Human Gene POLDIP2 (ENST00000540200.6_7) from GENCODE V47lift37
  Description: DNA polymerase delta interacting protein 2, transcript variant 1 (from RefSeq NM_015584.5)
Gencode Transcript: ENST00000540200.6_7
Gencode Gene: ENSG00000004142.12_9
Transcript (Including UTRs)
   Position: hg19 chr17:26,673,659-26,684,550 Size: 10,892 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr17:26,675,143-26,684,473 Size: 9,331 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:26,673,659-26,684,550)mRNA (may differ from genome)Protein (364 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PDIP2_HUMAN
DESCRIPTION: RecName: Full=Polymerase delta-interacting protein 2; AltName: Full=38 kDa DNA polymerase delta interaction protein; Short=p38;
SUBUNIT: Interacts with PCNA and POLD2.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Contains 1 apaG domain.

-  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

+  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: 94.56 RPKM in Adrenal Gland
Total median expression: 1916.59 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 -36.9077-0.479 Picture PostScript Text
3' UTR -506.301484-0.341 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
IPR007474 - ApaG_domain
IPR011722 - Hemimethylated_DNA-bd_dom

Pfam Domains:
PF04379 - ApaG domain
PF08755 - Hemimethylated DNA-binding protein YccV like

SCOP Domains:
110069 - ApaG-like
141255 - YccV-like
55681 - Class II aaRS and biotin synthetases

ModBase Predicted Comparative 3D Structure on Q9Y2S7
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
No orthologNo orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0005515 protein binding

Biological Process:
GO:0016242 negative regulation of macroautophagy
GO:0045931 positive regulation of mitotic cell cycle
GO:0070584 mitochondrion morphogenesis

Cellular Component:
GO:0005634 nucleus
GO:0005739 mitochondrion
GO:0042645 mitochondrial nucleoid


-  Descriptions from all associated GenBank mRNAs
  LF209215 - JP 2014500723-A/16718: Polycomb-Associated Non-Coding RNAs.
JD042173 - Sequence 23197 from Patent EP1572962.
JD465673 - Sequence 446697 from Patent EP1572962.
JD037411 - Sequence 18435 from Patent EP1572962.
JD247934 - Sequence 228958 from Patent EP1572962.
JD159520 - Sequence 140544 from Patent EP1572962.
JD320626 - Sequence 301650 from Patent EP1572962.
JD384337 - Sequence 365361 from Patent EP1572962.
JD132384 - Sequence 113408 from Patent EP1572962.
JD227035 - Sequence 208059 from Patent EP1572962.
BC000655 - Homo sapiens polymerase (DNA-directed), delta interacting protein 2, mRNA (cDNA clone MGC:780 IMAGE:3349399), complete cds.
AL110156 - Homo sapiens mRNA; cDNA DKFZp586F1524 (from clone DKFZp586F1524).
AF077203 - Homo sapiens HSPC017 mRNA, complete cds.
BC018864 - Homo sapiens polymerase (DNA-directed), delta interacting protein 2, mRNA (cDNA clone IMAGE:3141168).
BC009265 - Homo sapiens polymerase (DNA-directed), delta interacting protein 2, mRNA (cDNA clone MGC:16425 IMAGE:3943941), complete cds.
JD229260 - Sequence 210284 from Patent EP1572962.
JD081084 - Sequence 62108 from Patent EP1572962.
LF326849 - JP 2014500723-A/134352: Polycomb-Associated Non-Coding RNAs.
AF179891 - Homo sapiens putative DNA polymerase delta p38 subunit (POLD4) mRNA, complete cds.
JD491673 - Sequence 472697 from Patent EP1572962.
JD265098 - Sequence 246122 from Patent EP1572962.
JD264428 - Sequence 245452 from Patent EP1572962.
JD445523 - Sequence 426547 from Patent EP1572962.
JD150207 - Sequence 131231 from Patent EP1572962.
JD297703 - Sequence 278727 from Patent EP1572962.
JD545549 - Sequence 526573 from Patent EP1572962.
AK293707 - Homo sapiens cDNA FLJ52257 complete cds, highly similar to Polymerase delta-interacting protein 2.
JD189456 - Sequence 170480 from Patent EP1572962.
JD560517 - Sequence 541541 from Patent EP1572962.
JD115108 - Sequence 96132 from Patent EP1572962.
JD119832 - Sequence 100856 from Patent EP1572962.
JD102531 - Sequence 83555 from Patent EP1572962.
JD185981 - Sequence 167005 from Patent EP1572962.
JD117716 - Sequence 98740 from Patent EP1572962.
JD162829 - Sequence 143853 from Patent EP1572962.
AK313232 - Homo sapiens cDNA, FLJ93736.
KJ898592 - Synthetic construct Homo sapiens clone ccsbBroadEn_07986 POLDIP2 gene, encodes complete protein.
AB463186 - Synthetic construct DNA, clone: pF1KB8677, Homo sapiens POLDIP2 gene for polymerase (DNA-directed), delta interacting protein 2, without stop codon, in Flexi system.
AM393112 - Synthetic construct Homo sapiens clone IMAGE:100002022 for hypothetical protein (POLDIP2 gene).
CU674322 - Synthetic construct Homo sapiens gateway clone IMAGE:100017112 5' read POLDIP2 mRNA.
MA562426 - JP 2018138019-A/134352: Polycomb-Associated Non-Coding RNAs.
MA444792 - JP 2018138019-A/16718: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R846, ENST00000540200.1, ENST00000540200.2, ENST00000540200.3, ENST00000540200.4, ENST00000540200.5, HSPC017, NM_015584, PDIP2_HUMAN, PDIP38 , POLD4, POLDIP2 , Q96JE4, Q9Y2S7, uc324ryv.1, uc324ryv.2
UCSC ID: ENST00000540200.6_7
RefSeq Accession: NM_015584.5
Protein: Q9Y2S7 (aka PDIP2_HUMAN or PDPT_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.