FlyBase Gene Report: Dmel\Traf4

General Information

Symbol

Dmel\Traf4

Species

D. melanogaster

Name

TNF-receptor-associated factor 4

Annotation Symbol

CG3048

Feature Type

protein_coding_gene

FlyBase ID

FBgn0026319

Gene Model Status

Current

Stock Availability

13 publicly available

Gene Summary

TNF-receptor-associated factor 4 (Traf4) encodes an adapter protein thought to bind the TNF receptor and activate downstream signaling. However, it also has TNF independent roles, especially with respect to morphogenesis. The product of Traf4 interacts with and localizes polarity and adherens junction proteins such as the products of baz and arm respectively. It is required for normal embryonic development, cell death, and cell growth. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

Traf1, DTRAF1

Key Links

Genomic Location

Cytogenetic map

24E1-24E4

Sequence location

2L:4,361,925..4,380,716 [+]

Recombination map

2-12

RefSeq locus

NT_033779 REGION:4361925..4380716

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (20 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables protein binding

inferred from physical interaction with FLYBASE:baz; FB:FBgn0000163

(Wang et al., 2006)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables signaling adaptor activity

inferred from biological aspect of ancestor with PANTHER:PTN008301857

(GO Reference Genome Project, 2011-)

enables zinc ion binding

inferred from electronic annotation with InterPro:IPR001293, InterPro:IPR012227

(InterPro Project Members, 2004-)

Biological Process (14 terms)

Terms Based on Experimental Evidence (9 terms)

CV Term

Evidence

References

involved_in adherens junction organization

inferred from mutant phenotype

(Mathew et al., 2011)

involved_in apical constriction involved in gastrulation

inferred from mutant phenotype

(Mathew et al., 2011)

involved_in asymmetric protein localization involved in cell fate determination

inferred from mutant phenotype

(Wang et al., 2006)

involved_in defense response to Gram-negative bacterium

inferred from mutant phenotype

(Berkey et al., 2009)

involved_in eye development

inferred from mutant phenotype

(Cha et al., 2003)

involved_in imaginal disc fusion, thorax closure

inferred from genetic interaction with FLYBASE:bsk; FB:FBgn0000229

(Cha et al., 2003)

acts_upstream_of positive regulation of apoptotic process

inferred from mutant phenotype

(Cha et al., 2003)

involved_in positive regulation of JNK cascade

inferred from genetic interaction with FLYBASE:bsk; FB:FBgn0000229

(Cha et al., 2003)

inferred from genetic interaction with FLYBASE:hep; FB:FBgn0010303

(Cha et al., 2003)

inferred from genetic interaction with FLYBASE:Tak1; FB:FBgn0026323

(Cha et al., 2003)

inferred from mutant phenotype

(Liu et al., 1999)

inferred from direct assay

(Kuranaga et al., 2002)

involved_in ventral furrow formation

inferred from mutant phenotype

(Mathew et al., 2009)

Terms Based on Predictions or Assertions (6 terms)

CV Term

Evidence

References

involved_in cell surface receptor signaling pathway

inferred from biological aspect of ancestor with PANTHER:PTN008301857

(GO Reference Genome Project, 2011-)

involved_in dorsal closure

traceable author statement

(Noselli and Agnes, 1999)

involved_in positive regulation of JNK cascade

inferred from electronic annotation with InterPro:IPR037307

(InterPro Project Members, 2004-)

involved_in regulation of apoptotic process

inferred from electronic annotation with InterPro:IPR012227

(InterPro Project Members, 2004-)

involved_in regulation of canonical NF-kappaB signal transduction

inferred from biological aspect of ancestor with PANTHER:PTN000805648

(GO Reference Genome Project, 2011-)

involved_in signal transduction

inferred from electronic annotation with InterPro:IPR012227

(InterPro Project Members, 2004-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

located_in apical cortex

inferred from direct assay

(Wang et al., 2006)

located_in apical part of cell

inferred from direct assay

(Mathew et al., 2011)

located_in cytoplasm

inferred from direct assay

(Wang et al., 2006)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN008938480

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

TNF RECEPTOR ASSOCIATED FACTORS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

TNF RECEPTOR ASSOCIATED FACTORS -: TNF receptor associated factors (TRAFs) were originally identified as intracellular signal transducers for members of the TNF receptor (TNFR) family in mammals. In Drosophila, TRAFs act downstream of Toll and other homologous receptors (a function shared with some mammalian TRAFs). TRAFs act as adaptor molecules, binding the cytoplasmic tail of activated receptors to recruit other signalling molecules or complexes. All TRAFs contain a C-terminal TRAF domain which interacts with the receptor. (Adapted from FBrf0135895).

