FB2022_02, released March 29, 2022

Gene: Dmel\Taf9

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General Information
Symbol
Dmel\Taf9
Species
D. melanogaster
Name
TBP-associated factor 9
Annotation Symbol
CG6474
Feature Type
protein_coding_gene
FlyBase ID
FBgn0000617
Gene Model Status
Current
Stock Availability
1 publicly available
Gene Summary
TBP-associated factor 9 (Taf9) encodes a main component of the Transcription factor II D (TFIID) complex. TFIID is involved in recruiting the transcription machinery to core promoters and organizing specific enhancer-promoter interactions. [Date last reviewed: 2019-09-26] (FlyBase Gene Snapshot)
All Summaries
Also Known As

dTAFII40, e(y)1, dTAFII42, TAFII40, TFIID

Key Links
Genomic Location
Cytogenetic map
16E1-16E1
Sequence location
Recombination map
1-59
RefSeq locus
NC_004354 REGION:17842161..17843348
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (13 terms)
Molecular Function (5 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
enables protein binding
inferred from physical interaction with UniProtKB:Q9VYX1
(assigned by UniProt )
(Georgieva et al., 2001)
enables protein heterodimerization activity
inferred from physical interaction with FLYBASE:Saf6; FB:FBgn0031281
(Weake et al., 2009)
contributes_to RNA polymerase II general transcription initiation factor activity
inferred from direct assay
(Hansen and Tjian, 1995)
enables transcription factor binding
inferred from physical interaction with FLYBASE:e(y)2; FB:FBgn0000618
(Georgieva et al., 2001)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
contributes_to RNA polymerase II general transcription initiation factor activity
inferred from biological aspect of ancestor with PANTHER:PTN000249331
(assigned by GO_Central )
(Gaudet et al., 2011)
enables transcription coactivator activity
inferred from biological aspect of ancestor with PANTHER:PTN000249331
(assigned by GO_Central )
(Gaudet et al., 2011)
Biological Process (5 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
involved_in histone H3 acetylation
inferred from direct assay
(Guelman et al., 2006)
involved_in ovarian follicle cell development
inferred from mutant phenotype
(Jia et al., 2015)
involved_in transcription by RNA polymerase II
inferred from direct assay
(Hansen and Tjian, 1995)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
involved_in histone H3 acetylation
inferred from biological aspect of ancestor with PANTHER:PTN000249331
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in RNA polymerase II preinitiation complex assembly
inferred from biological aspect of ancestor with PANTHER:PTN000249331
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in transcription initiation from RNA polymerase II promoter
inferred from sequence or structural similarity with HGNC:17306
(Aoyagi and Wassarman, 2000)
inferred from sequence or structural similarity with SGD:S000004849
(Aoyagi and Wassarman, 2000)
Cellular Component (3 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
located_in nucleus
inferred from direct assay
(Weake et al., 2011, Guelman et al., 2006, Wright et al., 2006, Hansen and Tjian, 1995, Goodrich et al., 1993)
part_of SAGA complex
inferred from direct assay
(Weake et al., 2011, Guelman et al., 2006)
inferred from physical interaction with FLYBASE:Ada3; FB:FBgn0030891
(Kusch et al., 2003)
inferred from physical interaction with FLYBASE:Ada2b; FB:FBgn0037555
(Kusch et al., 2003)
inferred from physical interaction with FLYBASE:Spt3; FB:FBgn0037981
(Kusch et al., 2003)
part_of transcription factor TFIID complex
inferred from direct assay
(Georgieva et al., 2001, Hansen and Tjian, 1995)
inferred from physical interaction with FLYBASE:Taf4; FB:FBgn0010280
(Wright et al., 2006)
inferred from physical interaction with FLYBASE:Taf6; FB:FBgn0010417
(Wright et al., 2006)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
part_of SAGA complex
inferred from biological aspect of ancestor with PANTHER:PTN000249331
(assigned by GO_Central )
(Gaudet et al., 2011)
part_of transcription factor TFIID complex
inferred from sequence or structural similarity with HGNC:17306
(Aoyagi and Wassarman, 2000)
inferred from sequence or structural similarity with SGD:S000004849
(Aoyagi and Wassarman, 2000)
inferred from biological aspect of ancestor with PANTHER:PTN000249331
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the TAF9 family. (Q27272)
Protein Signatures (InterPro)
Summaries
Gene Snapshot
TBP-associated factor 9 (Taf9) encodes a main component of the Transcription factor II D (TFIID) complex. TFIID is involved in recruiting the transcription machinery to core promoters and organizing specific enhancer-promoter interactions. [Date last reviewed: 2019-09-26]
Gene Group (FlyBase)
SAGA COMPLEX -
The Spt-Ada-Gcn5 Acetyltransferase (SAGA) complex is a chromatin modifying complex. SAGA can acetylate and deubiquitinate histone residues. Also SAGA has been shown to regulate the transcriptional activation of a subset of genes. (Adapted from FBrf0228923, FBrf0219841 and FBrf0233349).
TRANSCRIPTION FACTOR II D -
The general transcription factor complex Transcription factor II D (TFIID) plays an important role in recruiting the transcription machinery to core promoters. TFIID is a complex composed of TBP and several TBP-associated factors. (Adapted from FBrf0125116 and FBrf0156065).
Protein Function (UniProtKB)
TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors.
(UniProt, Q27272)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Taf9 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Structure New Section
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q27272)

