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Batf3 basic leucine zipper ATF-like transcription factor 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 60462, updated on 27-Nov-2024

Summary

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Official Symbol
Batf3provided by RGD
Official Full Name
basic leucine zipper ATF-like transcription factor 3provided by RGD
Primary source
RGD:620501
See related
AllianceGenome:RGD:620501
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
Jdp1
Summary
Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in myeloid dendritic cell differentiation; negative regulation of transcription by RNA polymerase II; and response to virus. Predicted to be located in cytosol; nucleolus; and nucleoplasm. Predicted to be part of RNA polymerase II transcription regulator complex. Predicted to be active in nucleus. Orthologous to human BATF3 (basic leucine zipper ATF-like transcription factor 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 54.5), Thymus (RPKM 30.7) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Batf3 in Genome Data Viewer
Location:
13q27
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (105220782..105232365)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (102689657..102701241)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (109713376..109726438)

Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene TatD DNase domain containing 3 Neighboring gene NSL1 component of MIS12 kinetochore complex Neighboring gene uncharacterized LOC120096350 Neighboring gene golgi associated RAB2 interactor family member 4 Neighboring gene activating transcription factor 3 Neighboring gene uncharacterized LOC102555043 Neighboring gene uncharacterized LOC102555129

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Batf3 deficiency reveals a critical role for CD8alpha+ dendritic cells in cytotoxic T cell immunity. Hildner K, et al. Science, 2008 Nov 14. PMID 19008445, Free PMC Article
  2. Peripheral CD103+ dendritic cells form a unified subset developmentally related to CD8alpha+ conventional dendritic cells. Edelson BT, et al. J Exp Med, 2010 Apr 12. PMID 20351058, Free PMC Article
  3. Transcriptional repression of MMP-1 by p21SNFT and reduced in vitro invasiveness of hepatocarcinoma cells. Bower KE, et al. Oncogene, 2004 Nov 18. PMID 15467742
  4. Repression of IL-2 promoter activity by the novel basic leucine zipper p21SNFT protein. Iacobelli M, et al. J Immunol, 2000 Jul 15. PMID 10878360
  5. Characterization of JDP genes, an evolutionarily conserved J domain-only protein family, from human and moths. Lee J, et al. Biochim Biophys Acta, 2000 Apr 25. PMID 10760603

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding TAS
Traceable Author Statement
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific 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 protein-containing complex binding TAS
Traceable Author Statement
more info
 PubMed 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in dendritic cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in dendritic cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within myeloid dendritic cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in myeloid dendritic cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in myeloid dendritic cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of transcription by RNA polymerase II 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
  
involved_in response to virus ISO
Inferred from Sequence Orthology
more info
  
involved_in response to virus ISS
Inferred from Sequence or Structural Similarity
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 cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus 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
  

General protein information

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Preferred Names
basic leucine zipper transcriptional factor ATF-like 3
Names
B-ATF-3
JDP-1
Jun dimerization protein 1
basic leucine zipper transcription factor, ATF-like 3

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)

  1. NM_021865.2 → NP_068637.2  basic leucine zipper transcriptional factor ATF-like 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000013
    UniProtKB/Swiss-Prot
    P97876
    UniProtKB/TrEMBL
    A6JGY7
    Conserved Domains (2) summary
    cd14686
    Location:30 → 84
    bZIP; coiled coil [structural motif]
    cl21462
    Location:28 → 85
    bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: 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

  1. NC_086031.1 Reference GRCr8

    Range
    105220782..105232365
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P97876.1 GenPept UniProtKB/Swiss-Prot:P97876

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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