Summary (Interactive Fly)

Traf domain protein - involved in signal transduction in the JNK and pathway - an adapter protein thought to bind the TNF receptor and activate downstream signaling - interacts with and localizes polarity and adherens junction proteins such as Bazooka and Armadillo respectively - required for normal embryonic development, cell death, and cell growth

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Traf4 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

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q9XYR0)

If you don't see a structure in the viewer, 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.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.47

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Traf4-RA

FBtr0077429

NM_058068

2361

486

Traf4-RE

FBtr0334401

NM_001103610

2675

477

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Traf4-PA

FBpp0077119

53.7

486

8.74

FBpp0306504

52.9

477

8.63

A8DYU9

NP_001097080

ABV53619

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

486 (aa)

(Liu et al., 1999)

Comments

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Traf4 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

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.40

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 4 -- 6

anlage in statu nascendi

(Fisher et al., 2012)

hindgut anlage in statu nascendi

(Fisher et al., 2012)

mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

trunk mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

ventral ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

yolk

(Fisher et al., 2012)

yolk nucleus

(Fisher et al., 2012)

embryonic stage 5 -- 6

mesoderm anlage

(Mathew et al., 2011)

hindgut anlage

(Mathew et al., 2011)

mesectoderm | subset

(Kearney et al., 2004)

embryonic stage 7 -- 8

dorsal ectoderm

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

ventral ectoderm

(Fisher et al., 2012)

yolk nucleus

(Fisher et al., 2012)

embryonic stage 9 -- 10

antennal primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)

central brain primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)

visual primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)

dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)

lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)

ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)

dorsal ectoderm

(Fisher et al., 2012)

head mesoderm

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

ventral ectoderm

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 9 -- 12

midline primordium | subset

(Kearney et al., 2004)

embryonic stage 11 -- 13

cardiogenic mesoderm

(Ahmad et al., 2012)

embryonic stage 16 -- 17

embryonic/larval heart

(Ahmad et al., 2012)

larval cardial cell

(Ahmad et al., 2012)

larval pericardial cell

(Ahmad et al., 2012)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 5

cell | apical

(Mathew et al., 2011)

embryonic stage 6 -- 8

cell | apical of mesoderm

(Mathew et al., 2011)

Additional Descriptive Data

Traf4 protein is apically distributed in cellular blastoderms through ventral furrow formation. Traf4 protein localization remains tightly apical in mesodermal cells during ventral furrow formation, while weaker staining can be observed to extend basally during gastrulation.

(Mathew et al., 2011)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in apical cortex

inferred from direct assay

(Wang et al., 2006)

located_in apical part of cell

inferred from direct assay

(Mathew et al., 2011)

located_in cytoplasm

inferred from direct assay

(Wang et al., 2006)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Traf4 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Traf4

View exonic expression by tissue for Dmel\Traf4

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

FBgn0026319

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

33638/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0026319

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0026319

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0026319

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG3048

Flygut - An atlas of the Drosophila adult midgut

FBgn0026319

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Traf4

Stages(s) 4-6
Stages(s) 7-8
Stages(s) 9-10
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 12 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 10 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Traf4

Transgenic constructs containing regulatory region of Traf4

Aberrations (Deficiencies and Duplications) ( 11 )

Inferred from experimentation ( 11 )

Gene disrupted in

Df(2L)dp-h25

(Mathew et al., 2009)

Df(2L)dp-h28

(Mathew et al., 2009)

Df(2L)Exel8011

(Ryder, 2004.4.26)

Gene not disrupted in

Df(2L)dp-h19

(Mathew et al., 2009)

Df(2L)dp-h24

(Mathew et al., 2009)

Df(2L)ED250

(Mathew et al., 2009)

Df(2L)ED251

(Mathew et al., 2009)

Df(2L)ED252

(Mathew et al., 2009)

Df(2L)ED3006-2L

(Mathew et al., 2009)

Df(2L)Exel6010

(Mathew et al., 2009)

Df(2L)Exel9062

(Mathew et al., 2009)