If you don't see the viewer to the right, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Comments on Gene Model

Gene model reviewed during 5.51

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Taf9-RA
FBtr0074463
NM_078667
1124
278
Additional Transcript Data and Comments
Reported size (kB)

1.3 (northern blot)

(Goodrich et al., 1993)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
Taf9-PA
FBpp0074237
29.3
278
9.93
NP_523391
AAF48767
Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments
Reported size (kDa)

278 (aa); 42 (kD observed); 29 (kD predicted)

(Kokubo et al., 1994)

278 (aa); 29.3 (kD)

(Goodrich et al., 1993)

40 (kD)

(Dynlacht et al., 1991)
Comments
External Data
Domain

The C-terminus is important for mediating interaction with e(y)2.

(UniProt, Q27272)
Subunit Structure (UniProtKB)

Belongs to the TFIID complex which is composed of TATA binding protein (Tbp) and a number of TBP-associated factors (TAFs). E(y)1 and Taf6 exist as a heterotetramer. Interacts with e(y)2.

(UniProt, Q27272)
Crossreferences
InterPro - A database of protein families, domains and functional sites
PDB - An information portal to biological macromolecular structures
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Taf9 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage | male
testis
(Metcalf and Wassarman, 2007)
male accessory gland
(Metcalf and Wassarman, 2007)
seminal vesicle
(Metcalf and Wassarman, 2007)
spermatocyte
(Metcalf and Wassarman, 2007)
Additional Descriptive Data

Taf9 protein was isolated from nuclear extracts.

(Goodrich et al., 1993)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in nucleus
inferred from direct assay
(Weake et al., 2011, Guelman et al., 2006, Wright et al., 2006, Hansen and Tjian, 1995, Goodrich et al., 1993)
part_of SAGA complex
inferred from direct assay
(Weake et al., 2011, Guelman et al., 2006)
inferred from physical interaction with FLYBASE:Ada3; FB:FBgn0030891
(Kusch et al., 2003)
inferred from physical interaction with FLYBASE:Ada2b; FB:FBgn0037555
(Kusch et al., 2003)
inferred from physical interaction with FLYBASE:Spt3; FB:FBgn0037981
(Kusch et al., 2003)
part_of transcription factor TFIID complex
inferred from direct assay
(Georgieva et al., 2001, Hansen and Tjian, 1995)
inferred from physical interaction with FLYBASE:Taf4; FB:FBgn0010280
(Wright et al., 2006)
inferred from physical interaction with FLYBASE:Taf6; FB:FBgn0010417
(Wright et al., 2006)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Taf9 in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 7 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Taf9
Transgenic constructs containing regulatory region of Taf9
Aberrations (Deficiencies and Duplications) ( 2 )
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\TAF9B
12 of 15
Yes
Yes
Hsap\TAF9
12 of 15
Yes
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (3)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Taf9b
13 of 15
Yes
Yes
Mmus\Taf9
10 of 15
No
Yes
Mmus\Ak6
1 of 15
No
No
Rattus norvegicus (Norway rat) (2)
Rnor\Taf9b
8 of 13
Yes
Yes
Rnor\Taf9
8 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (1)
Xtro\taf9b
7 of 12
Yes
Yes
Danio rerio (Zebrafish) (1)
Drer\taf9
12 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\taf-9
11 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (1)
Atha\TAFII21
6 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\TAF9
9 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\taf9
7 of 12
Yes
Yes
Other Organism Orthologs (via OrthoDB)
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (1)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
Ak6
1 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 1 )
    Allele
    Disease
    Interaction
    References
    Taf9HMS00336
    ameliorates  amyotrophic lateral sclerosis type 10
    modeled by Hsap\TARDBPM.UAS.Tag:FLAG
    (Azpurua et al., 2021)
    Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    TAF9B; TATA-box binding protein associated factor 9b
    12 of 15
    300754
        TAF9; TATA-box binding protein associated factor 9
        12 of 15
        600822
            Functional Complementation Data
            Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
            Interactions
            Summary of Physical Interactions
            esyN Network Diagram
            Show neighbor-neighbor interactions:
            Select Layout:
            Legend:
            Protein
            RNA
            Selected Interactor(s)
            Interactions Browser
            View in Interactions Browser
            Please see the Physical Interaction reports below for full details
            protein-protein
            Physical Interaction
            Assay
            References
            Taf9 - Ada1-2
            anti tag coimmunoprecipitation, peptide massfingerprinting
            (Weake et al., 2009)
            Taf9 - Ada2a
            anti bait coimmunoprecipitation, western blot
            (Muratoglu et al., 2003)
            Taf9 - Ada2b
            anti bait coimmunoprecipitation, western blot, anti tag coimmunoprecipitation, peptide massfingerprinting, ion exchange chromatography, molecular sieving
            (Weake et al., 2011, Weake et al., 2009, Kusch et al., 2003, Muratoglu et al., 2003)
            Taf9 - Ada3
            anti bait coimmunoprecipitation, western blot
            (Kusch et al., 2003)
            Taf9 - Atxn7
            anti tag coimmunoprecipitation, peptide massfingerprinting
            (Mohan et al., 2014)
            Taf9 - Bap60
            ion exchange chromatography, molecular sieving, western blot
            (Vorobyeva et al., 2009)
            Taf9 - CG4962
            experimental knowledge based
            (Guruharsha et al., 2011)
            Taf9 - Gcn5
            ion exchange chromatography, molecular sieving, western blot
            (Muratoglu et al., 2003)
            Taf9 - His2B:CG33868
            experimental knowledge based
            (Guruharsha et al., 2011)
            Taf9 - His4r
            experimental knowledge based
            (Guruharsha et al., 2011)
            Taf9 - N
            anti tag coimmunoprecipitation, anti tag western blot
            (Xie et al., 2014)
            Taf9 - Nplp2
            experimental knowledge based
            (Guruharsha et al., 2011)
            Taf9 - Pc
            anti bait coimmunoprecipitation, western blot
            (Saurin et al., 2001)
            Taf9 - Psc
            anti bait coimmunoprecipitation, western blot
            (Saurin et al., 2001)
            Taf9 - Saf6
            anti tag coimmunoprecipitation, peptide massfingerprinting, pull down, molecular weight estimation by staining
            (Weake et al., 2009)
            Taf9 - Sf3b5
            anti tag coimmunoprecipitation, peptide massfingerprinting
            (Stegeman et al., 2016)
            Taf9 - Sgf29
            anti tag coimmunoprecipitation, peptide massfingerprinting
            (Weake et al., 2009)
            Taf9 - Spt20
            anti tag coimmunoprecipitation, peptide massfingerprinting
            (Stegeman et al., 2016)
            Taf9 - Spt3
            anti tag coimmunoprecipitation, peptide massfingerprinting, anti bait coimmunoprecipitation, western blot
            (Stegeman et al., 2016, Kusch et al., 2003)
            Taf9 - Su(H)
            anti tag coimmunoprecipitation, anti tag western blot
            (Xie et al., 2014)
            Taf9 - Taf1
            affinity chromatography technology, western blot, ion exchange chromatography, molecular sieving, anti bait coimmunoprecipitation
