Ddx4 DEAD box helicase 4 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ddx4provided by MGI
Official Full Name: DEAD box helicase 4provided by MGI
Primary source: MGI:MGI:102670
See related: Ensembl:ENSMUSG00000021758 AllianceGenome:MGI:102670
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Mvh; VASA
Summary: Enables ATP hydrolysis activity. Involved in male meiosis I; regulatory ncRNA-mediated gene silencing; and spermatogenesis. Acts upstream of with a positive effect on piRNA-mediated retrotransposon silencing by heterochromatin formation. Acts upstream of or within regulation of protein localization. Located in cytoplasmic ribonucleoprotein granule; nucleus; and perinuclear region of cytoplasm. Part of ribonucleoprotein complex. Is expressed in several structures, including alimentary system mesentery; aorta-gonad-mesonephros; embryo ectoderm; gonad; and gonad primordium. Orthologous to human DDX4 (DEAD-box helicase 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward testis adult (RPKM 29.9) See more
Orthologs: human all
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Genomic context

Location:: 13 D2.2; 13 63.87 cM

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	13	NC_000079.7 (112734867..112790342, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	13	NC_000079.6 (112598333..112652633, complement)

Chromosome 13 - NC_000079.7 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?

Immunohistochemistry and immunocytochemistry analysis of PLZF and VASA in mice testis during spermatogenesis.
Title: Immunohistochemistry and immunocytochemistry analysis of PLZF and VASA in mice testis during spermatogenesis.
BHR also decreased the mRNA level of MVH in the bone marrow, and increased mRNA and protein level of MVH in the ovary o fpremature ovarian failure mice
Title: Effect and mechanism of Bushen Huoxue recipe on ovarian reserve in mice with premature ovarian failure.
Hgher expression levels of ~55-60 kDa MVH isoform in the ovaries were followed by the accumulations of preovulatory follicles.
Title: Expression Pattern of Mouse Vasa Homologue (MVH) in the Ovaries of C57BL/6 Female Mice.
In mouse oocytes the mitochondrion-originated germinal body-like structures accumulate MVH protein.
Title: In mouse oocytes the mitochondrion-originated germinal body-like structures accumulate mouse Vasa homologue (MVH) protein.
The results indicate the presence of a developmentally regulated mechanism in which Hat1 and p46 control the physiology of the chromatoid body by acetylation of MVH.
Title: Regulation of an RNA granule during spermatogenesis: acetylation of MVH in the chromatoid body of germ cells.
Vasa/Ddx4 gene can be involved in regulation of ground and primed states of pluripotency
Title: [Expression patterns of germ line specific genes in mouse and human pluripotent stem cells are associated with regulation of ground and primed state of pluripotency].
SPSB1 and SPSB4 bind strongly to both Par-4 and VASA peptides.
Title: Structural basis for Par-4 recognition by the SPRY domain- and SOCS box-containing proteins SPSB1, SPSB2, and SPSB4.
MVH plays crucial roles in the early phase of the ping-pong amplification cycle
Title: MVH in piRNA processing and gene silencing of retrotransposons.
The RNA helicase Vasa is another essential protein in germline development and arginine methylation is conserved across phyla
Title: Arginine methylation of vasa protein is conserved across phyla.
Dazl stimulates translation via the Mvh 3'-UTR. Dazl-mediated regulation of Mvh translation is crucial for mammalian spermatogenesis
Title: Dazl binds in vivo to specific transcripts and can regulate the pre-meiotic translation of Mvh in germ cells.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (7) 1 citation
Targeted (6) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AV206478 (e-PCR)
- UniSTS:165893