Inferred from location ( 4 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

lethal

Traf4³

lethal (with Traf4³)

Traf4^L2

lethal (with Traf4^L2)

Traf4³

lethal - all die before end of larval stage

Traf4^ex1

lethal - all die before end of pupal stage

Traf4^L2

partially lethal, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Traf4^GD10100

viable, with Scer\GAL4^Mef2.PR

Traf4^GD10100

viable, with Scer\GAL4^pnr-MD237

Traf4^GD10100

viable, with Scer\GAL4^tin.CΔ4

Traf4^GD10100

Other Phenotypes

Allele

abnormal immune response

abnormal size | larval stage

Traf4^ex1

increased cell death, with Scer\GAL4^Act5C.PHb

Traf4^UAS.Tag:HA

increased cell death, with Scer\GAL4^GMR.PF

some die during larval stage

Traf4^ex1

some die during pupal stage

Traf4^L2

some die during pupal stage, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Traf4^GD10100

visible, with Scer\GAL4^ey.PH

Traf4^EP578

visible, with Scer\GAL4^GMR.PF

Traf4^EP578

Phenotype manifest in

Allele

embryonic/first instar larval cuticle | rescuable maternal effect

Traf4³

embryonic/larval salivary gland, with Scer\GAL4^fkh.PH

Traf4^EP578

eye, with Scer\GAL4^ey.PH

Traf4^EP578

eye, with Scer\GAL4^GMR.PF

eye disc

Traf4^ex1

eye disc, with Scer\GAL4^GMR.PF

eye photoreceptor cell, with Scer\GAL4^GMR.PF

Traf4^EP578

eye photoreceptor cell & axon

Traf4^ex1

imaginal disc

Traf4^ex1

ommatidium, with Scer\GAL4^GMR.PF

ventral furrow

Traf4³

ventral furrow, with Scer\GAL4^twi.PG

Traf4^UAS.cMa

ventral furrow (with Df(2L)ed-dp)

Traf4³

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (11)

Hsap\TRAF4

13 of 14

Yes

3 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (10)

Rnor\Traf4

12 of 14

Yes

Rnor\Traf5

3 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

Yes

Rnor\Traf6

2 of 14

Rnor\Rnf41

1 of 14

Rnor\Rnf125

1 of 14

Yes

Rnor\Traf7

1 of 14

Mus musculus (laboratory mouse) (11)

Mmus\Traf4

13 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (10)

Xtro\traf4

7 of 13

Yes

Xtro\fbxo24

5 of 13

Yes

Xtro\traf5

3 of 13

Yes

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\traf2

1 of 13

Danio rerio (Zebrafish) (22)

Drer\traf4a

13 of 14

Yes

Drer\traf4b

12 of 14

Yes

Drer\traf5

3 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

Yes

Drer\traf3

2 of 14

Drer\traf6

2 of 14

Drer\btr01

1 of 14

Yes

Drer\btr06

1 of 14

Yes

Drer\ftr01

1 of 14

Drer\ftr64

1 of 14

Drer\LOC100005446

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Drer\trim25

1 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\trf-1

9 of 14

Yes

Cele\trf-2

5 of 14

Yes

Anopheles gambiae (African malaria mosquito) (4)

Agam\AgaP_AGAP010017

11 of 12

Yes

Agam\AgaP_AGAP003004

2 of 12

Agam\AgaP_AGAP001882

1 of 12

Agam\TRAF6

1 of 12

Arabidopsis thaliana (thale-cress) (6)

Atha\AT2G32870

1 of 13

Yes

Atha\AT3G11950

1 of 13

Yes

Atha\AT3G58400

1 of 13

Yes

Atha\AT5G37900

1 of 13

Yes

Atha\AT5G37910

1 of 13

Yes

Atha\PRT1

1 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Traf4. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (5)

4 of 13

2 of 13

2 of 13

1 of 13

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

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 ( 2 )

Allele

Disease

Interaction

References

Traf4^RNAi.UAS

exacerbates carcinoma

modeled by Ras85D^V12.UAS, l(2)gl⁴

(Igaki et al., 2006)

Traf4^ex1

ameliorates retinitis pigmentosa

modeled by ninaE^P37H, ninaE¹⁷

(Griciuc et al., 2014)

Disease Associations of Human Orthologs (via DIOPT v9.1 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?

