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

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 RNA stem-loop binding activity and protein sequestering activity. Predicted to be involved in defense response to virus; negative regulation of type I interferon production; and positive regulation of neuron projection development. Predicted to act upstream of with a negative effect on modulation by host of viral RNA genome replication. Located in nucleolus. Orthologous to human DDX56 (DEAD-box helicase 56). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in limb E14.5 (RPKM 10.6), CNS E11.5 (RPKM 10.6) and 28 other tissues See more
Orthologs: human all
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Genomic context

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_000077.7 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?

DEAD-box helicase 56 functions as an oncogene promote cell proliferation and invasion in gastric cancer via the FOXO1/p21 Cip1/c-Myc signaling pathway.
Title: DEAD-box helicase 56 functions as an oncogene promote cell proliferation and invasion in gastric cancer via the FOXO1/p21 Cip1/c-Myc signaling pathway.
Ddx56 maintains proliferation of mouse embryonic stem cells via ribosome assembly and interaction with the Oct4/Sox2 complex.
Title: Ddx56 maintains proliferation of mouse embryonic stem cells via ribosome assembly and interaction with the Oct4/Sox2 complex.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Targeted (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D11Ertd619e (e-PCR), detects polymorphism
- UniSTS:167066

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 helicase activity	IEA Inferred from Electronic Annotation more info
enables RNA stem-loop binding	IEA Inferred from Electronic Annotation more info
enables RNA stem-loop binding	ISO Inferred from Sequence Orthology 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 protein sequestering activity	IEA Inferred from Electronic Annotation more info
enables protein sequestering activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in chromatin looping	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in defense response to virus	IEA Inferred from Electronic Annotation more info
involved_in defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in modulation by host of viral RNA genome replication	IEA Inferred from Electronic Annotation more info
acts_upstream_of_negative_effect modulation by host of viral RNA genome replication	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of type I interferon production	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of type I interferon production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron projection development	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytosol	IEA Inferred from Electronic Annotation more info
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

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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

EC 3.6.4.13

NP_080814.1

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

Status: VALIDATED

Source sequence(s)

AL607152

UniProtKB/TrEMBL

Q8BK66
NM_026538.4 → NP_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:9 → 544

SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

cd00079
Location:234 → 388

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:9 → 219

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases