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

Gene ID: 117526, updated on 11-Apr-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

Nucleotide Protein Strain
Heading Accession and Version

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