Atf5 activating transcription factor 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atf5provided by RGD
Official Full Name: activating transcription factor 5provided by RGD
Primary source: RGD:628902
See related: EnsemblRapid:ENSRNOG00000020060 AllianceGenome:RGD:628902
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 chromatin binding activity; heat shock protein binding activity; and transcription cis-regulatory region binding activity. Involved in negative regulation of apoptotic process; negative regulation of astrocyte differentiation; and positive regulation of DNA-templated transcription. Predicted to be located in centrosome; cytosol; and nucleoplasm. Predicted to be part of RNA polymerase II transcription regulator complex. Predicted to be active in nucleus. Orthologous to human ATF5 (activating transcription factor 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Liver (RPKM 970.4), Lung (RPKM 180.0) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q22

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (104432094..104437611, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (95295602..95299755, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (100807821..100812410, complement)

Chromosome 1 - NC_086019.1 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 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?

an essential role for HSP70 in maintaining high levels of ATF5 expression in glioma cells and support the conclusion that ATF5 is an important substrate protein of HSP70 that mediates HSP70-promoted cell survival in glioma cells.
Title: HSP70 protein promotes survival of C6 and U87 glioma cells by inhibition of ATF5 degradation.
Identified a novel ATF5 consensus DNA binding sequence. Demonstrate in C6 glioma and MCF-7 breast cancer cells that ATF5 occupies this sequence and that ATF5 activates reporter gene expression driven by this site.
Title: Identification of a novel DNA binding site and a transcriptional target for activating transcription factor 5 in c6 glioma and mcf-7 breast cancer cells.
Results show that serum shock of PC12 cells triggered circadian expression of Atf5.
Title: Evidence for circadian regulation of activating transcription factor 5 but not tyrosine hydroxylase by the chromaffin cell clock.
Results indicat that ATF5 promoted H9c2 cell survival in heat shock stress at least through activation of Hsp27.
Title: ATF5 promotes cell survival through transcriptional activation of Hsp27 in H9c2 cells.
ATF5 blocks the differentiation of neuroprogenitor cells into neurons and must be downregulated to permit this process to occur.
Title: Regulated expression of ATF5 is required for the progression of neural progenitor cells to neurons.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
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	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	TAS Traceable Author Statement more info	PubMed
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables heat shock protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables kinase binding	IEA Inferred from Electronic Annotation more info
enables kinase binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables tubulin binding	IEA Inferred from Electronic Annotation more info
enables tubulin binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cerebellar granule cell precursor proliferation	IEA Inferred from Electronic Annotation more info
involved_in cerebellar granule cell precursor proliferation	ISO Inferred from Sequence Orthology more info
involved_in cerebellar granule cell precursor proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in circadian rhythm	IEA Inferred from Electronic Annotation more info
involved_in circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in fat cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in fat cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in fat cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in multicellular organism growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
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 apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of apoptotic process	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 astrocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of cell cycle G2/M phase transition	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell cycle G2/M phase transition	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell cycle G2/M phase transition	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of neurogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in olfactory bulb interneuron development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within olfactory bulb interneuron development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within olfactory bulb interneuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within olfactory lobe development	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 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 post-embryonic development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within post-embryonic development	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
NOT acts_upstream_of_or_within regulation of cell cycle	ISO Inferred from Sequence Orthology more info
NOT acts_upstream_of_or_within regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in regulation of centrosome cycle	IEA Inferred from Electronic Annotation more info
involved_in regulation of centrosome cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of centrosome cycle	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of RNA polymerase II transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of RNA polymerase II transcription regulator complex	ISO Inferred from Sequence Orthology more info
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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 transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: cyclic AMP-dependent transcription factor ATF-5

Names: cAMP-dependent transcription factor ATF-5; transcription factor ATFx

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_172336.4 → NP_758839.3 cyclic AMP-dependent transcription factor ATF-5

See identical proteins and their annotated locations for NP_758839.3

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q6P788, Q8CIT6

UniProtKB/TrEMBL

A0A0G2JSS0, A6JAS5

Conserved Domains (1) summary

cd14692
Location:208 → 270

bZIP_ATF4; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-4 (ATF-4) and similar proteins: a DNA-binding and dimerization domain

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_086019.1 Reference GRCr8

Range

104432094..104437611 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006228980.4 → XP_006229042.1 cyclic AMP-dependent transcription factor ATF-5 isoform X1

See identical proteins and their annotated locations for XP_006229042.1

UniProtKB/Swiss-Prot

Q6P788, Q8CIT6

UniProtKB/TrEMBL

A0A0G2JSS0, A6JAS5

Related

ENSRNOP00000027260.3, ENSRNOT00000027260.6

Conserved Domains (1) summary

cd14692
Location:208 → 270

bZIP_ATF4; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-4 (ATF-4) and similar proteins: a DNA-binding and dimerization domain
XM_017588845.3 → XP_017444334.1 cyclic AMP-dependent transcription factor ATF-5 isoform X1

UniProtKB/Swiss-Prot

Q6P788, Q8CIT6

UniProtKB/TrEMBL

A0A0G2JSS0, A6JAS5

Conserved Domains (1) summary

cd14692
Location:208 → 270

bZIP_ATF4; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-4 (ATF-4) and similar proteins: a DNA-binding and dimerization domain