            (Vorobyeva et al., 2009, Santoso and Kadonaga, 2006, Goodrich et al., 1993)
            Taf9 - Taf10
            anti bait coimmunoprecipitation, western blot
            (Muratoglu et al., 2003, Georgieva et al., 2001)
            Taf9 - Taf10b
            anti bait coimmunoprecipitation, western blot
            (Muratoglu et al., 2003)
            Taf9 - Taf11
            anti bait coimmunoprecipitation, western blot
            (Yokomori et al., 1993)
            Taf9 - Taf12
            anti bait coimmunoprecipitation, western blot
            (Yokomori et al., 1993)
            Taf9 - Taf4
            anti bait coimmunoprecipitation, western blot, ion exchange chromatography, molecular sieving
            (Vorobyeva et al., 2009, Wright et al., 2006, Muratoglu et al., 2003, Saurin et al., 2001)
            Taf9 - Taf5
            anti bait coimmunoprecipitation, western blot
            (Saurin et al., 2001)
            Taf9 - Taf6
            pull down, anti tag coimmunoprecipitation, molecular weight estimation by staining, anti bait coimmunoprecipitation, western blot, peptide massfingerprinting
            (Weake et al., 2009, Wright et al., 2006, Goodrich et al., 1993)
            Taf9 - Tbp
            anti bait coimmunoprecipitation, western blot, molecular weight estimation by staining, ion exchange chromatography, molecular sieving
            (Vorobyeva et al., 2009, Georgieva et al., 2001, Saurin et al., 2001, Chen et al., 1994, Verrijzer et al., 1994, Goodrich et al., 1993, Yokomori et al., 1993)
            Taf9 - TfIIB
            pull down, western blot
            (Goodrich et al., 1993)
            Taf9 - apolpp
            experimental knowledge based
            (Guruharsha et al., 2011)
            Taf9 - e(y)2
            anti bait coimmunoprecipitation, western blot
            (Georgieva et al., 2001)
            Taf9 - e(y)3
            anti bait coimmunoprecipitation, western blot, Identification by mass spectrometry, anti tag coimmunoprecipitation, ion exchange chromatography, molecular sieving
            (Vorobyeva et al., 2009, Vorobyeva et al., 2008)
            Taf9 - mor
            ion exchange chromatography, molecular sieving, western blot, anti bait coimmunoprecipitation
            (Vorobyeva et al., 2009)
            Taf9 - ph-p
            anti tag coimmunoprecipitation, peptide massfingerprinting, anti bait coimmunoprecipitation, western blot, ion exchange chromatography, molecular sieving
            (Saurin et al., 2001)
            Taf9 - polybromo
            ion exchange chromatography, molecular sieving, western blot, anti bait coimmunoprecipitation
            (Vorobyeva et al., 2009)
            Taf9 - wda
            anti tag coimmunoprecipitation, peptide massfingerprinting
            (Weake et al., 2009)
            Summary of Genetic Interactions
            esyN Network Diagram
            esyN Network Key:
            Suppression
            Enhancement
            View in Interactions Browser
            Please look at the allele data for full details of the genetic interactions
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            Taf9
            suppressible
            Su(H)
            (Xie et al., 2014)
            w|z|Taf9
            enhanceable
            su(Hw)
            (Soldatov et al., 1999)
            Starting gene(s)
            Interaction type
            Interacting gene(s)
            Reference
            N
            enhanceable
            Taf9
            (Xie et al., 2014)
            sc
            suppressible
            Taf9
            (Gause et al., 1996)
            su(Hw)|w|z
            enhanceable
            Taf9
            (Soldatov et al., 1999)
            w
            enhanceable
            Taf9
            (Soldatov et al., 1999, Georgiev, 1994)
            w|z
            enhanceable
            Taf9
            (Soldatov et al., 1999, Georgiev, 1994)
            y
            enhanceable
            Taf9
            (Soldatov et al., 1999, Georgiev and Gerasimova, 1989)
            z
            enhanceable
            Taf9
            (Georgiev, 1994)
            External Data
            Subunit Structure (UniProtKB)
            Belongs to the TFIID complex which is composed of TATA binding protein (Tbp) and a number of TBP-associated factors (TAFs). E(y)1 and Taf6 exist as a heterotetramer. Interacts with e(y)2.
            (UniProt, Q27272 )
            Linkouts
            BioGRID - A database of protein and genetic interactions.
            DroID - A comprehensive database of gene and protein interactions.
            MIST (genetic) - An integrated Molecular Interaction Database
            MIST (protein-protein) - An integrated Molecular Interaction Database
            Pathways
            Signaling Pathways (FlyBase)
            Metabolic Pathways
            FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
            External Data
            Genomic Location and Detailed Mapping Data
            Chromosome (arm)
            X
            Recombination map
            1-59
            Cytogenetic map
            16E1-16E1
            Sequence location
            FlyBase Computed Cytological Location
            Cytogenetic map
            Evidence for location
            16E1-16E1
            Limits computationally determined from genome sequence between P{EP}EP1464 and P{EP}EP970
            Experimentally Determined Cytological Location
            Cytogenetic map
            Notes
            References
            16D4-16D5
            (Goodrich, 1994.3.21)
            16D-16D
            (determined by in situ hybridisation)
            (Zoldatov et al., 1997)
            16D4-16D5
            (determined by in situ hybridisation)
            (Goodrich et al., 1993)
            16B-16B
            (determined by in situ hybridisation)
            (Georgiev and Gerasimova, 1989)
            Experimentally Determined Recombination Data
            Location

