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    Xbp1 X-box binding protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 289754, updated on 9-Dec-2024

    Summary

    Official Symbol
    Xbp1provided by RGD
    Official Full Name
    X-box binding protein 1provided by RGD
    Primary source
    RGD:1303073
    See related
    EnsemblRapid:ENSRNOG00000010298 AllianceGenome:RGD:1303073
    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
    HTF
    Summary
    Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Involved in several processes, including endoplasmic reticulum unfolded protein response; negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway; and serotonin secretion, neurotransmission. Predicted to be located in cytosol and endoplasmic reticulum membrane. Predicted to be part of RNA polymerase II transcription regulator complex. Predicted to be active in nucleus. Biomarker of borna disease and metabolic dysfunction-associated steatotic liver disease. Orthologous to human XBP1 (X-box binding protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 597.1), Lung (RPKM 544.4) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Xbp1 in Genome Data Viewer
    Location:
    14q21
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (84604623..84609707)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (80390629..80395713)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (85753736..85758820)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene zinc and ring finger 3 Neighboring gene uncharacterized LOC134481868 Neighboring gene uncharacterized LOC102549967 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene coiled-coil domain containing 117

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by RGD

    Items 1 - 25 of 34
    Function Evidence Code Pubs
    enables DNA binding  
    enables DNA binding PubMed 
    enables DNA-binding transcription factor activity PubMed 
    enables DNA-binding transcription factor activity  
    enables DNA-binding transcription factor activity  
    enables DNA-binding transcription factor activity PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding  
    enables chromatin DNA binding  
    enables chromatin DNA binding  
    enables cis-regulatory region sequence-specific DNA binding  
    enables cis-regulatory region sequence-specific DNA binding  
    enables histone deacetylase binding  
    enables identical protein binding  
    enables identical protein binding  
    enables phosphatidylinositol 3-kinase regulatory subunit binding  
    enables protease binding  
    enables protein heterodimerization activity  
    enables protein heterodimerization activity  
    enables protein heterodimerization activity  
    enables protein kinase binding  
    enables sequence-specific DNA binding PubMed 
    enables sequence-specific DNA binding  
    enables sequence-specific double-stranded DNA binding  
    enables transcription cis-regulatory region binding  
    enables ubiquitin protein ligase binding  
    enables ubiquitin-like protein ligase binding  
    Items 1 - 25 of 34
    Items 1 - 25 of 148
    Process Evidence Code Pubs
    involved_in adipose tissue development  
    involved_in adipose tissue development  
    involved_in adipose tissue development  
    involved_in angiogenesis  
    involved_in angiogenesis  
    involved_in angiogenesis  
    involved_in cellular response to amino acid stimulus  
    involved_in cellular response to amino acid stimulus  
    involved_in cellular response to amino acid stimulus  
    involved_in cellular response to antibiotic PubMed 
    involved_in cellular response to fluid shear stress  
    involved_in cellular response to fluid shear stress  
    involved_in cellular response to fructose stimulus  
    involved_in cellular response to glucose starvation  
    involved_in cellular response to glucose starvation  
    involved_in cellular response to glucose starvation  
    involved_in cellular response to glucose stimulus  
    involved_in cellular response to insulin stimulus  
    involved_in cellular response to interleukin-4  
    involved_in cellular response to interleukin-4  
    involved_in cellular response to interleukin-4  
    involved_in cellular response to laminar fluid shear stress  
    involved_in cellular response to laminar fluid shear stress  
    involved_in cellular response to leukemia inhibitory factor  
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor  
    involved_in cellular response to lipopolysaccharide  
    involved_in cellular response to lipopolysaccharide  
    involved_in cellular response to lipopolysaccharide  
    involved_in cellular response to nutrient  
    involved_in cellular response to oxidative stress  
    involved_in cellular response to peptide hormone stimulus  
    involved_in cellular response to peptide hormone stimulus  
    involved_in cellular response to peptide hormone stimulus  
    involved_in cellular response to vascular endothelial growth factor stimulus  
    involved_in cholesterol homeostasis  
    involved_in cholesterol homeostasis  
    involved_in cholesterol homeostasis  
    involved_in endoplasmic reticulum unfolded protein response PubMed 
    involved_in endoplasmic reticulum unfolded protein response  
    involved_in endoplasmic reticulum unfolded protein response  
    involved_in endoplasmic reticulum unfolded protein response  
    involved_in endothelial cell proliferation  
    involved_in endothelial cell proliferation  
    involved_in endothelial cell proliferation  
    involved_in epithelial cell maturation involved in salivary gland development  
    acts_upstream_of_or_within epithelial cell maturation involved in salivary gland development  
    involved_in exocrine pancreas development  
    acts_upstream_of_or_within exocrine pancreas development  
    involved_in fatty acid homeostasis  
    involved_in fatty acid homeostasis  
    involved_in fatty acid homeostasis  
    involved_in glandular epithelial cell maturation  
    acts_upstream_of_or_within glandular epithelial cell maturation  
    involved_in intracellular triglyceride homeostasis  
    involved_in intracellular triglyceride homeostasis  
    involved_in intracellular triglyceride homeostasis  
    involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress  
    involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress  
    involved_in liver development  
    involved_in liver development  
    involved_in liver development  
    involved_in muscle organ development  
    involved_in negative regulation of ERK1 and ERK2 cascade  
    involved_in negative regulation of SMAD protein signal transduction  
    involved_in negative regulation of apoptotic process  
    involved_in negative regulation of apoptotic process  
    involved_in negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  
    involved_in negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway PubMed 
    involved_in negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  
    involved_in negative regulation of endoplasmic reticulum unfolded protein response  
    involved_in negative regulation of myotube differentiation  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transforming growth factor beta receptor signaling pathway  
    involved_in neuron development  
    involved_in phosphatidylinositol 3-kinase/protein kinase B signal transduction  
    involved_in positive regulation of B cell differentiation  
    involved_in positive regulation of B cell differentiation  
    involved_in positive regulation of MHC class II biosynthetic process  
    involved_in positive regulation of MHC class II biosynthetic process  
    involved_in positive regulation of MHC class II biosynthetic process  
    involved_in positive regulation of T cell differentiation  
    involved_in positive regulation of T cell differentiation  
    involved_in positive regulation of T cell differentiation  
    involved_in positive regulation of TOR signaling  
    involved_in positive regulation of angiogenesis  
    involved_in positive regulation of autophagy  
    involved_in positive regulation of cell migration  
    involved_in positive regulation of cell migration  
    involved_in positive regulation of cell population proliferation  
    involved_in positive regulation of endothelial cell apoptotic process  
    involved_in positive regulation of fat cell differentiation  
    involved_in positive regulation of fat cell differentiation  
    involved_in positive regulation of fat cell differentiation  
    involved_in positive regulation of hepatocyte proliferation  
    involved_in positive regulation of hepatocyte proliferation  
    involved_in positive regulation of hepatocyte proliferation  
    involved_in positive regulation of immunoglobulin production  
    involved_in positive regulation of immunoglobulin production  
    involved_in positive regulation of immunoglobulin production  
    involved_in positive regulation of interleukin-6 production  
    involved_in positive regulation of lactation  
    involved_in positive regulation of lactation  
    involved_in positive regulation of lactation  
    NOT involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
    involved_in positive regulation of plasma cell differentiation  
    involved_in positive regulation of plasma cell differentiation  
    involved_in positive regulation of plasma cell differentiation  
    involved_in positive regulation of protein acetylation  
    involved_in positive regulation of protein import into nucleus  
    involved_in positive regulation of protein phosphorylation  
    involved_in positive regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of transcription by RNA polymerase II  
    NOT involved_in positive regulation of vascular associated smooth muscle cell migration  
    involved_in positive regulation of vascular associated smooth muscle cell migration  
    NOT involved_in positive regulation of vascular associated smooth muscle cell proliferation  
    involved_in positive regulation of vascular associated smooth muscle cell proliferation  
    involved_in positive regulation of vascular wound healing  
    involved_in positive regulation of vascular wound healing  
    involved_in protein destabilization  
    involved_in protein destabilization  
    involved_in protein destabilization  
    involved_in regulation of DNA-templated transcription  
    involved_in regulation of DNA-templated transcription PubMed 
    involved_in regulation of autophagy  
    involved_in regulation of autophagy  
    involved_in regulation of autophagy  
    involved_in regulation of cell growth  
    involved_in regulation of protein stability  
    involved_in regulation of transcription by RNA polymerase II  
    involved_in response to electrical stimulus PubMed 
    involved_in response to endoplasmic reticulum stress  
    involved_in response to insulin-like growth factor stimulus  
    involved_in response to insulin-like growth factor stimulus  
    involved_in response to insulin-like growth factor stimulus  
    involved_in response to nutrient PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    involved_in serotonin secretion, neurotransmission PubMed 
    involved_in sterol homeostasis  
    involved_in sterol homeostasis  
    involved_in transcription by RNA polymerase II PubMed 
    involved_in transcription by RNA polymerase II  
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in vascular endothelial growth factor receptor signaling pathway  
    Items 1 - 25 of 148
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex  
    part_of RNA polymerase II transcription regulator complex  
    located_in cytoplasm  
    located_in cytoplasm  
    located_in cytosol  
    located_in endoplasmic reticulum  
    located_in endoplasmic reticulum  
    located_in endoplasmic reticulum  
    located_in endoplasmic reticulum membrane  
    located_in endoplasmic reticulum membrane  
    located_in membrane  
    is_active_in nucleus  
    located_in nucleus  
    is_active_in nucleus  
    located_in nucleus  
    located_in presynapse  

