atf4a activating transcription factor 4a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: atf4aprovided by ZNC
Official Full Name: activating transcription factor 4aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-2340
See related: Ensembl:ENSDARG00000111939 AllianceGenome:ZFIN:ZDB-GENE-040426-2340
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: atf4; atf4b1; zgc:85951; wu:fj01c08; wu:fk30b04
Summary: Predicted to enable several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; cAMP response element binding protein binding activity; and protein heterodimerization activity. Predicted to be involved in several processes, including HRI-mediated signaling; animal organ development; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated and rhythmic process. Predicted to be located in cytoplasm. Predicted to be part of ATF1-ATF4 transcription factor complex and ATF4-CREB1 transcription factor complex. Predicted to be active in nucleus. Is expressed in eye; head; hindbrain; liver; and trunk. Human ortholog(s) of this gene implicated in prostate carcinoma. Orthologous to human ATF4 (activating transcription factor 4). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 6

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	6	NC_007117.7 (269062..272554)
105	previous assembly	GRCz10 (GCF_000002035.5)	6	NC_007117.6 (251015..254503)

Chromosome 6 - NC_007117.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

G44987 (e-PCR)
- UniSTS:105789

fk30b04.x1 (e-PCR)
- UniSTS:200774

z19796 (e-PCR), detects polymorphism
- UniSTS:238969

fk89g04.x1 (e-PCR)
- UniSTS:201689

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation 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 factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables cAMP response element binding protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein heterodimerization activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in HRI-mediated signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in PERK-mediated unfolded protein response	ISS Inferred from Sequence or Structural Similarity more info
involved_in bone mineralization	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to amino acid starvation	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to oxidative stress	ISS Inferred from Sequence or Structural Similarity more info
involved_in embryonic hemopoiesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in endoplasmic reticulum unfolded protein response	ISS Inferred from Sequence or Structural Similarity more info
involved_in integrated stress response signaling	ISS Inferred from Sequence or Structural Similarity 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 lens fiber cell morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of osteoblast differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of synaptic plasticity	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to endoplasmic reticulum stress	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within rhythmic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of ATF1-ATF4 transcription factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of ATF4-CREB1 transcription factor complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: cyclic AMP-dependent transcription factor ATF-4

Names: activating transcription factor 4 (tax-responsive enhancer element B67); activating transcription factor 4b1 (tax-responsive enhancer element B67); cAMP-dependent transcription factor ATF-4

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_213233.1 → NP_998398.1 cyclic AMP-dependent transcription factor ATF-4

See identical proteins and their annotated locations for NP_998398.1

Status: PROVISIONAL

Source sequence(s)

BC067714

UniProtKB/Swiss-Prot

Q6NW59

Related

ENSDARP00000145766.1, ENSDART00000191678.1

Conserved Domains (1) summary

cd14692
Location:267 → 329

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: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007117.7 Reference GRCz11 Primary Assembly

Range

269062..272554

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005172055.4 → XP_005172112.1 cyclic AMP-dependent transcription factor ATF-4 isoform X1

UniProtKB/TrEMBL

A0A8M2BJE3

Conserved Domains (1) summary

cd14692
Location:266 → 328

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