Ddx3x DEAD-box helicase 3, X-linked [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ddx3xprovided by RGD
Official Full Name: DEAD-box helicase 3, X-linkedprovided by RGD
Primary source: RGD:1564771
See related: Ensembl:ENSRNOG00000023383 AllianceGenome:RGD:1564771
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
Summary: Predicted to enable several functions, including helicase activity; nucleic acid binding activity; and nucleoside-triphosphatase activity. Predicted to be involved in several processes, including positive regulation of type I interferon production; regulation of cellular protein metabolic process; and regulation of signal transduction. Predicted to act upstream of or within with a negative effect on primary miRNA processing. Predicted to be located in several cellular components, including centrosome; cytoplasmic stress granule; and nucleoplasm. Predicted to be part of NLRP3 inflammasome complex. Predicted to be active in P granule and nucleus. Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability. Orthologous to several human genes including DDX3X (DEAD-box helicase 3 X-linked). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 1032.7), Kidney (RPKM 995.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq12

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (12152346..12165983, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (9479532..9493169, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (10400363..10414010, complement)

Chromosome X - NC_086039.1 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: 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?

DDX3X alleviates doxorubicin-induced cardiotoxicity by regulating Wnt/beta-catenin signaling pathway in an in vitro model.
Title: DDX3X alleviates doxorubicin-induced cardiotoxicity by regulating Wnt/β-catenin signaling pathway in an in vitro model.

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

SHGC-33274 (e-PCR)
- UniSTS:167681

DDX3 (e-PCR)
- UniSTS:278276

Ddx3 (e-PCR), detects polymorphism
- UniSTS:255281

U42386 (e-PCR)
- UniSTS:125746

RH78345 (e-PCR)
- UniSTS:34689

Ddx3 (e-PCR), detects polymorphism
- UniSTS:256392

DBX (e-PCR)
- UniSTS:266902

L25126 (e-PCR)
- UniSTS:124886

Ddx3x (e-PCR), detects polymorphism
- UniSTS:506840

RH127853 (e-PCR)
- UniSTS:211163

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	ISO Inferred from Sequence Orthology more info
enables CTPase activity	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA helicase activity	ISO Inferred from Sequence Orthology more info
enables GTPase activity	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	ISO Inferred from Sequence Orthology more info
enables RNA stem-loop binding	ISO Inferred from Sequence Orthology more info
enables RNA strand annealing activity	ISO Inferred from Sequence Orthology more info
enables eukaryotic initiation factor 4E binding	ISO Inferred from Sequence Orthology more info
enables gamma-tubulin binding	ISO Inferred from Sequence Orthology more info
enables mRNA 5'-UTR binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables poly(A) binding	ISO Inferred from Sequence Orthology more info
enables primary miRNA binding	ISO Inferred from Sequence Orthology more info
enables protein serine/threonine kinase activator activity	ISO Inferred from Sequence Orthology more info
enables ribonucleoside triphosphate phosphatase activity	ISO Inferred from Sequence Orthology more info
enables ribosomal small subunit binding	ISO Inferred from Sequence Orthology more info
enables signaling adaptor activity	ISO Inferred from Sequence Orthology more info
enables translation initiation factor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA duplex unwinding	IEA Inferred from Electronic Annotation more info
involved_in RNA secondary structure unwinding	ISO Inferred from Sequence Orthology more info
involved_in Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to arsenic-containing substance	ISO Inferred from Sequence Orthology more info
involved_in cellular response to osmotic stress	ISO Inferred from Sequence Orthology more info
involved_in cellular response to virus	ISO Inferred from Sequence Orthology more info
involved_in chromosome segregation	ISO Inferred from Sequence Orthology more info
involved_in cytosolic ribosome assembly	ISO Inferred from Sequence Orthology more info
involved_in extrinsic apoptotic signaling pathway via death domain receptors	ISO Inferred from Sequence Orthology more info
involved_in gamete generation	IBA Inferred from Biological aspect of Ancestor more info
involved_in innate immune response	ISO Inferred from Sequence Orthology more info
involved_in intracellular signal transduction	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in lipid homeostasis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation by host of viral genome replication	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of extrinsic apoptotic signaling pathway via death domain receptors	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of non-canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of G1/S transition of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of NLRP3 inflammasome complex assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interferon-alpha production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interferon-beta production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of non-canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein K63-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein acetylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein autophosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of toll-like receptor 7 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of toll-like receptor 8 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation in response to endoplasmic reticulum stress	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translational initiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of type I interferon production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of viral genome replication	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within_negative_effect primary miRNA processing	ISO Inferred from Sequence Orthology more info
involved_in protein localization to cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info
involved_in response to virus	ISO Inferred from Sequence Orthology more info
involved_in stress granule assembly	ISO Inferred from Sequence Orthology more info
involved_in translational initiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of NLRP3 inflammasome complex	ISO Inferred from Sequence Orthology more info
is_active_in P granule	IBA Inferred from Biological aspect of Ancestor more info
located_in cell leading edge	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
part_of cytosolic small ribosomal subunit	ISO Inferred from Sequence Orthology more info
part_of eukaryotic translation initiation factor 3 complex	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
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ATP-dependent RNA helicase DDX3X

Names: DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked; DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3, X-linked

NP_001385680.1

EC 3.6.4.13

NP_001385681.1

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_001398751.1 → NP_001385680.1 ATP-dependent RNA helicase DDX3X isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

D4ADE8

Related

ENSRNOP00000029702.6, ENSRNOT00000039551.7

Conserved Domains (2) summary

PTZ00110
Location:56 → 579

PTZ00110; helicase; Provisional

cd18051
Location:159 → 409

DEADc_DDX3; DEAD-box helicase domain of DEAD box protein 3
NM_001398752.1 → NP_001385681.1 ATP-dependent RNA helicase DDX3X isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

Conserved Domains (2) summary

PTZ00110
Location:57 → 580

PTZ00110; helicase; Provisional

cd18051
Location:160 → 410

DEADc_DDX3; DEAD-box helicase domain of DEAD box protein 3

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_086039.1 Reference GRCr8

Range

12152346..12165983 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001108246.1: Suppressed sequence

Description

NM_001108246.1: This RefSeq was removed because currently there is insufficient support for the transcript.