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Ddx56 DEAD box helicase 56 [ Mus musculus (house mouse) ]

Gene ID: 52513, updated on 6-Jun-2024

Summary

Official Symbol
Ddx56provided by MGI
Official Full Name
DEAD box helicase 56provided by MGI
Primary source
MGI:MGI:1277172
See related
Ensembl:ENSMUSG00000004393 AllianceGenome:MGI:1277172
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
Noh61; D11Ertd619e; 2600001H07Rik
Summary
Predicted to enable several functions, including ATP binding activity; RNA binding activity; and RNA helicase activity. Predicted to be involved in positive regulation of neuron projection development. Predicted to act upstream of or within rRNA processing. Located in nucleolus. Orthologous to human DDX56 (DEAD-box helicase 56). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 10.6), CNS E11.5 (RPKM 10.6) and 28 other tissues See more
Orthologs
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Genomic context

See Ddx56 in Genome Data Viewer
Location:
11 A1; 11 3.94 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (6205343..6218389, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (6257545..6269786, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene NPC1 like intracellular cholesterol transporter 1 Neighboring gene STARR-seq mESC enhancer starr_28456 Neighboring gene predicted gene 11401 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:6167755-6167938 Neighboring gene STARR-positive B cell enhancer ABC_E9136 Neighboring gene transmembrane p24 trafficking protein 4 Neighboring gene STARR-positive B cell enhancer ABC_E6948 Neighboring gene predicted gene, 46270 Neighboring gene oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)

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)
  • Targeted (1) 

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 RNA binding IEA
Inferred from Electronic Annotation
more info
 
enables RNA helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables RNA stem-loop binding ISO
Inferred from Sequence Orthology
more info
 
enables helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables protein sequestering activity ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
probable ATP-dependent RNA helicase DDX56
Names
ATP-dependent 61 kDa nucleolar RNA helicase
DEAD (Asp-Glu-Ala-Asp) box polypeptide 56
DEAD box protein 56
DEAD-box RNA helicase
nucleolar RNA helicase homolog
NP_001404587.1
NP_080814.1

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_001417658.1NP_001404587.1  probable ATP-dependent RNA helicase DDX56 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL607152
    UniProtKB/TrEMBL
    Q8BK66
  2. NM_026538.4NP_080814.1  probable ATP-dependent RNA helicase DDX56 isoform 1

    See identical proteins and their annotated locations for NP_080814.1

    Status: VALIDATED

    Source sequence(s)
    AL607152
    Consensus CDS
    CCDS24414.1
    UniProtKB/Swiss-Prot
    Q9D0R4
    UniProtKB/TrEMBL
    Q5SVX3, Q8BK66
    Related
    ENSMUSP00000004507.5, ENSMUST00000004507.11
    Conserved Domains (3) summary
    COG0513
    Location:9544
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cd00079
    Location:234388
    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 ...
    cl21455
    Location:9219
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

RNA

  1. NR_184554.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL607152
  2. NR_184555.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL607152
  3. NR_184556.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL607152
  4. NR_184557.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL607152
  5. NR_184558.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL607152

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    6205343..6218389 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_004936989.1 RNA Sequence