Ddx6 DEAD-box helicase 6 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ddx6provided by MGI
Official Full Name: DEAD-box helicase 6provided by MGI
Primary source: MGI:MGI:104976
See related: Ensembl:ENSMUSG00000032097 AllianceGenome:MGI:104976
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: p54; rck; HLR2; mRCK/P54; 1110001P04Rik; C430015D01Rik; E230023J21Rik
Summary: Predicted to enable mRNA binding activity and protein domain specific binding activity. Acts upstream of or within negative regulation of neuron differentiation and stem cell population maintenance. Located in P-body. Is expressed in several structures, including brain; early conceptus; neural tube; oocyte; and trunk somite. Orthologous to human DDX6 (DEAD-box helicase 6). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 19.5), CNS E14 (RPKM 15.0) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 A5.2; 9 24.84 cM

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (44514113..44552028)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (44602983..44640731)

Chromosome 9 - NC_000075.7 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?

The RNA helicase DDX6 controls early mouse embryogenesis by repressing aberrant inhibition of BMP signaling through miRNA-mediated gene silencing.
Title: The RNA helicase DDX6 controls early mouse embryogenesis by repressing aberrant inhibition of BMP signaling through miRNA-mediated gene silencing.
RNA decay in processing bodies is indispensable for adipogenesis.
Title: RNA decay in processing bodies is indispensable for adipogenesis.
DDX6-null germ cells exhibited both similar and distinct defects from those observed in NANOS2-null germ cells. These results demonstrate that NANOS2 function is carried out via both P-body-dependent and -independent mechanisms. RNA-seq analyses further supported the phenotypic differences between DDX6-null and NANOS2-null germ cells, and indicated distinct molecular cascades involved in NANOS2-mediated gene regulation.
Title: ES-mediated chimera analysis revealed requirement of DDX6 for NANOS2 localization and function in mouse germ cells.
DDX6 is required for maintaining the quiescent state of primordial follicles.
Title: ELAVL2-directed RNA regulatory network drives the formation of quiescent primordial follicles.
The Ddx6 knockout cells were phenotypically and molecularly similar to cells lacking all microRNAs (Dgcr8 knockout ESCs). These data show that the loss of DDX6 can separate the two canonical functions of microRNAs: translational repression and transcript destabilization
Title: Decoupling the impact of microRNAs on translational repression versus RNA degradation in embryonic stem cells.
Data show that RNA helicase DDX6 colocalizes with ubiquitin-protein ligase TRIM32 in neural stem cells and neurons and that it increases the activity of microRNA Let-7a.
Title: The RNA helicase DDX6 regulates cell-fate specification in neural stem cells via miRNAs.
RCK/ p54 might be a determinant of colorectal cancer proliferation by activating the canonical Wnt pathway
Title: Knockdown of RCK/p54 expression by RNAi inhibits proliferation of human colorectal cancer cells in vitro and in vivo.
rck/p54 may play an important role in gametogenesis and early embryogenesis in mammals
Title: Expression of rck/p54, a DEAD-box RNA helicase, in gametogenesis and early embryogenesis of mice.
rck/p54 protein was ubiquitously expressed in mouse tissues
Title: Expression of the DEAD-box/RNA helicase rck/p54 in mouse tissues: implications for heterogeneous protein expression.

