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

Summary

Official Symbol: Tbpprovided by RGD
Official Full Name: TATA box binding proteinprovided by RGD
Primary source: RGD:67398
See related: EnsemblRapid: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 DNA-templated transcription and spermatogenesis. 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, Nov 2024]
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

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_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Tbp (e-PCR), detects polymorphism
- UniSTS:495899

Tbp (e-PCR), detects polymorphism
- UniSTS:144547

Tbp (e-PCR), detects polymorphism
- UniSTS:502734

Tbp (e-PCR), detects polymorphism
- UniSTS:532463

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	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
located_in chromatin	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in 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)

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

ENSRNOP00000080115.2, ENSRNOT00000114159.2

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

NC_086019.1 Reference GRCr8

Range

65136420..65153515

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Related

ENSRNOP00000002038.3, ENSRNOT00000002038.6

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