            1-59

            (FlyBase, 2016)

            1-58.6

            (Comeron et al., 2012)

            1-57.9

            (Zoldatov et al., 1997)

            1-58.1

            (Georgiev and Gerasimova, 1989)
            Left of (cM)
            Right of (cM)
            Notes
            Stocks and Reagents
            Stocks (1)
            Genomic Clones (11)
             

            Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

            cDNA Clones (136)
             

            Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

            cDNA clones, fully sequenced
            BDGP DGC clones
            Other clones
            Drosophila Genomics Resource Center cDNA clones

            For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

            cDNA Clones, End Sequenced (ESTs)
            BDGP DGC clones
            Other clones
            RNAi and Array Information
            Linkouts
            DRSC - Results frm RNAi screens
            GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
            Antibody Information
            Laboratory Generated Antibodies
             

            monoclonal, polyclonal

            (Goodrich et al., 1993)

            monoclonal

            (Goodrich et al., 1993)

            polyclonal

            (Goodrich et al., 1993)
            Commercially Available Antibodies
             
            Other Information
            Relationship to Other Genes
            Source for database identify of

            Source for identity of: Taf9 e(y)1

            (Tora, 2002)
            Source for database merge of

            Source for merge of: e(y)1 e(y)4

            (Soldatov et al., 1999)
            Additional comments
            Other Comments

            dsRNA has been made from templates generated with primers directed against this gene.

            (Marr et al., 2006)

            The proteins encoded by Taf4, Taf5, Taf6, e(y)1 and Taf12 form a core sub-complex of TFIID.

            (Wright et al., 2006)

            Expression of the y and w genes is sensitive to the level of e(y)1 expression.

            (Soldatov et al., 1999)

            Does not interact, in vitro, with human thryroid-hormone receptor-β.

            (Petty et al., 1996)

            The amino terminal portions of e(y)1 and Taf6 adopt the canonical histone fold, consisting of two short α-helices flanking a long central α helix. e(y)1 and Taf6 form an intimate heterodimer by extensive hydrophobic contacts between the paired molecules. In solution and in the crystalline state the e(y)1/Taf6 complex exists as a heterotetramer, resembling the (His3/His4)2 heterotetrameric core of the histone octamer, suggesting that TFIID contains a histone octamer-like substructure.

            (Xie et al., 1996)

            The assembly and purification of various functional Tbp TAF complexes demonstrate that Tbp plus the TAFs is sufficient to replace endogenous TFIID to support activated transcription in vitro.

            (Chen et al., 1994)

            TFIID subunit proteins and the Tbp protein can interact in pairwise combinations with several subunits in a network of interactions within TFIID.

            (Kokubo et al., 1994)

            The TFIID complex interacts with the promoters of Hsp70Bb, Hsp70Bc, Hsp26 and His3 making contacts at the TATA element, initiator, +18 and +28 regions.

            (Purnell et al., 1994)

            A number of polypeptides (encoded by Taf1, Taf4, Taf5, Taf6, e(y)1 and Taf12) that are tightly associated with Tbp and are native TFIID components have been purified. Protein blotting experiments suggest that one of these proteins, Taf1, interacts directly with Tbp, while the association between Tbp and the other proteins is either weak or is an indirect association via Taf1.

            (Kokubo et al., 1993)

            The e(y)1 protein interacts directly with the Taf6 protein. Tbp, Taf1, Taf4 and Taf6 products can assemble into a mini-complex in vitro, showing that Taf6 and Taf4 occupy distinct binding sites on the C terminal part of Taf1.

