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

Summary

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' DNA exonuclease activity. Involved in regulation of cytokine production involved in inflammatory response. Acts upstream of or within establishment of localization in cell; 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, Nov 2024]
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

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_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
Phospholipase D4 has a role in kidney fibrosis
Title: Targeting Phospholipase D4 Attenuates Kidney Fibrosis.
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.
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.

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
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
involved_in DNA metabolic process	IEA Inferred from Electronic Annotation more info
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
involved_in inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in 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 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
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

EC 3.1.16.1

XP_017170415.1

EC 3.1.16.1

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)

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

NC_000078.7 Reference GRCm39 C57BL/6J

Range

112727089..112735420

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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