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Ddit3 DNA-damage inducible transcript 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29467, updated on 9-Dec-2024

Summary

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Official Symbol: Ddit3provided by RGD
Official Full Name: DNA-damage inducible transcript 3provided by RGD
Primary source: RGD:62391
See related: EnsemblRapid:ENSRNOG00000006789 AllianceGenome:RGD:62391
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: RM4; CHOP; Chop10; CHOP-10; Gadd153
Summary: Enables DNA-binding transcription factor activity and protein heterodimerization activity. Contributes to sequence-specific DNA binding activity. Involved in several processes, including luteolysis; positive regulation of autophagy in response to ER overload; and regulation of DNA-templated transcription. Located in nucleus. Part of CHOP-C/EBP complex. Biomarker of several diseases, including borna disease; brain ischemia; chronic obstructive pulmonary disease; pulmonary venoocclusive disease; and ureteral obstruction. Human ortholog(s) of this gene implicated in myxoid liposarcoma. Orthologous to human DDIT3 (DNA damage inducible transcript 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Heart (RPKM 121.0), Adrenal (RPKM 80.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

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See Ddit3 in Genome Data Viewer

Location:: 7q22

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (65001695..65006517)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (63115645..63121203)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (70578564..70585074)

Chromosome 7 - NC_086025.1 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?

GRP78/IRE1 and cGAS/STING pathway crosstalk through CHOP facilitates iodoacetic acid-mediated testosterone decline.
Title: GRP78/IRE1 and cGAS/STING pathway crosstalk through CHOP facilitates iodoacetic acid-mediated testosterone decline.
CYP2E1 triggered GRP78/ATF6/CHOP signaling axis inhibit apoptosis and promotes progression of hepatocellular carcinoma.
Title: CYP2E1 triggered GRP78/ATF6/CHOP signaling axis inhibit apoptosis and promotes progression of hepatocellular carcinoma.
HIIT and MICT attenuate high-fat diet-induced hepatic lipid accumulation and ER stress via the PERK-ATF4-CHOP signaling pathway.
Title: HIIT and MICT attenuate high-fat diet-induced hepatic lipid accumulation and ER stress via the PERK-ATF4-CHOP signaling pathway.
Pcsk6 Deficiency Promotes Cardiomyocyte Senescence by Modulating Ddit3-Mediated ER Stress.
Title: Pcsk6 Deficiency Promotes Cardiomyocyte Senescence by Modulating Ddit3-Mediated ER Stress.
Xbp1s-Ddit3 promotes MCT-induced pulmonary hypertension.
Title: Xbp1s-Ddit3 promotes MCT-induced pulmonary hypertension.
Dexmedetomidine reversed hypoxia/reoxygenation injury-induced oxidative stress and endoplasmic reticulum stress-dependent apoptosis of cardiomyocytes via SIRT1/CHOP signaling pathway.
Title: Dexmedetomidine reversed hypoxia/reoxygenation injury-induced oxidative stress and endoplasmic reticulum stress-dependent apoptosis of cardiomyocytes via SIRT1/CHOP signaling pathway.
Regulation of the cerebrovascular smooth muscle cell phenotype by mitochondrial oxidative injury and endoplasmic reticulum stress in simulated microgravity rats via the PERK-eIF2alpha-ATF4-CHOP pathway.
Title: Regulation of the cerebrovascular smooth muscle cell phenotype by mitochondrial oxidative injury and endoplasmic reticulum stress in simulated microgravity rats via the PERK-eIF2α-ATF4-CHOP pathway.
By activating the Nupr1/Chop-mediated pathway.
Title: Epigenetic silencing of microRNA-874-3p implicates in erectile dysfunction in diabetic rats by activating the Nupr1/Chop-mediated pathway.
Endoplasmic reticulum stress markers GRP78 and CHOP increase significantly following ischemic injury.
Title: The value of endoplasmic reticulum stress markers (GRP78 and CHOP) in the diagnosis of acute mesenteric ischemia.
During intervertebral disc degeneration, TNF-alpha binds to TNF receptors and controls the JNK/ERK-MAPK and NF-kappaB signaling pathways in nucleus pulposus cells, increasing CHOP expression
Title: TNF-α enhances apoptosis by promoting chop expression in nucleus pulposus cells: role of the MAPK and NF-κB pathways.

Submit: New GeneRIF Correction See all GeneRIFs (60)

