Trf2 TATA box binding protein-related factor 2 [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Trf2provided by FlyBase
Official Full Name: TATA box binding protein-related factor 2provided by FlyBase
Primary source: FLYBASE:FBgn0261793
Locus tag: Dmel_CG18009
See related: AllianceGenome:FB:FBgn0261793
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: CG11195; CG18009; Dmel\CG18009; dTrf2; dTRF2; dTRF2L; dTRF2S; l(1)G0039; l(1)G0071; l(1)G0295; l(1)G0425; p79/TRF2; TLF; trf2; TRF2; TRF2S
Summary: Enables several functions, including RNA polymerase II core promoter sequence-specific DNA binding activity; TFIIA-class transcription factor complex binding activity; and chromatin binding activity. Contributes to RNA polymerase II general transcription initiation factor activity. Involved in several processes, including autophagic cell death; mRNA transcription by RNA polymerase II; and spiracle morphogenesis, open tracheal system. Located in chromosome and germ cell nucleus. Is expressed in several structures, including cyst cell of testis; germline cell; midline glial cell; midline primordium; and pole plasm. Orthologous to human TBPL1 (TATA-box binding protein like 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 7E7-7E9; 1-23 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	X	NC_004354.4 (8409272..8433011)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	X	NC_004354.3 (8303305..8327044)

Chromosome X - NC_004354.4 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TBP-Related Factor 2 as a Trigger for Robertsonian Translocations and Speciation.
Title: TBP-Related Factor 2 as a Trigger for Robertsonian Translocations and Speciation.
Short and Long Isoforms of the TRF2 Protein in Drosophila melanogaster
Title: Functional Comparison of Short and Long Isoforms of the TRF2 Protein in Drosophila melanogaster.
TRF2 forms a repressor complex with FruBM, strongly enhancing the repressor activity of FruBM at the promoter region of the robo1 gene, whose function is required for inhibiting the male-specific neurite formation.
Title: The core-promoter factor TRF2 mediates a Fruitless action to masculinize neurobehavioral traits in Drosophila.
Although M1BP associates with thousands of genes, its colocalization with TRF2 is largely restricted to Ribosomal proteins genes, suggesting that this combination is key to coordinately regulating transcription of the majority of Ribosomal Proteins genes in Drosophila.
Title: A sequence-specific core promoter-binding transcription factor recruits TRF2 to coordinately transcribe ribosomal protein genes.
TRF2 and TAF9 have roles in regulating lipid droplet size and phospholipid fatty acid composition
Title: Drosophila TRF2 and TAF9 regulate lipid droplet size and phospholipid fatty acid composition.
the role of short TRF2 as a preferential core promoter regulator.
Title: Drosophila TRF2 is a preferential core promoter regulator.
specialized TRF2-based RNA polymerase II system functions in the synthesis of RPs and complements the RNA polymerase I and III systems
Title: TRF2, but not TBP, mediates the transcription of ribosomal protein genes.
Suppression of the TRF2 expression violates the development of a compact chromocenter and the correct approach of homologous chromosomes (in germinative and somatic cells).
Title: [Effect of mutations in lawc/Trf2 gene on development of chromocenter and chromosome disjunction in Drosophila melanogaster].
genetic interactions of Trf2 with genes that encode basic and specific transcription factors during Drosophila melanogaster development
Title: [Recovery of genomic regions affecting lawc/Trf2 expression during Drosophila melanogaster development].
CRM genetically interacts and co-immunoprecipitates with TRF2.
Title: The Polycomb group protein CRAMPED is involved with TRF2 in the activation of the histone H1 gene.