            (Weinzierl et al., 1993)

            The effects of all e(y) alleles on bristle color persist in the presence of su(Hw)2. No effect on the phenotype of y+.

            (Lindsley and Zimm, 1992)

            e(y)1 modifies the expression of y2, a gypsy-induced allele, but not other gypsy-induced mutations.

            (Lindsley and Zimm, 1992)

            Mutations at the e(y)1 loci enhance the phenotypic expression of several insertion mutations of y without exerting any effect on gypsy induced mutations at other loci. Some mutations in e(y)1 are due to insertion of a Stalker element.

            (Georgiev et al., 1990)
            Origin and Etymology
            Discoverer
            Etymology
            Identification
            External Crossreferences and Linkouts ( 49 )
            Sequence Crossreferences
            NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
            GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
            GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
            RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
            UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
            UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
            Other crossreferences
            AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
            BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
            Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
            DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
            EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
            Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
            FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
            FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
            Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
            Flygut - An atlas of the Drosophila adult midgut
            FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
            GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
            InterPro - A database of protein families, domains and functional sites
            KEGG Genes - Molecular building blocks of life in the genomic space.
            MARRVEL_MODEL - MARRVEL (model organism gene)
            modMine - A data warehouse for the modENCODE project
            PDB - An information portal to biological macromolecular structures
            Linkouts
            BioGRID - A database of protein and genetic interactions.
            DroID - A comprehensive database of gene and protein interactions.
            DRSC - Results frm RNAi screens
            FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
            FlyMine - An integrated database for Drosophila genomics
            KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
            MIST (genetic) - An integrated Molecular Interaction Database
            MIST (protein-protein) - An integrated Molecular Interaction Database
            Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
            Synonyms and Secondary IDs (44)
            Reported As
            Symbol Synonym
            CG6474
            (Wang et al., 2019, Fan et al., 2017, Stegeman et al., 2016, Mohan et al., 2014, Xie et al., 2014, Ni et al., 2010.12.1, Weake et al., 2009, Riedl et al., 2005, Aoyagi and Wassarman, 2000)
            E(y)1
            (Riedl et al., 2005)
            TAF40
            (Hansen et al., 1997, Farmer et al., 1996)
            TAF40/42
            (Green, 2000, Hahn, 1998)
            TAF40/42/e(y)1
            (Aoyagi and Wassarman, 2000)
            TAF42
            (Sandaltzopoulos and Becker, 1998, Hoey et al., 1993)
            TAF9
            (Cornelio-Parra et al., 2021, Helmlinger et al., 2021, Santos and Preta, 2018, Stegeman et al., 2016, Duttke, 2015, Mohan et al., 2014, Xie et al., 2014, Weake et al., 2011, Vorobyeva et al., 2009, Vorobyeva et al., 2009, Weake et al., 2009, Wright and Tjian, 2009, Soshnikova et al., 2008, Vorobyeva et al., 2008, Lebedeva et al., 2007, Metcalf and Wassarman, 2007, Santoso and Kadonaga, 2006, Wright et al., 2006, Tora, 2002)
            TAFII
            (Arnosti, 2002)
            TAFII40
            (Lebedeva, 2005, Lebedeva et al., 2005, Butler and Kadonaga, 2002, Tora, 2002, Sauer et al., 1996, Hansen and Tjian, 1995)
            TAFII40/42
            (Shen et al., 1998, Tansey and Herr, 1997)
            TAFII42
            (Wang and Brock, 2003, Tsukiyama and Wu, 1997)
            TAFII40