TRAF4; TNF receptor associated factor 4

13 of 14

602464

TRAF5; TNF receptor associated factor 5

3 of 14

602356

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

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Traf4

two hybrid

(Liu et al., 1999)

Traf4 - RhoGEF2

pull down, autoradiography

(Mathew et al., 2011)

Traf4 - Tab2

anti tag coimmunoprecipitation, anti tag western blot

(Geuking et al., 2005)

Traf4 - Tak1

anti tag coimmunoprecipitation, anti tag western blot

(Geuking et al., 2005)

Traf4 - arm

anti tag coimmunoprecipitation, anti tag western blot, pull down, autoradiography

(Mathew et al., 2011)

Traf4 - baz

pull down, autoradiography

(Mathew et al., 2011, Wang et al., 2006)

Traf4 - drpr

anti tag coimmunoprecipitation, anti tag western blot

(Lu et al., 2017)

Traf4 - msn

two hybrid, anti tag coimmunoprecipitation, anti tag western blot

(Liu et al., 1999)

Traf4 - scrib

pull down, autoradiography

(Mathew et al., 2011)

Traf4 - wgn

anti tag coimmunoprecipitation, western blot

(Geuking et al., 2005)

Summary of Genetic Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Traf4

enhanceable

arm

(Mathew et al., 2011)

enhanceable

(Cha et al., 2003)

suppressible

(Tseng and Hariharan, 2002)

Traf4

suppressible

Diap1

(Kuranaga et al., 2002)

Traf4

suppressible

hep

(Cha et al., 2003, Kuranaga et al., 2002)

suppressible

(Cha et al., 2005)

suppressible

(Cha et al., 2003)

enhanceable

(Cha et al., 2003)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

arm

enhanceable

Traf4

(Mathew et al., 2011)

enhanceable

(Cha et al., 2003)

enhanceable

(Ketosugbo et al., 2017)

mbl

suppressible

Traf4

(Vicente-Crespo et al., 2008)

mbl

enhanceable

Traf4

(Vicente-Crespo et al., 2008)

ninaE

suppressible

Traf4

(Griciuc et al., 2014)

suppressible

(Cha et al., 2005)

enhanceable

(Tiwari and Roy, 2009)

Rala

enhanceable

Traf4

(Balakireva et al., 2006)

suppressible

(Wu et al., 2009)

suppressible

(Mathew et al., 2011)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

59832

DroID - A comprehensive database of gene and protein interactions.

FBgn0026319

MIST (genetic) - An integrated Molecular Interaction Database

33638

MIST (protein-protein) - An integrated Molecular Interaction Database

33638

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Apoptosis - fly

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

A8DYU9

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-12

Cytogenetic map

24E1-24E4

Sequence location

2L:4,361,925..4,380,716 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

24E1-24E4

Limits computationally determined from genome sequence between P{EP}Traf1^EP578 and P{lacW}Tps1^k08903&P{EP}morgue^EP1184

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-12

(FlyBase, 2016)

2-13.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (13)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

17285

w¹¹¹⁸; P{EP}Traf4^EP578

81497

y¹ v¹; P{TKO.GS04827}attP40

55226

y¹ v¹; P{TRiP.GLC01843}attP2

60747

y¹ w^*; Mi{MIC}Traf4^MI01530

81171

y¹ w^*; TI{CRIMIC.TG4.0}Traf4^{CR01093-TG4.0}

80715

y¹ sc^* v¹ sev²¹; P{TOE.GS01193}attP40

NIG-Fly

3048R-2

P{NIG.3048R}2

3048R-3

P{NIG.3048R}3

M2L-1978

y¹ w¹¹¹⁸; Traf4^SK6 P{neoFRT}40A/CyO-Tb

VDRC

v110766

P{KK107398}VIE-260B

v21214

w¹¹¹⁸ P{GD10100}v21214

v21213

w¹¹¹⁸; P{GD10100}v21213/TM3

More stocks available...

Genomic Clones (24)

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

cDNA Clones (30)

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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

LD20987

Other clones

DPiM_LD20987

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.

FBgn0026319

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0026319

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Mathew et al., 2011)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Gene expression is increased in response to the presence of two copies of Scer\GAL4^hs.PB.

(Liu and Lehmann, 2008)

S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.

(Stroschein-Stevenson et al., 2006)

Identification: Identified as a protein that interacts with msn in a yeast two-hybrid screen.