mDdx4 (e-PCR)
- UniSTS:514574

G65195 (e-PCR)
- UniSTS:225859

Ddx4 (e-PCR), detects polymorphism
- UniSTS:532297

PMC208779P1 (e-PCR)
- UniSTS:271981

Ddx4 (e-PCR), detects polymorphism
- UniSTS:525707

Ddx4 (e-PCR), detects polymorphism
- UniSTS:497292

Ddx4 (e-PCR), detects polymorphism
- UniSTS:142841

Ddx4 (e-PCR), detects polymorphism
- UniSTS:526842

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables ATP-dependent H2AZ histone chaperone activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent H3-H4 histone complex chaperone activity	IEA Inferred from Electronic Annotation more info
enables DNA clamp loader activity	IEA Inferred from Electronic Annotation more info
enables RNA helicase activity	IBA Inferred from Biological aspect of Ancestor more info
enables RNA helicase activity	IEA Inferred from Electronic Annotation more info
enables chromatin extrusion motor activity	IEA Inferred from Electronic Annotation more info
enables cohesin loader activity	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables molecular condensate scaffold activity	ISO Inferred from Sequence Orthology more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in chromatin looping	IEA Inferred from Electronic Annotation more info
involved_in flagellated sperm motility	ISO Inferred from Sequence Orthology more info
involved_in gamete generation	IBA Inferred from Biological aspect of Ancestor more info
involved_in germ cell development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within male meiosis I	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in male meiosis I	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in male meiotic nuclear division	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in piRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of protein localization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in secondary piRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within spermatogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spermatogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transposable element silencing by piRNA-mediated DNA methylation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_positive_effect transposable element silencing by piRNA-mediated heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in P granule	IBA Inferred from Biological aspect of Ancestor more info
located_in chromatoid body	IDA Inferred from Direct Assay more info	PubMed
located_in chromatoid body	ISO Inferred from Sequence Orthology more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	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
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in pi-body	IDA Inferred from Direct Assay more info	PubMed
located_in piP-body	IDA Inferred from Direct Assay more info	PubMed
part_of ribonucleoprotein complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: ATP-dependent RNA helicase DDX4

Names: D-E-A-D (aspartate-glutamate-alanine-aspartate) box polypeptide 4; DEAD (Asp-Glu-Ala-Asp) box polypeptide 4; DEAD (aspartate-glutamate-alanine-aspartate) box polypeptide 4; DEAD box polypeptide 4; DEAD box protein 4; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 4; mvh / m'vasa; probable ATP-dependent RNA helicase DDX4; vasa homolog

NP_001139357.1

EC 3.6.4.13

NP_034159.1

EC 3.6.4.13

XP_006517587.1

EC 3.6.4.13

XP_011242920.1

EC 3.6.4.13

XP_011242921.1

EC 3.6.4.13

XP_011242923.1

EC 3.6.4.13

XP_011242924.1

EC 3.6.4.13

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_001145885.1 → NP_001139357.1 ATP-dependent RNA helicase DDX4 isoform 1

See identical proteins and their annotated locations for NP_001139357.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and it encodes the longer protein (isoform 1).

Source sequence(s)

AK133366, BE860399, DT906923

Consensus CDS

CCDS49366.1

UniProtKB/TrEMBL

Q3V086

Related

ENSMUSP00000096769.3, ENSMUST00000099166.10

Conserved Domains (3) summary

smart00487
Location:302 → 502

DEXDc; DEAD-like helicases superfamily

cd00079
Location:513 → 642

HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...

cd00268
Location:289 → 496

DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif ...
NM_010029.2 → NP_034159.1 ATP-dependent RNA helicase DDX4 isoform 2

See identical proteins and their annotated locations for NP_034159.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1.

Source sequence(s)

AK014844, BE860399, DT906923

Consensus CDS

CCDS26774.1

UniProtKB/Swiss-Prot

Q61496, Q9D5X7

Related

ENSMUSP00000075157.6, ENSMUST00000075748.7

Conserved Domains (3) summary

smart00487
Location:276 → 476

DEXDc; DEAD-like helicases superfamily

cd00079
Location:487 → 616

HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...

cd00268
Location:263 → 470

DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif ...

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_000079.7 Reference GRCm39 C57BL/6J

Range

112734867..112790342 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011244618.3 → XP_011242920.1 ATP-dependent RNA helicase DDX4 isoform X1

See identical proteins and their annotated locations for XP_011242920.1

Conserved Domains (2) summary

cd18787
Location:524 → 653

SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases

cd18052
Location:266 → 518

DEADc_DDX4; DEAD-box helicase domain of DEAD box protein 4
XM_006517524.5 → XP_006517587.1 ATP-dependent RNA helicase DDX4 isoform X3

Conserved Domains (2) summary

cd18787
Location:519 → 648

SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases

cd18052
Location:261 → 513

DEADc_DDX4; DEAD-box helicase domain of DEAD box protein 4
XM_011244622.4 → XP_011242924.1 ATP-dependent RNA helicase DDX4 isoform X2

Conserved Domains (2) summary

cd18787
Location:519 → 648

SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases

cd18052
Location:261 → 513

DEADc_DDX4; DEAD-box helicase domain of DEAD box protein 4
XM_011244621.3 → XP_011242923.1 ATP-dependent RNA helicase DDX4 isoform X1

See identical proteins and their annotated locations for XP_011242923.1

Conserved Domains (2) summary

cd18787
Location:524 → 653

SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases

cd18052
Location:266 → 518

DEADc_DDX4; DEAD-box helicase domain of DEAD box protein 4
XM_011244619.3 → XP_011242921.1 ATP-dependent RNA helicase DDX4 isoform X1

See identical proteins and their annotated locations for XP_011242921.1

Conserved Domains (2) summary

cd18787
Location:524 → 653

SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases

cd18052
Location:266 → 518

DEADc_DDX4; DEAD-box helicase domain of DEAD box protein 4