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    Tbp TATA box binding protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 117526, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Tbpprovided by RGD
    Official Full Name
    TATA box binding proteinprovided by RGD
    Primary source
    RGD:67398
    See related
    Ensembl:ENSRNOG00000001489 AllianceGenome:RGD:67398
    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
    Also known as
    TFIID
    Summary
    Enables DNA binding activity. Contributes to RNA polymerase II general transcription initiation factor activity. Involved in positive regulation of transcription, DNA-templated and spermatogenesis. Located in nucleus. Part of transcription factor TFIID complex. Human ortholog(s) of this gene implicated in late onset Parkinson's disease; schizophrenia; spinocerebellar ataxia type 17; and type 1 diabetes mellitus. Orthologous to human TBP (TATA-box binding protein). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Testes (RPKM 109.4), Thymus (RPKM 73.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tbp in Genome Data Viewer
    Location:
    1q12
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (65136420..65153515)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (56463330..56480430)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (57491381..57509335)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 120 member B Neighboring gene delta like canonical Notch ligand 1 Neighboring gene uncharacterized LOC102557016 Neighboring gene proteasome 20S subunit beta 1 Neighboring gene programmed cell death 2 Neighboring gene BRCA1 associated RING domain 1, pseudogene 1 Neighboring gene PR/SET domain 9

    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. Increased Expression of TBP/TFIID after spinal cord injury in adult rats. Ding T, et al. Cell Mol Neurobiol, 2014 Jul. PMID 24710803
    2. Selective alterations of transcription factors in MPP+-induced neurotoxicity in PC12 cells. Xu Z, et al. Neurotoxicology, 2005 Aug. PMID 16112330
    3. No evidence for association of the TATA-box binding protein glutamine repeat sequence or the flanking chromosome 6q27 region with type 1 diabetes. Payne F, et al. Biochem Biophys Res Commun, 2005 Jun 3. PMID 15850778
    4. Association of a CAG/CAA repeat sequence in the TBP gene with type I diabetes. Owerbach D, et al. Biochem Biophys Res Commun, 2004 Oct 22. PMID 15381080
    5. The presence of TATA-binding protein in the brainstem, correlated with sleep apnea in SIDS victims. Sawaguchi T, et al. Early Hum Dev, 2003 Dec. PMID 14693397

    See all (66) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Mrpl10 and Tbp might be used as suitable reference genes for sciatic nerve stump and dorsal root ganglions, respectively.
      Title: Mrpl10 and Tbp Are Suitable Reference Genes for Peripheral Nerve Crush Injury.
    2. An increase in TFIID expression was seen in proliferating astrocytes and microglia following spinal cord injury.
      Title: Increased Expression of TBP/TFIID after spinal cord injury in adult rats.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC93994

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase I core promoter sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase I core promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II core promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to RNA polymerase II general transcription initiation factor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II general transcription initiation factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II general transcription initiation factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase III general transcription initiation factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables TFIIB-class transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables aryl hydrocarbon receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables core promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables general transcription initiation factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA-templated transcription initiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in RNA polymerase I preinitiation complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in RNA polymerase II preinitiation complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA transcription by RNA polymerase II 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 transcription initiation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatogenesis IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within transcription by RNA polymerase III ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription by RNA polymerase III ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of RNA polymerase transcription factor SL1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of euchromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in female germ cell nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in female pronucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in male germ cell nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in male pronucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in pronucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription factor TFIIA complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription factor TFIID complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of transcription factor TFIID complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    TATA-box-binding protein

    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_001004198.1 → NP_001004198.1  TATA-box-binding protein

      See identical proteins and their annotated locations for NP_001004198.1

      Status: PROVISIONAL

      Source sequence(s)
      BC081939
      UniProtKB/TrEMBL
      A0A8I5Y1F6, F7FBK7, Q66HB1
      Related
      ENSRNOP00000002038.3, ENSRNOT00000002038.5
      Conserved Domains (2) summary
      PLN00062
      Location:141 → 317
      PLN00062; TATA-box-binding protein; Provisional
      cd04516
      Location:141 → 314
      TBP_eukaryotes; eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation ...

    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_086019.1 Reference GRCr8

      Range
      65136420..65153515
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006227980.5 → XP_006228042.1  TATA-box-binding protein isoform X2

      See identical proteins and their annotated locations for XP_006228042.1

      UniProtKB/TrEMBL
      A0A8I5Y1F6, F7FBK7, Q66HB1
      Conserved Domains (2) summary
      PLN00062
      Location:141 → 317
      PLN00062; TATA-box-binding protein; Provisional
      cd04516
      Location:141 → 314
      TBP_eukaryotes; eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation ...

    2. XM_063268389.1 → XP_063124459.1  TATA-box-binding protein isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y1F6
    Nucleotide Protein Strain
    Heading Accession and Version

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