(Liu et al., 1999)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Traf4 Traf1

(Leptin et al., 2008.2.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (24)

Reported As

Symbol Synonym

CG3048

(National Institute of Genetics Fly Stocks, 2022-, Hosono et al., 2015, Ahmad et al., 2012, Aerts et al., 2010, Ni et al., 2010.12.1, Seinen et al., 2010, Keleman et al., 2009.8.5, Carrera et al., 2008, Brandt, 2006, Cha et al., 2003)

DTRAF

(Xia and Karin, 2004)

DTRAF1

(Loudhaief et al., 2023, Griciuc et al., 2014, Mallik and Lakhotia, 2009, Tiwari and Roy, 2009, Wu et al., 2009, Kuranaga and Miura, 2007, Igaki et al., 2006, Wang et al., 2006, Varfolomeev and Ashkenazi, 2004, Cha et al., 2003, Kuranaga et al., 2003, Kuranaga et al., 2002, Zapata et al., 2000, Liu et al., 1999, Noselli and Agnes, 1999)

TNF

(Mengnan et al., 2023)

TRAF

(Kyriakis, 1999)

TRAF1

(Yu et al., 2021, Lee et al., 2018, Mathew et al., 2007, Balakireva et al., 2006, Tomioka et al., 2005, Sun et al., 2002, Preiss et al., 2001, Lemaitre, 2000.12.20, Skolnik, 1999.1.12, Stronach and Perrimon, 1999)

TRAF4

(Long et al., 2025, Shweta et al., 2024, Corrales et al., 2022, Mishra et al., 2021, Lu et al., 2017, Ríos-Barrera and Riesgo-Escovar, 2013, Pirooznia et al., 2012)

Traf1

(Kvon et al., 2021, Cannavò et al., 2016, Sitnik et al., 2016, Griciuc et al., 2014, Japanese National Institute of Genetics, 2012.5.21, Aerts et al., 2010, Kazemian et al., 2010, Carrera et al., 2008, Leptin et al., 2008.2.11, Liu and Lehmann, 2008, Vicente-Crespo et al., 2008, Firth and Baker, 2007, Brandt, 2006, Philippakis et al., 2006, Stroschein-Stevenson et al., 2006, Reeves and Posakony, 2005)

dTRAF

(Aderem and Ulevitch, 2000)

dTRAF1

(Wang et al., 2019, Willsey et al., 2016, Tang et al., 2013, Xue et al., 2007, Geuking et al., 2005, Leclerc and Reichhart, 2004, Wu and Arron, 2003, Silverman and Maniatis, 2001, Grech et al., 2000)

dTraf1

(Zhang et al., 2010, Wasserman, 2000)

dTraf4

(Djiane et al., 2013)

dtraf1

(Marchal et al., 2012, Jacinto et al., 2002, Dean and Booker, 2001)

traf-1/4

(Agrawal et al., 2016)

traf-4

(Maybeck and Röper, 2009)

traf1

(Berkey et al., 2009, Mathew et al., 2009)

traf1/4

(Agrawal et al., 2016)

traf4

(Kang et al., 2012, Mathew et al., 2009)

Name Synonyms

TNF Receptor Associated Factor 1

(Mathew et al., 2007)

TNF receptor associated factor 4

(Lu et al., 2017)

TNF-receptor associated factor 4

(Castillo et al., 2015)

TNF-receptor-associated factor 1

TNF-receptor-associated factor 4

(Faisal et al., 2014, Pirooznia et al., 2012)

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 56 )

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.

33638

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.

Q9XYR0

UniProt/TrEMBL - Automatically annotated and unreviewed 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.

Q9XYR0

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0026319

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

33638/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0026319

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0026319

FlyMine - An integrated database for Drosophila genomics

FBgn0026319

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG3048

MARRVEL_MODEL - MARRVEL (model organism gene)

33638

Linkouts

BioGRID - A database of protein and genetic interactions.

59832

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0026319

DroID - A comprehensive database of gene and protein interactions.

FBgn0026319

DRSC - Results frm RNAi screens

FBgn0026319

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0026319

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0026319

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG3048

Flygut - An atlas of the Drosophila adult midgut

FBgn0026319

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC034344

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Apoptosis - fly

MIST (genetic) - An integrated Molecular Interaction Database

33638

MIST (protein-protein) - An integrated Molecular Interaction Database

33638

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

A8DYU9

References (158)

The following external sites may use different assemblies or annotations than FlyBase.

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