Trf TBP-related factor [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Trfprovided by FlyBase
Official Full Name: TBP-related factorprovided by FlyBase
Primary source: FLYBASE:FBgn0010287
Locus tag: Dmel_CG7562
See related: AllianceGenome:FB:FBgn0010287
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: CG7562; Dmel\CG7562; dTRF-1; dTRF1; trf; TRF; trf1; Trf1; TRF1; X70838
Summary: Enables cis-regulatory region sequence-specific DNA binding activity and general transcription initiation factor binding activity. Contributes to RNA polymerase II general transcription initiation factor activity and core promoter sequence-specific DNA binding activity. Involved in tRNA transcription by RNA polymerase III; transcription initiation at RNA polymerase II promoter; and transcription initiation at RNA polymerase III promoter. Located in nucleus and polytene chromosome. Part of transcription regulator complex. Is expressed in organism; presumptive embryonic/larval central nervous system; spermatocyte; supraesophageal ganglion; and testis. 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, Dec 2024]
Orthologs: all
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Genomic context

Location:: 28E1-28E1; 2-30 cM

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	2L	NT_033779.5 (8072895..8073948)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	2L	NT_033779.4 (8072895..8073948)

Chromosome 2L - NT_033779.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

in fruit flies, different classes of RNA polymerase III promoters differentially utilize TBP and TRF1 for the initiation of transcription.
Title: Differential utilization of TATA box-binding protein (TBP) and TBP-related factor 1 (TRF1) at different classes of RNA polymerase III promoters.
in Drosophila the alternative TRF1/BRF complex appears responsible for the initiation of all known classes of Pol III transcription
Title: Novel TRF1/BRF target genes revealed by genome-wide analysis of Drosophila Pol III transcription.

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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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
contributes_to RNA polymerase II general transcription initiation factor activity	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase III general transcription initiation factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables RNA polymerase III type 2 promoter sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables TFIIA-class transcription factor complex binding	IDA Inferred from Direct Assay more info	PubMed
enables TFIIB-class transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
contributes_to core promoter sequence-specific DNA binding	IPI Inferred from Physical Interaction more info	PubMed
enables general transcription initiation factor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription initiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA-templated transcription initiation	IEA Inferred from Electronic Annotation more info
involved_in embryo development ending in birth or egg hatching	ISS Inferred from Sequence or Structural Similarity more info
involved_in tRNA transcription by RNA polymerase III	IDA Inferred from Direct Assay more info	PubMed
involved_in transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in transcription by RNA polymerase III	IDA Inferred from Direct Assay more info	PubMed
involved_in transcription initiation at RNA polymerase II promoter	IDA Inferred from Direct Assay more info	PubMed
involved_in transcription initiation at RNA polymerase III promoter	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome	IDA Inferred from Direct Assay more info	PubMed
part_of transcription factor TFIID complex	ISS Inferred from Sequence or Structural Similarity more info	PubMed
part_of transcription regulator complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: TBP-related factor

Names: CG7562-PA; Trf-PA

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NT_033779.5 Reference assembly

Range

8072895..8073948

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_057591.4 → NP_476939.1 TBP-related factor [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_476939.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q27896

Related

FBpp0079164

Conserved Domains (2) summary

PLN00062
Location:49 → 224

PLN00062; TATA-box-binding protein; Provisional

cd04516
Location:50 → 221

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 ...