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Pld4 phospholipase D family member 4 [ Mus musculus (house mouse) ]

Gene ID: 104759, updated on 9-Aug-2024

Summary

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Official Symbol
Pld4provided by MGI
Official Full Name
phospholipase D family member 4provided by MGI
Primary source
MGI:MGI:2144765
See related
Ensembl:ENSMUSG00000052160 AllianceGenome:MGI:2144765
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
thss
Summary
Enables single-stranded DNA 5'-3' exodeoxyribonuclease activity. Involved in regulation of cytokine production involved in inflammatory response. Acts upstream of or within hematopoietic progenitor cell differentiation and phagocytosis. Located in several cellular components, including cytoplasmic vesicle; endoplasmic reticulum membrane; and trans-Golgi network membrane. Is expressed in brain and hemolymphoid system. Used to study systemic lupus erythematosus. Orthologous to human PLD4 (phospholipase D family member 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in spleen adult (RPKM 135.8), mammary gland adult (RPKM 57.0) and 14 other tissues See more
Orthologs
human all
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Genomic context

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See Pld4 in Genome Data Viewer
Location:
12 F1; 12 61.2 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (112727089..112735420)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (112760446..112768986)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene centrosomal protein 170B Neighboring gene microRNA 6940 Neighboring gene transmembrane protein 11 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E5361 Neighboring gene AHNAK nucleoprotein 2 Neighboring gene clathrin binding box of aftiphilin containing 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Microglial phospholipase D4 deficiency influences myelination during brain development. Chiba T, et al. Proc Jpn Acad Ser B Phys Biol Sci, 2016. PMID 27477458, Free PMC Article
  2. Cleavage of DNA and RNA by PLD3 and PLD4 limits autoinflammatory triggering by multiple sensors. Gavin AL, et al. Nat Commun, 2021 Oct 7. PMID 34620855, Free PMC Article
  3. PLD4 is a genetic determinant to systemic lupus erythematosus and involved in murine autoimmune phenotypes. Akizuki S, et al. Ann Rheum Dis, 2019 Apr. PMID 30679154
  4. Targeting Phospholipase D4 Attenuates Kidney Fibrosis. Trivedi P, et al. J Am Soc Nephrol, 2017 Dec. PMID 28814511, Free PMC Article
  5. PLD$ is involved in phagocytosis of microglia: expression and localization changes of PLD4 are correlated with activation state of microglia. Otani Y, et al. PLoS One, 2011. PMID 22102906, Free PMC Article

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Cleavage of DNA and RNA by PLD3 and PLD4 limits autoinflammatory triggering by multiple sensors.
    Title: Cleavage of DNA and RNA by PLD3 and PLD4 limits autoinflammatory triggering by multiple sensors.
  2. Pld4 mutant mice revealed autoimmune phenotypes suggesting functional involvement of PLD4 with the basics of systemic lupus erythematosus.
    Title: PLD4 is a genetic determinant to systemic lupus erythematosus and involved in murine autoimmune phenotypes.
  3. this study shows that PLD3 and PLD4 are single-stranded acid exonucleases that regulate endosomal nucleic-acid sensing
    Title: PLD3 and PLD4 are single-stranded acid exonucleases that regulate endosomal nucleic-acid sensing.
  4. Phospholipase D4 has a role in kidney fibrosis
    Title: Targeting Phospholipase D4 Attenuates Kidney Fibrosis.
  5. microglia may have a transient role in myelination via a PLD4-related mechanism during development.
    Title: Microglial phospholipase D4 deficiency influences myelination during brain development.
  6. Results showed that PLD4 is a non-PLD, HKD motif-carrying, transmembrane glycoprotein localized in the endoplasmic reticulum and Golgi apparatus.
    Title: Phospholipase D family member 4, a transmembrane glycoprotein with no phospholipase D activity, expression in spleen and early postnatal microglia.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Chemically induced (ENU) (1)  1 citation
  • Endonuclease-mediated (3) 
  • Spontaneous (1) 
  • Targeted (2)  1 citation

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables catalytic activity IEA
Inferred from Electronic Annotation
more info
  
enables exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
  
NOT enables phospholipase D activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables phospholipase D activity TAS
Traceable Author Statement
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables single-stranded DNA 5'-3' DNA exonuclease activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within establishment of localization in cell IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in hematopoietic progenitor cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within hematopoietic progenitor cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within inflammatory response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in phagocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within phagocytosis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of cytokine production involved in inflammatory response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
  
located_in early endosome IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
  
located_in endosome IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in phagocytic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in phagocytic vesicle IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in trans-Golgi network membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in trans-Golgi network membrane IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
5'-3' exonuclease PLD4
Names
PLD 4
choline phosphatase 4
phosphatidylcholine-hydrolyzing phospholipase D4
phospholipase D4
NP_849242.1
XP_017170415.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_178911.4 → NP_849242.1  5'-3' exonuclease PLD4

    See identical proteins and their annotated locations for NP_849242.1

    Status: PROVISIONAL

    Source sequence(s)
    AC124353, MF597757
    Consensus CDS
    CCDS26195.1
    UniProtKB/Swiss-Prot
    Q3TD59, Q3UA19, Q6PDR0, Q8BG07, Q8BR69
    Related
    ENSMUSP00000067002.4, ENSMUST00000063888.5
    Conserved Domains (2) summary
    PHA02820
    Location:94 → 501
    PHA02820; phospholipase-D-like protein; Provisional
    cl15239
    Location:302 → 489
    PLDc_SF; Catalytic domain of phospholipase D superfamily proteins

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000078.7 Reference GRCm39 C57BL/6J

    Range
    112727089..112735420
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017314926.3 → XP_017170415.1  5'-3' exonuclease PLD4 isoform X1

    Conserved Domains (1) summary
    cl15239
    Location:96 → 237
    PLDc_SF; Catalytic domain of phospholipase D superfamily proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BG07.1 GenPept UniProtKB/Swiss-Prot:Q8BG07

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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