Ddx56 DEAD-box helicase 56 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ddx56provided by RGD
Full Name: DEAD-box helicase 56provided by RGD
Primary source: RGD:1303195
See related: Ensembl:ENSRNOG00000004670 AllianceGenome:RGD:1303195
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ddx21; RH-II/Gu
Summary: Predicted to enable several functions, including ATP binding activity; RNA helicase activity; and nucleic acid binding activity. Involved in positive regulation of neuron projection development. Predicted to be active in nucleolus. Orthologous to human DDX56 (DEAD-box helicase 56). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 91.5), Spleen (RPKM 80.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14q21

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (85325942..85336262, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (81112008..81122331, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (86378937..86387637, complement)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

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Markers

BM386234 (e-PCR)
- UniSTS:261196

AA926226 (e-PCR)
- UniSTS:248685

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP 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 hydrolase 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 defense response to virus	ISO Inferred from Sequence Orthology 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	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed

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	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: DEAD (Asp-Glu-Ala-Asp) box helicase 56; DEAD (Asp-Glu-Ala-Asp) box polypeptide 56; RNA helicase II/Gu; probable ATP-dependent RNA helicase DDX56-like

NP_001004211.1

EC 3.6.4.13

NP_001401918.1

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_001004211.1 → NP_001004211.1 probable ATP-dependent RNA helicase DDX56 isoform 1

See identical proteins and their annotated locations for NP_001004211.1

Status: PROVISIONAL

Source sequence(s)

BC078919

UniProtKB/TrEMBL

G3V6M5, Q6AYT6

Conserved Domains (3) summary

COG0513
Location:1 → 457

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

cd00079
Location:170 → 324

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:1 → 155

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
NM_001414989.1 → NP_001401918.1 probable ATP-dependent RNA helicase DDX56 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000014

UniProtKB/TrEMBL

A0A0G2K0E0, A6IKS3

Related

ENSRNOP00000071407.1, ENSRNOT00000089384.2