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    Atf6b activating transcription factor 6 beta [ Rattus norvegicus (Norway rat) ]

    Gene ID: 406169, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Atf6bprovided by RGD
    Official Full Name
    activating transcription factor 6 betaprovided by RGD
    Primary source
    RGD:1303317
    See related
    EnsemblRapid:ENSRNOG00000000431 AllianceGenome:RGD:1303317
    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
    Crebl1
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to contribute to DNA-binding transcription activator activity, RNA polymerase II-specific. Predicted to be involved in endoplasmic reticulum unfolded protein response; negative regulation of ATF6-mediated unfolded protein response; and positive regulation of transcription by RNA polymerase II. Predicted to be located in endoplasmic reticulum membrane. Predicted to be part of RNA polymerase II transcription regulator complex and protein-DNA complex. Predicted to be active in nucleus. Orthologous to human ATF6B (activating transcription factor 6 beta). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 73.6), Thymus (RPKM 57.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Atf6b in Genome Data Viewer
    Location:
    20p12
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (4095534..4103534, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (4090921..4098920, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (4414283..4422283)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene cytochrome P450, family 21, subfamily a, polypeptide 1 Neighboring gene tenascin XA, pseudogene 1 Neighboring gene uncharacterized LOC134483856 Neighboring gene uncharacterized LOC120098978 Neighboring gene FKBP prolyl isomerase like Neighboring gene palmitoyl-protein thioesterase 2 Neighboring gene proline-rich transmembrane protein 1

    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. The gene G13 in the class III region of the human MHC encodes a potential DNA-binding protein. Khanna A, et al. Biochem J, 1996 Oct 1. PMID 8870652, Free PMC Article
    2. Opposing roles for ATF6alpha and ATF6beta in endoplasmic reticulum stress response gene induction. Thuerauf DJ, et al. J Biol Chem, 2004 May 14. PMID 14973138
    3. Identification of the cis-acting endoplasmic reticulum stress response element responsible for transcriptional induction of mammalian glucose-regulated proteins. Involvement of basic leucine zipper transcription factors. Yoshida H, et al. J Biol Chem, 1998 Dec 11. PMID 9837962
    4. Identification of the G13 (cAMP-response-element-binding protein-related protein) gene product related to activating transcription factor 6 as a transcriptional activator of the mammalian unfolded protein response. Haze K, et al. Biochem J, 2001 Apr 1. PMID 11256944, Free PMC Article
    5. Extracellular matrix secretion by cardiac fibroblasts: role of microRNA-29b and microRNA-30c. Abonnenc M, et al. Circ Res, 2013 Oct 25. PMID 24006456

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC112556

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    contributes_to DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    contributes_to RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in endoplasmic reticulum unfolded protein response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of ATF6-mediated unfolded protein response 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 regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to endoplasmic reticulum stress ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum membrane 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 protein-DNA complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    cyclic AMP-dependent transcription factor ATF-6 beta
    Names
    cAMP responsive element binding protein-like 1

    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_001002809.3 → NP_001002809.2  cyclic AMP-dependent transcription factor ATF-6 beta

      See identical proteins and their annotated locations for NP_001002809.2

      Status: VALIDATED

      Source sequence(s)
      BC098631, BP486278, FM061416
      UniProtKB/TrEMBL
      Q4G097, Q6MG80
      Related
      ENSRNOP00000000492.7, ENSRNOT00000000492.10
      Conserved Domains (2) summary
      PHA03160
      Location:233 → 299
      PHA03160; hypothetical protein; Provisional
      cd14700
      Location:325 → 376
      bZIP_ATF6; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-6 (ATF-6) 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

    1. NC_086038.1 Reference GRCr8

      Range
      4095534..4103534 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006255983.3 → XP_006256045.1  cyclic AMP-dependent transcription factor ATF-6 beta isoform X2

      UniProtKB/TrEMBL
      A6KTJ2, F7ERH6
      Conserved Domains (2) summary
      PHA03160
      Location:271 → 337
      PHA03160; hypothetical protein; Provisional
      cd14700
      Location:363 → 414
      bZIP_ATF6; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-6 (ATF-6) and similar proteins: a DNA-binding and dimerization domain

    2. XM_063279359.1 → XP_063135429.1  cyclic AMP-dependent transcription factor ATF-6 beta isoform X1

      UniProtKB/TrEMBL
      A6KTJ2, F7ERH6
      Related
      ENSRNOP00000105855.1, ENSRNOT00000136933.1

    RNA

    1. XR_362003.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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