    General protein information

    Preferred Names
    X-box-binding protein 1
    Names
    hepatocarcinogenesis-related transcription factor

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001004210.2NP_001004210.1  X-box-binding protein 1 isoform XBP1(U)

      See identical proteins and their annotated locations for NP_001004210.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript but encodes the shorter isoform, XBP1(U).
      Source sequence(s)
      BC079450, BU670819
      UniProtKB/Swiss-Prot
      Q9R1S4
      UniProtKB/TrEMBL
      A6IKL9
      Conserved Domains (1) summary
      cd14691
      Location:63119
      bZIP_XBP1; Basic leucine zipper (bZIP) domain of X-box binding protein 1 (XBP1) and similar proteins: a DNA-binding and dimerization domain
    2. NM_001271731.1NP_001258660.1  X-box-binding protein 1 isoform XBP1(S)

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks a 26 nt segment in the CDS compared to variant 1, that causes a frameshift. The resulting isoform, XBP1(S), has the same N-terminus, but a longer and distinct C-terminus compared to isoform XBP1(U). Isoform XBP1(S) functions as a transcription factor.
      Source sequence(s)
      BC079450, BU670819, CB691171
      UniProtKB/TrEMBL
      A0A140TAA7
      Related
      ENSRNOP00000014044.7, ENSRNOT00000014044.8
      Conserved Domains (1) summary
      cd14691
      Location:63119
      bZIP_XBP1; Basic leucine zipper (bZIP) domain of X-box binding protein 1 (XBP1) 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_086032.1 Reference GRCr8

      Range
      84604623..84609707
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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