Human Gene PLD4 (ENST00000392593.9_8) from GENCODE V47lift37
  Description: phospholipase D family member 4, transcript variant 2 (from RefSeq NM_138790.5)
Gencode Transcript: ENST00000392593.9_8
Gencode Gene: ENSG00000166428.14_11
Transcript (Including UTRs)
   Position: hg19 chr14:105,391,216-105,399,573 Size: 8,358 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr14:105,393,478-105,399,301 Size: 5,824 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:105,391,216-105,399,573)mRNA (may differ from genome)Protein (506 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PLD4_HUMAN
DESCRIPTION: RecName: Full=Phospholipase D4; Short=PLD 4; EC=3.1.4.4; AltName: Full=Choline phosphatase 4; AltName: Full=Phosphatidylcholine-hydrolyzing phospholipase D4;
CATALYTIC ACTIVITY: A phosphatidylcholine + H(2)O = choline + a phosphatidate.
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
SIMILARITY: Belongs to the phospholipase D family.
SIMILARITY: Contains 2 PLD phosphodiesterase domains.
SEQUENCE CAUTION: Sequence=AAQ89202.1; Type=Erroneous initiation;

-  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: 6.31 RPKM in Brain - Spinal cord (cervical c-1)
Total median expression: 52.10 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -38.60112-0.345 Picture PostScript Text
3' UTR -102.60272-0.377 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
IPR001736 - PLipase_D/transphosphatidylase

Pfam Domains:
PF00614 - Phospholipase D Active site motif
PF13091 - PLD-like domain
PF13918 - PLD-like domain

SCOP Domains:
56024 - Phospholipase D/nuclease

ModBase Predicted Comparative 3D Structure on Q96BZ4
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 orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003824 catalytic activity
GO:0004435 phosphatidylinositol phospholipase C activity
GO:0004630 phospholipase D activity
GO:0016787 hydrolase activity
GO:0070290 N-acylphosphatidylethanolamine-specific phospholipase D activity

Biological Process:
GO:0006629 lipid metabolic process
GO:0016042 lipid catabolic process
GO:0043647 inositol phosphate metabolic process

Cellular Component:
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK296188 - Homo sapiens cDNA FLJ56630 complete cds, highly similar to Homo sapiens phospholipase D family, member 4 (PLD4), mRNA.
AK295352 - Homo sapiens cDNA FLJ50089 complete cds, highly similar to Homo sapiens phospholipase D family, member 4 (PLD4), mRNA.
AY358843 - Homo sapiens clone DNA96869 PPRR2488 (UNQ2488) mRNA, complete cds.
AK090449 - Homo sapiens mRNA for FLJ00370 protein.
BC015003 - Homo sapiens phospholipase D family, member 4, mRNA (cDNA clone MGC:23565 IMAGE:4853026), complete cds.
JD050757 - Sequence 31781 from Patent EP1572962.
JD133563 - Sequence 114587 from Patent EP1572962.
CU677161 - Synthetic construct Homo sapiens gateway clone IMAGE:100019639 5' read PLD4 mRNA.
KJ903696 - Synthetic construct Homo sapiens clone ccsbBroadEn_13090 PLD4 gene, encodes complete protein.
JD128776 - Sequence 109800 from Patent EP1572962.
JD391777 - Sequence 372801 from Patent EP1572962.
JD461388 - Sequence 442412 from Patent EP1572962.
JD134135 - Sequence 115159 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
LIPASYN-PWY - phospholipases

Reactome (by CSHL, EBI, and GO)

Protein Q96BZ4 (Reactome details) participates in the following event(s):

R-HSA-1483142 PC is transphosphatidylated to PG by PLD1-4/6
R-HSA-2029471 Hydrolysis of PC to PA by PLD
R-HSA-1855214 PL(C)D4:3xCa2+ hydrolse PI(4,5)P2 to I(1,4,5)P3 and DAG at the ER membrane
R-HSA-1483148 Synthesis of PG
R-HSA-2029485 Role of phospholipids in phagocytosis
R-HSA-1483206 Glycerophospholipid biosynthesis
R-HSA-1855204 Synthesis of IP3 and IP4 in the cytosol
R-HSA-2029480 Fcgamma receptor (FCGR) dependent phagocytosis
R-HSA-1483257 Phospholipid metabolism
R-HSA-1483249 Inositol phosphate metabolism
R-HSA-168249 Innate Immune System
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: C14orf175, ENST00000392593.1, ENST00000392593.2, ENST00000392593.3, ENST00000392593.4, ENST00000392593.5, ENST00000392593.6, ENST00000392593.7, ENST00000392593.8, NM_138790, PLD4_HUMAN, Q6UWD2, Q96BZ4, uc318vfm.1, uc318vfm.2, UNQ2488/PRO5775
UCSC ID: ENST00000392593.9_8
RefSeq Accession: NM_138790.5
Protein: Q96BZ4 (aka PLD4_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.