            (Kennett et al., 2002)
            TAFII40
            (Melnikova et al., 2014, Georgieva et al., 2001, Goodrich, 1994.3.21, Dynlacht et al., 1993, Dynlacht et al., 1991)
            TAFII40(42)
            (Berk, 1999)
            TFIID
            (Butler and Kadonaga, 2002, Gu et al., 2002, Hochheimer et al., 2002, Simon and Tamkun, 2002, Stathopoulos and Levine, 2002, Mizuguchi et al., 2001)
            TFIID 42
            (Nakatani, 1994.2.8)
            TFIID-p42
            Taf40
            (Struhl and Moqtaderi, 1998)
            Taf42
            (Madueno et al., 1995)
            Taf9
            (Neves and Eisenman, 2019, Spedale et al., 2012, Rodriguez-Navarro, 2009, Marr et al., 2006, Lebedeva, 2005, Lebedeva et al., 2005)
            TafII40
            (Chen et al., 1994)
            TafII40
            (Yan et al., 2014)
            d40
            (Pugh, 2000)
            dTAF42
            (Nogales, 2000, Hoffmann et al., 1996)
            dTAF9
            (Guelman et al., 2006, Chen and Manley, 2003)
            dTAF40
            (Burke and Kadonaga, 1997)
            dTAFII40
            (Wright et al., 2006, Gangloff et al., 2001, Georgieva et al., 2001, Lively et al., 2001, Park et al., 2001, Veenstra and Wolffe, 2001, Albright and Tjian, 2000, Georgieva et al., 2000, Pugh, 2000, Aasland, 1999, Mantovani, 1999, Burke et al., 1998, Kobayashi et al., 1998, Naar et al., 1998, Zhou et al., 1998, Mahanta et al., 1997, Chen and Tjian, 1996, Damania and Alwine, 1996, Goodrich and Tjian, 1994, Verrijzer et al., 1994, Goodrich et al., 1993, Yokomori et al., 1993, Yokomori et al., 1993)
            dTAFII42
            (Pugh, 2000, Burley, 1998, Maity and de Crombrugghe, 1998, Felsenfeld, 1996, Nakatani et al., 1996, Surridge, 1996, Xie et al., 1996)
            dTAFII42
            (Saurin et al., 2001)
            dTaf9
            (Spedale et al., 2012)
            dmTAF9
            (Lebedeva, 2005, Lebedeva et al., 2005, Lebedeva et al., 2004, Muratoglu et al., 2003)
            dmTaf9
            (Kusch et al., 2003)
            dme-TAFII40
            (Baxevanis et al., 1995)
            e(y)1
            (Azpurua et al., 2021, Soffers et al., 2021, Cho et al., 2018, Fan et al., 2017, Jia et al., 2015, Ugrankar et al., 2015, Melnikova et al., 2014, Xie et al., 2014, Yan et al., 2014, Japanese National Institute of Genetics, 2012.5.21, Toku et al., 2011, Kind et al., 2008, Guelman et al., 2006, Georgieva et al., 2001)
            e(y)4
            e(y)1
            (Georgiev et al., 1990)
            p42
            (Kokubo et al., 1994, Kokubo et al., 1993)
            taf40/e(y)1
            (Simonova and Modestova, 2003)
            taf9
            (Fan et al., 2017)
            Name Synonyms
            TBP-associated factor
            (Schuettengruber et al., 2007)
            TBP-associated factor 40kD
            TBP-associated factor 9
            enhancer of yellow 1
            (Xie et al., 2014)
            enhancer of yellow 4
            Secondary FlyBase IDs
            • FBgn0000620
            • FBgn0011302
            Datasets (8)
            Study focus (0)
            Experimental Role
            Project
            Project Type
            Title
            Study result (8)
            Result
            Result Type
            Title
            scRNAseq_2020_Cattenoz_NI_seq_clustering
            Clustering analysis of hemocytes from non-infested third instar larvae
            scRNAseq_2020_Cattenoz_WI_seq_clustering
            Clustering analysis of hemocytes from wasp-infested third instar larvae
            scRNAseq_2020_Cho_NI72LG_seq_clustering
            Clustering analysis of lymph gland cells from non-infested larvae at 72 h after egg-laying
            scRNAseq_2020_Cho_NI96LG_seq_clustering
            Clustering analysis of lymph gland cells from non-infested larvae at 96 h after egg-laying
            scRNAseq_2020_Cho_NI120LG_seq_clustering
            Clustering analysis of lymph gland cells from non-infested larvae at 120 h after egg-laying
            scRNAseq_2020_Cho_WI96LG_seq_clustering
            Clustering analysis of lymph gland cells from wasp-infested larvae at 96 h after egg-laying
            scRNAseq_2020_Cho_NI96HL_seq_clustering
            Clustering analysis of circulating hemocytes from non-infested larvae at 96 h after egg-laying
            scRNAseq_2020_Cho_NI120HL_seq_clustering
            Clustering analysis of circulating hemocytes from non-infested larvae at 120 h after egg-laying
            References (159)