General gene information

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Markers

RH141558 (e-PCR)
- UniSTS:223552

RH128750 (e-PCR)
- UniSTS:212058

PMC152658P2 (e-PCR)
- UniSTS:271239

Ddit3 (e-PCR), detects polymorphism
- UniSTS:525963

PMC150726P4 (e-PCR)
- UniSTS:271076

RH140361 (e-PCR)
- UniSTS:222437

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables cAMP response element binding protein binding	IEA Inferred from Electronic Annotation more info
enables cAMP response element binding protein binding	ISO Inferred from Sequence Orthology more info
enables cAMP response element binding protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables leucine zipper domain binding	IEA Inferred from Electronic Annotation more info
enables leucine zipper domain binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein heterodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein heterodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
contributes_to sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	IEA Inferred from Electronic Annotation more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info
enables transcription regulator activator activity	ISO Inferred from Sequence Orthology more info
enables transcription regulator inhibitor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in ER overload response	IBA Inferred from Biological aspect of Ancestor more info
involved_in ER overload response	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ER overload response	ISO Inferred from Sequence Orthology more info
involved_in HRI-mediated signaling	IEA Inferred from Electronic Annotation more info
involved_in HRI-mediated signaling	ISO Inferred from Sequence Orthology more info
involved_in Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in anterior/posterior axis specification	ISO Inferred from Sequence Orthology more info
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in artery development	ISO Inferred from Sequence Orthology more info
involved_in blood vessel maturation	ISO Inferred from Sequence Orthology more info
involved_in blood vessel maturation	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell redox homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell redox homeostasis	ISO Inferred from Sequence Orthology more info
involved_in cellular response to manganese ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in embryonic organ development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within endoplasmic reticulum unfolded protein response	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum unfolded protein response	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum unfolded protein response	ISS Inferred from Sequence or Structural Similarity more info
involved_in establishment of protein localization to mitochondrion	ISO Inferred from Sequence Orthology more info
involved_in gene expression	ISO Inferred from Sequence Orthology more info
involved_in integrated stress response signaling	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress	IBA Inferred from Biological aspect of Ancestor more info
involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress	ISS Inferred from Sequence or Structural Similarity more info
involved_in intrinsic apoptotic signaling pathway in response to nitrosative stress	ISO Inferred from Sequence Orthology more info
involved_in luteolysis	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of CREB transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cold-induced thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cold-induced thermogenesis	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in negative regulation of determination of dorsal identity	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of determination of dorsal identity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of fat cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-17 production	IEA Inferred from Electronic Annotation more info
acts_upstream_of negative regulation of interleukin-17 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-4 production	IEA Inferred from Electronic Annotation more info
acts_upstream_of negative regulation of interleukin-4 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of myoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of myoblast differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	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 negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of type II interferon production	IEA Inferred from Electronic Annotation more info
acts_upstream_of negative regulation of type II interferon production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of autophagy in response to ER overload	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of interleukin-8 production	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of interleukin-8 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-8 production	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of intrinsic apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of intrinsic apoptotic signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neuron apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cell cycle	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	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 release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
involved_in release of sequestered calcium ion into cytosol	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to amphetamine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to endoplasmic reticulum stress	IDA Inferred from Direct Assay more info	PubMed
involved_in response to endoplasmic reticulum stress	ISO Inferred from Sequence Orthology more info
involved_in response to endoplasmic reticulum stress	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to hydrogen peroxide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to kainic acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to oxidative stress	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to platelet-derived growth factor	ISO Inferred from Sequence Orthology more info
involved_in response to starvation	ISO Inferred from Sequence Orthology more info
involved_in response to starvation	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to toxic substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to unfolded protein	IEA Inferred from Electronic Annotation more info
involved_in response to unfolded protein	ISO Inferred from Sequence Orthology more info
involved_in response to unfolded protein	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to wounding	ISO Inferred from Sequence Orthology more info
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within sensory perception of sound	ISO Inferred from Sequence Orthology more info
involved_in vascular associated smooth muscle cell migration	ISO Inferred from Sequence Orthology more info
involved_in vascular associated smooth muscle cell proliferation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of CHOP-ATF3 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of CHOP-ATF3 complex	IEA Inferred from Electronic Annotation more info
part_of CHOP-ATF3 complex	ISO Inferred from Sequence Orthology more info
part_of CHOP-ATF4 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of CHOP-ATF4 complex	IEA Inferred from Electronic Annotation more info
part_of CHOP-ATF4 complex	ISO Inferred from Sequence Orthology more info
part_of CHOP-C/EBP complex	IBA Inferred from Biological aspect of Ancestor more info
part_of CHOP-C/EBP complex	IEA Inferred from Electronic Annotation more info
part_of CHOP-C/EBP complex	IPI Inferred from Physical Interaction more info	PubMed
part_of CHOP-C/EBP complex	ISO Inferred from Sequence Orthology more info
part_of RNA polymerase II transcription regulator complex	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	NAS Non-traceable Author Statement more info	PubMed
part_of protein-DNA complex	IEA Inferred from Electronic Annotation more info
part_of protein-DNA complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DNA damage-inducible transcript 3 protein

Names: C/EBP homologous protein; C/EBP zeta; CCAAT/enhancer-binding protein homologous protein; DDIT-3; c/EBP-homologous protein 10; growth arrest and DNA-damage-inducible protein GADD153

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_001109986.1 → NP_001103456.1 DNA damage-inducible transcript 3 protein

See identical proteins and their annotated locations for NP_001103456.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.

Source sequence(s)

AW916370, BC100664, BF282473, CF977695

UniProtKB/Swiss-Prot

Q62857

UniProtKB/TrEMBL

Q496Y7

Conserved Domains (2) summary

smart00338
Location:100 → 160

BRLZ; basic region leucin zipper

cd14686
Location:98 → 152

bZIP; coiled coil [structural motif]
NM_024134.2 → NP_077048.2 DNA damage-inducible transcript 3 protein

See identical proteins and their annotated locations for NP_077048.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks a segment in the 5' UTR, compared to variant 2. Variants 1 and 2 both encode the same protein.

Source sequence(s)

AW916370, BF282473, CF977695, U30186

UniProtKB/Swiss-Prot

Q62857

UniProtKB/TrEMBL

Q496Y7

Related

ENSRNOP00000008941.5, ENSRNOT00000008941.7

Conserved Domains (2) summary

smart00338
Location:100 → 160

BRLZ; basic region leucin zipper

cd14686
Location:98 → 152

bZIP; coiled coil [structural motif]