Submit: New GeneRIF Correction See all GeneRIFs (18)

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	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	TAS Traceable Author Statement more info	PubMed
enables RNA polymerase II core promoter sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II general transcription initiation factor activity	IC Inferred by Curator more info	PubMed
contributes_to RNA polymerase II general transcription initiation factor activity	IPI Inferred from Physical Interaction more info	PubMed
enables TFIIA-class transcription factor complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables core promoter sequence-specific DNA binding	IDA Inferred from Direct Assay 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 autophagic cell death	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in pupal development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to ecdysone	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spiracle morphogenesis, open tracheal system	IMP Inferred from Mutant Phenotype 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	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription initiation at RNA polymerase II promoter	TAS Traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in female germ cell nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in heterochromatin	IDA Inferred from Direct Assay more info	PubMed
located_in male germ cell nucleus	IDA Inferred from Direct Assay more info	PubMed
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

General protein information

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Preferred Names: TATA box binding protein-related factor 2

Names: CG18009-PE; CG18009-PF; CG18009-PG; CG18009-PH; CG18009-PI; CG18009-PJ; TATA box-binding protein related factor 2; TBP related factor 2; TBP-like factor; TBP-related factor 2; Trf2-PE; Trf2-PF; Trf2-PG; Trf2-PH; Trf2-PI; Trf2-PJ; lethal (1) G0039; lethal (1) G0071; lethal (1) G0295; lethal (1) G0425

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

NC_004354.4 Reference assembly

Range

8409272..8433011

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_206654.2 → NP_996377.1 TATA box binding protein-related factor 2, isoform H [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_996377.1

Status: REVIEWED

UniProtKB/TrEMBL

Q8T052, Q9W3F8, Q9W3F9, Q9XZD9

Conserved Domains (2) summary

PLN00062
Location:202 → 376

PLN00062; TATA-box-binding protein; Provisional

cd04517
Location:200 → 373

TLF; TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the ...
NM_001169230.2 → NP_001162701.1 TATA box binding protein-related factor 2, isoform F [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001162701.1

Status: REVIEWED

UniProtKB/TrEMBL

Q07DP5

Conserved Domains (4) summary

PLN00062
Location:1285 → 1459

PLN00062; TATA-box-binding protein; Provisional

cd04517
Location:1283 → 1456

TLF; TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the ...

cd16269
Location:1037 → 1048

GBP_C; coiled coil [structural motif]

cl20817
Location:967 → 1068

GBP_C; Guanylate-binding protein, C-terminal domain
NM_001103435.3 → NP_001096905.1 TATA box binding protein-related factor 2, isoform E [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001096905.1

Status: REVIEWED

UniProtKB/TrEMBL

Q07DP5

Conserved Domains (4) summary

PLN00062
Location:1285 → 1459

PLN00062; TATA-box-binding protein; Provisional

cd04517
Location:1283 → 1456

TLF; TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the ...

cd16269
Location:1037 → 1048

GBP_C; coiled coil [structural motif]

cl20817
Location:967 → 1068

GBP_C; Guanylate-binding protein, C-terminal domain
NM_001272400.1 → NP_001259329.1 TATA box binding protein-related factor 2, isoform I [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001259329.1

Status: REVIEWED

UniProtKB/TrEMBL

M9PHD8

Conserved Domains (4) summary

PLN00062
Location:1284 → 1458

PLN00062; TATA-box-binding protein; Provisional

cd04517
Location:1282 → 1455

TLF; TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the ...

cd16269
Location:1036 → 1047

GBP_C; coiled coil [structural motif]

cl20817
Location:966 → 1067

GBP_C; Guanylate-binding protein, C-terminal domain
NM_078529.4 → NP_511084.2 TATA box binding protein-related factor 2, isoform J [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_511084.2

Status: REVIEWED

UniProtKB/TrEMBL

Q8T052, Q9W3F8, Q9W3F9, Q9XZD9

Related

FBpp0305945

Conserved Domains (2) summary

PLN00062
Location:202 → 376

PLN00062; TATA-box-binding protein; Provisional

cd04517
Location:200 → 373

TLF; TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the ...
NM_001272401.1 → NP_001259330.1 TATA box binding protein-related factor 2, isoform G [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001259330.1

Status: REVIEWED

UniProtKB/TrEMBL

Q07DP5

Conserved Domains (4) summary

PLN00062
Location:1285 → 1459

PLN00062; TATA-box-binding protein; Provisional

cd04517
Location:1283 → 1456

TLF; TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the ...

cd16269
Location:1037 → 1048

GBP_C; coiled coil [structural motif]

cl20817
Location:967 → 1068

GBP_C; Guanylate-binding protein, C-terminal domain