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Variation

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Alleles

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

Endonuclease-mediated (6) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

DDX6 (e-PCR)
- UniSTS:53285

UniSTS:265517 (e-PCR)
- UniSTS:265517

Ddx6 (e-PCR), detects polymorphism
- UniSTS:265517

Ddx6 (e-PCR), detects polymorphism
- UniSTS:265518

Ddx6 (e-PCR), detects polymorphism
- UniSTS:265519

UniSTS:265520 (e-PCR)
- UniSTS:265520

Ddx6 (e-PCR), detects polymorphism
- UniSTS:265520

Ddx6 (e-PCR), detects polymorphism
- UniSTS:480305

GDB:197860 (e-PCR)
- UniSTS:155974

34.MMHAP41FLD4.seq (e-PCR)
- UniSTS:124088

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
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 binding	IEA Inferred from Electronic Annotation 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 protein domain specific binding	IEA Inferred from Electronic Annotation more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in P-body assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within P-body assembly	ISO Inferred from Sequence Orthology more info	PubMed
involved_in P-body assembly	ISO Inferred from Sequence Orthology more info
involved_in P-body assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in chromatin looping	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_positive_effect miRNA-mediated gene silencing by inhibition of translation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_positive_effect miRNA-mediated gene silencing by inhibition of translation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of translation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within stem cell population maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in stress granule assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in viral RNA genome packaging	IEA Inferred from Electronic Annotation more info
involved_in viral RNA genome packaging	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in P-body	IBA Inferred from Biological aspect of Ancestor more info
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in P-body	ISO Inferred from Sequence Orthology more info	PubMed
part_of RISC complex	ISO Inferred from Sequence Orthology more info
located_in adherens junction	ISO Inferred from Sequence Orthology more info
located_in chromatoid body	ISO Inferred from Sequence Orthology more info
located_in concave side of sperm head	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic ribonucleoprotein granule	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasmic ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasmic stress granule	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress granule	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in heterochromatin	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in outer dense fiber	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in sperm annulus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: probable ATP-dependent RNA helicase DDX6

Names: ATP-dependent RNA helicase p54; D-E-A-D (aspartate-glutamate-alanine-aspartate) box polypeptide 6; DEAD (Asp-Glu-Ala-Asp) box polypeptide 6; DEAD (aspartate-glutamate-alanine-aspartate) box polypeptide 6; DEAD box protein 6; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 6; oncogene RCK homolog

NP_001104296.1

EC 3.6.4.13

NP_001344631.1

EC 3.6.4.13

NP_001344632.1

EC 3.6.4.13

NP_031867.1

EC 3.6.4.13

NP_851841.2

EC 3.6.4.13

XP_011240693.1

EC 3.6.4.13

XP_030099902.1

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_001110826.2 → NP_001104296.1 probable ATP-dependent RNA helicase DDX6 isoform 1

See identical proteins and their annotated locations for NP_001104296.1

Status: VALIDATED

Source sequence(s)

AC151971

Consensus CDS

CCDS23116.1

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68

Related

ENSMUSP00000128421.2, ENSMUST00000170489.2

Conserved Domains (2) summary

cd18787
Location:309 → 438

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

cd17940
Location:98 → 299

DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
NM_001357702.2 → NP_001344631.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

Consensus CDS

CCDS23116.1

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68

Conserved Domains (2) summary

cd18787
Location:309 → 438

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

cd17940
Location:98 → 299

DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
NM_001357703.2 → NP_001344632.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

Consensus CDS

CCDS23116.1

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68

Conserved Domains (2) summary

cd18787
Location:309 → 438

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

cd17940
Location:98 → 299

DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
NM_001434361.1 → NP_001421290.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68
NM_001434362.1 → NP_001421291.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68
NM_001434363.1 → NP_001421292.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68
NM_001434364.1 → NP_001421293.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68
NM_001434365.1 → NP_001421294.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68
NM_001434366.1 → NP_001421295.1 probable ATP-dependent RNA helicase DDX6 isoform 1

Status: VALIDATED

Source sequence(s)

AC151971

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68
NM_001434367.1 → NP_001421296.1 probable ATP-dependent RNA helicase DDX6 isoform 2

Status: VALIDATED

Source sequence(s)

AC151971
NM_001434368.1 → NP_001421297.1 probable ATP-dependent RNA helicase DDX6 isoform 2

Status: VALIDATED

Source sequence(s)

AC151971
NM_007841.5 → NP_031867.1 probable ATP-dependent RNA helicase DDX6 isoform 1

See identical proteins and their annotated locations for NP_031867.1

Status: VALIDATED

Source sequence(s)

AC151971

Consensus CDS

CCDS23116.1

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68

Conserved Domains (2) summary

cd18787
Location:309 → 438

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

cd17940
Location:98 → 299

DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
NM_181324.4 → NP_851841.2 probable ATP-dependent RNA helicase DDX6 isoform 1

See identical proteins and their annotated locations for NP_851841.2

Status: VALIDATED

Source sequence(s)

AC151971

Consensus CDS

CCDS23116.1

UniProtKB/Swiss-Prot

O54979, P54823, Q3UFI3, Q8BW68

Related

ENSMUSP00000149620.2, ENSMUST00000217034.2

Conserved Domains (2) summary

cd18787
Location:309 → 438

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

cd17940
Location:98 → 299

DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6

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_000075.7 Reference GRCm39 C57BL/6J

Range

44514113..44552028

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011242391.4 → XP_011240693.1 probable ATP-dependent RNA helicase DDX6 isoform X1

Conserved Domains (2) summary

cd18787
Location:309 → 438

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

cd17940
Location:98 → 299

DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
XM_030244042.2 → XP_030099902.1 probable ATP-dependent RNA helicase DDX6 isoform X1

Conserved Domains (2) summary

cd18787
Location:309 → 438

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

cd17940
Location:98 → 299

DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6