 54.40 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1769.81 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 -16.6049-0.339 Picture PostScript Text
3' UTR -723.102009-0.360 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
IPR019380 - Casein_kinase_sb_PP28

Pfam Domains:
PF10252 - Casein kinase substrate phosphoprotein PP28

ModBase Predicted Comparative 3D Structure on Q13442
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-  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 BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsembl  
Protein SequenceProtein SequenceProtein SequenceProtein Sequence  
AlignmentAlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding

Biological Process:
GO:0007165 signal transduction
GO:0008283 cell proliferation
GO:0043312 neutrophil degranulation

Cellular Component:
GO:0005576 extracellular region
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:1904813 ficolin-1-rich granule lumen


-  Descriptions from all associated GenBank mRNAs
  BC001578 - Homo sapiens PDGFA associated protein 1, mRNA (cDNA clone IMAGE:3457786).
JD144752 - Sequence 125776 from Patent EP1572962.
BC039130 - Homo sapiens PDGFA associated protein 1, mRNA (cDNA clone IMAGE:4153922), with apparent retained intron.
BC007873 - Homo sapiens PDGFA associated protein 1, mRNA (cDNA clone MGC:14445 IMAGE:4303959), complete cds.
BC071993 - Homo sapiens PDGFA associated protein 1, mRNA (cDNA clone IMAGE:6421888).
BC000684 - Homo sapiens PDGFA associated protein 1, mRNA (cDNA clone MGC:789 IMAGE:3347335), complete cds.
JD354579 - Sequence 335603 from Patent EP1572962.
JD130338 - Sequence 111362 from Patent EP1572962.
JD108682 - Sequence 89706 from Patent EP1572962.
JD515766 - Sequence 496790 from Patent EP1572962.
JD263942 - Sequence 244966 from Patent EP1572962.
JD118345 - Sequence 99369 from Patent EP1572962.
JD388203 - Sequence 369227 from Patent EP1572962.
JD045688 - Sequence 26712 from Patent EP1572962.
JD194336 - Sequence 175360 from Patent EP1572962.
U41745 - Human PDGF associated protein mRNA, complete cds.
JD477511 - Sequence 458535 from Patent EP1572962.
JD405566 - Sequence 386590 from Patent EP1572962.
JD354279 - Sequence 335303 from Patent EP1572962.
JD449421 - Sequence 430445 from Patent EP1572962.
CU674336 - Synthetic construct Homo sapiens gateway clone IMAGE:100017977 5' read PDAP1 mRNA.
KJ893283 - Synthetic construct Homo sapiens clone ccsbBroadEn_02677 PDAP1 gene, encodes complete protein.
JD458504 - Sequence 439528 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q13442 (Reactome details) participates in the following event(s):

R-HSA-6800434 Exocytosis of ficolin-rich granule lumen proteins
R-HSA-6798695 Neutrophil degranulation
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: D6W5S5, ENST00000350498.1, ENST00000350498.2, ENST00000350498.3, ENST00000350498.4, ENST00000350498.5, ENST00000350498.6, ENST00000350498.7, HAP28_HUMAN, HASPP28, NM_014891, Q13442, Q92906, uc003uqe.1, uc003uqe.2, uc003uqe.3, uc003uqe.4, uc003uqe.5, uc003uqe.6
UCSC ID: ENST00000350498.8
RefSeq Accession: NM_014891
Protein: Q13442 (aka HAP28_HUMAN)
CCDS: CCDS5662.1

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