Ddx5 DEAD-box helicase 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ddx5provided by RGD
Official Full Name: DEAD-box helicase 5provided by RGD
Primary source: RGD:619906
See related: EnsemblRapid:ENSRNOG00000030680 AllianceGenome:RGD:619906
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables several functions, including RNA helicase activity; calcium-dependent protein binding activity; and calmodulin binding activity. Involved in regulation of viral genome replication. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of catalytic step 2 spliceosome. Predicted to be active in nucleus. Orthologous to human DDX5 (DEAD-box helicase 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 2320.8), Lung (RPKM 2127.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q32.1

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (92224393..92231928, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (91723508..91732210, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (94979759..94988461, complement)

Chromosome 10 - NC_086028.1 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?

Ddx5 Targeted Epigenetic Modification of Pericytes in Pulmonary Hypertension After Intrauterine Growth Restriction.
Title: Ddx5 Targeted Epigenetic Modification of Pericytes in Pulmonary Hypertension After Intrauterine Growth Restriction.
an important role of RNA helicase p68 in skin wound healing process.
Title: Involvement of RNA helicase p68 in skin wound healing process in rats.
MIF triggers vascular smooth muscle cell dedifferentiation by a p68-serum response factor signaling axis.
Title: Macrophage migration inhibitory factor triggers vascular smooth muscle cell dedifferentiation by a p68-serum response factor axis.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

PMC102575P1 (e-PCR)
- UniSTS:270088

D17S1990 (e-PCR)
- UniSTS:2178

Ddx5 (e-PCR), detects polymorphism
- UniSTS:506841

AA858847 (e-PCR)
- UniSTS:243426

DDX5 (e-PCR)
- UniSTS:266725

RH142936 (e-PCR)
- UniSTS:232183

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables MH2 domain binding	ISO Inferred from Sequence Orthology more info
enables R-SMAD binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA helicase activity	IBA Inferred from Biological aspect of Ancestor more info
enables RNA helicase activity	IDA Inferred from Direct Assay more info	PubMed
enables RNA helicase activity	ISO Inferred from Sequence Orthology more info
enables SMAD binding	ISO Inferred from Sequence Orthology more info
enables calcium-dependent protein binding	IDA Inferred from Direct Assay more info	PubMed
enables calmodulin binding	IDA Inferred from Direct Assay more info	PubMed
enables enzyme binding	IDA Inferred from Direct Assay more info	PubMed
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables nuclear androgen receptor binding	ISO Inferred from Sequence Orthology more info
enables pre-mRNA binding	ISO Inferred from Sequence Orthology more info
enables primary miRNA binding	ISO Inferred from Sequence Orthology more info
enables promoter-specific chromatin binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ribonucleoprotein complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables ribonucleoprotein complex binding	ISO Inferred from Sequence Orthology more info
enables transcription coregulator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in BMP signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in alternative mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in alternative mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in androgen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in epithelial to mesenchymal transition	ISO Inferred from Sequence Orthology more info
involved_in estrogen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway by p53 class mediator	ISO Inferred from Sequence Orthology more info
involved_in mRNA transcription	ISO Inferred from Sequence Orthology more info
involved_in miRNA transcription	ISO Inferred from Sequence Orthology more info
involved_in myoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA damage response, signal transduction by p53 class mediator	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in primary miRNA processing	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein import into nucleus	ISO Inferred from Sequence Orthology more info
involved_in regulation of alternative mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in regulation of androgen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
NOT involved_in regulation of miRNA transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of osteoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of skeletal muscle cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of viral genome replication	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of catalytic step 2 spliceosome	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	IBA Inferred from Biological aspect of Ancestor more info
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: probable ATP-dependent RNA helicase DDX5

Names: DEAD (Asp-Glu-Ala-Asp) box helicase 5; DEAD (Asp-Glu-Ala-Asp) box polypeptide 5; ddx5 gene protein; p68 RNA helicase

NP_001007614.1

EC 3.6.1.-

XP_008766535.1

EC 3.6.1.-

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)

NM_001007613.1 → NP_001007614.1 probable ATP-dependent RNA helicase DDX5

See identical proteins and their annotated locations for NP_001007614.1

Status: PROVISIONAL

Source sequence(s)

BC079036

UniProtKB/TrEMBL

B6DTP5, F7F4F8, Q6AYI1

Related

ENSRNOP00000041663.2, ENSRNOT00000048490.4

Conserved Domains (2) summary

PTZ00110
Location:6 → 507

PTZ00110; helicase; Provisional

pfam08061
Location:498 → 532

P68HR; P68HR (NUC004) repeat

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086028.1 Reference GRCr8

Range

92224393..92231928 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008768313.4 → XP_008766535.1 probable ATP-dependent RNA helicase DDX5 isoform X1

See identical proteins and their annotated locations for XP_008766535.1

UniProtKB/TrEMBL

B6DTP5, F7F4F8, Q6AYI1

Conserved Domains (2) summary

PTZ00110
Location:6 → 507

PTZ00110; helicase; Provisional

pfam08061
Location:498 → 532

P68HR; P68HR (NUC004) repeat