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

Gene ID: 13209, updated on 27-Nov-2024

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, Nov 2024]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 19.5), CNS E14 (RPKM 15.0) and 28 other tissues See more
Orthologs
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Genomic context

See Ddx6 in Genome Data Viewer
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_000075.7Genomic Context describing neighboring genes Neighboring gene B cell CLL/lymphoma 9-like Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:44323517-44323626 Neighboring gene STARR-positive B cell enhancer ABC_E5066 Neighboring gene C-X-C motif chemokine receptor 5 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:44345968-44346210 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:44348167-44348368 Neighboring gene predicted gene, 50603 Neighboring gene STARR-positive B cell enhancer mm9_chr9:44379241-44379542 Neighboring gene STARR-seq mESC enhancer starr_23977 Neighboring gene STARR-positive B cell enhancer ABC_E6727 Neighboring gene STARR-seq mESC enhancer starr_23980 Neighboring gene STARR-positive B cell enhancer ABC_E10542 Neighboring gene predicted gene, 30671 Neighboring gene STARR-positive B cell enhancer ABC_E8287 Neighboring gene cDNA sequence BC049987 Neighboring gene NSA2 ribosome biogenesis homolog pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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

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
NP_001344631.1
NP_001344632.1
NP_031867.1
NP_851841.2
XP_011240693.1
XP_030099902.1

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_001110826.2NP_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:309438
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17940
    Location:98299
    DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
  2. NM_001357702.2NP_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:309438
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17940
    Location:98299
    DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
  3. NM_001357703.2NP_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:309438
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17940
    Location:98299
    DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
  4. NM_001434361.1NP_001421290.1  probable ATP-dependent RNA helicase DDX6 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC151971
  5. NM_001434362.1NP_001421291.1  probable ATP-dependent RNA helicase DDX6 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC151971
  6. NM_001434363.1NP_001421292.1  probable ATP-dependent RNA helicase DDX6 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC151971
  7. NM_001434364.1NP_001421293.1  probable ATP-dependent RNA helicase DDX6 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC151971
  8. NM_001434365.1NP_001421294.1  probable ATP-dependent RNA helicase DDX6 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC151971
  9. NM_001434366.1NP_001421295.1  probable ATP-dependent RNA helicase DDX6 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC151971
  10. NM_001434367.1NP_001421296.1  probable ATP-dependent RNA helicase DDX6 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC151971
  11. NM_001434368.1NP_001421297.1  probable ATP-dependent RNA helicase DDX6 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC151971
  12. NM_007841.5NP_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:309438
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17940
    Location:98299
    DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
  13. NM_181324.4NP_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:309438
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17940
    Location:98299
    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

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    44514113..44552028
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    UniProtKB/Swiss-Prot
    O54979, P54823, Q3UFI3, Q8BW68
    Conserved Domains (2) summary
    cd18787
    Location:309438
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17940
    Location:98299
    DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
  2. XM_030244042.2XP_030099902.1  probable ATP-dependent RNA helicase DDX6 isoform X1

    UniProtKB/Swiss-Prot
    O54979, P54823, Q3UFI3, Q8BW68
    Conserved Domains (2) summary
    cd18787
    Location:309438
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17940
    Location:98299
    DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6