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

10 publicly available

Gene Snapshot

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]

Other Summaries

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

Sequence

Get Decorated FASTA

Genomic Maps

GBrowse JBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

[Detailed GO annotations]

Gene Group (FlyBase)

TNF RECEPTOR ASSOCIATED FACTORS

Protein Family (UniProt)

Protein Signatures (InterPro)

Molecular Function (GO)
[Detailed GO annotations]

Experimental Evidence

protein binding

Predictions / Assertions

zinc ion binding

Summaries

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 GBrowse view of Dmel\Traf4 or 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

Comments on Gene Model

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

Gene model reviewed during 5.47

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

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

RefSeq ID

GenBank

Traf4-PA

FBpp0077119

53.7

486

8.74

NP_477416

AAF51024

Traf4-PE

FBpp0306504

52.9

477

8.63

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

Gene Ontology (17 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

protein binding

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

(Wang et al., 2006)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

zinc ion binding

inferred from electronic annotation with InterPro:IPR001293, InterPro:IPR012227, InterPro:IPR013323

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Biological Process (11 terms)

Terms Based on Experimental Evidence (9 terms)

CV Term

Evidence

References

adherens junction organization

inferred from mutant phenotype

(Mathew et al., 2011)

apical constriction involved in gastrulation

inferred from mutant phenotype

(Mathew et al., 2011)

asymmetric protein localization involved in cell fate determination

inferred from mutant phenotype

(Wang et al., 2006)

defense response to Gram-negative bacterium

inferred from mutant phenotype

(Berkey et al., 2009)

eye development

inferred from mutant phenotype

(Cha et al., 2003)

imaginal disc fusion, thorax closure

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

(Cha et al., 2003)

positive regulation of apoptotic process

inferred from mutant phenotype

(Cha et al., 2003)

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)

ventral furrow formation

inferred from mutant phenotype

(Mathew et al., 2009)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

activation of NF-kappaB-inducing kinase activity

inferred from electronic annotation with InterPro:IPR027138

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

dorsal closure

traceable author statement

(Noselli and Agnes, 1999)

Cellular Component (4 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

apical cortex

inferred from direct assay

(Wang et al., 2006)

apical part of cell

inferred from direct assay

(Mathew et al., 2011)

cytoplasm

inferred from direct assay

(Wang et al., 2006)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

protein-containing complex

inferred from biological aspect of ancestor with PANTHER:PTN000805648

(assigned by GO_Central )

(Gaudet et al., 2011)

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

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)

embryonic/larval cardial cell

(Ahmad et al., 2012)

embryonic/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

apical cortex

inferred from direct assay

(Wang et al., 2006)

apical part of cell

inferred from direct assay

(Mathew et al., 2011)

cytoplasm

inferred from direct assay

(Wang et al., 2006)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Traf4 in GBrowse 2

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

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0026319

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG3048-RA;CT35493

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, and Transgenic Constructs

Classical and Insertion Alleles ( 11 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 9 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Traf4

Transgenic constructs containing regulatory region of Traf4

Deletions and Duplications ( 11 )

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)

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)

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

immune response defective

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

Traf4^UAS.Tag:HA

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

size defective | larval stage

Traf4^ex1

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

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (9)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\TRAF4

13 of 15

Yes

Hsap\TRAF1

2 of 15

Yes

Hsap\TRAF2

2 of 15

Yes

Hsap\TRAF3

2 of 15

Yes

2 of 15

1 of 15

1 of 15

1 of 15

1 of 15

Yes

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (8)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Traf4

13 of 15

Yes

Mmus\Traf1

2 of 15

Yes

Mmus\Traf2

2 of 15

Yes

Mmus\Traf3

2 of 15

Yes

2 of 15

1 of 15

1 of 15

1 of 15

Yes

Rattus norvegicus (Norway rat) (7)

Rnor\Traf4

13 of 13

Yes

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (5)

Xtro\traf4

8 of 12

Yes

Xtro\traf3

2 of 12

Yes

Xtro\pdzrn3

1 of 12

Xtro\traf6

1 of 12

Xtro\traf7

1 of 12

Yes

Danio rerio (Zebrafish) (13)

Drer\traf4a

14 of 15

Yes

Drer\traf4b

13 of 15

Yes

Drer\traf1

2 of 15

Yes

Drer\traf2a

2 of 15

Drer\traf2b

2 of 15

Yes

Drer\traf3

2 of 15

Yes

2 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

Yes

Drer\traf7

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\trf-1

8 of 15

Yes

Cele\Y110A7A.2

5 of 15

Yes

Arabidopsis thaliana (thale-cress) (4)

Atha\AT3G11950

2 of 9

Yes

Atha\ARI10

1 of 9

Atha\AT1G66620

1 of 9

Yes

Atha\AT4G00780

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG0919075G )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Dmel\Traf4

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA25491

Drosophila persimilis

Dper\GL15107

Drosophila willistoni

Dwil\GK24337

Drosophila virilis

Dvir\GJ16121

Drosophila mojavensis

Dmoj\GI22040

Drosophila grimshawi

Dgri\GH13208

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091504JH )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17006096

Musca domestica

House fly

Mdoa\17008010

Musca domestica

House fly

Mdoa\17006111

Glossina morsitans

Tsetse fly

Gmor\GMOY006356

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_14324

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL006649

Anopheles darlingi

American malaria mosquito

Adar\ADAC001482

Anopheles gambiae

Malaria mosquito

Agam\AGAP010017

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ005312

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W065B )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Danaus plexippus

Monarch butterfly

Dple\DPOGS209601-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL007248

Apis florea

Little honeybee

Aflo\2620475028

Apis mellifera

Western honey bee

Amel\GB46952

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP13883

Bombus terrestris

Buff-tailed bumblebee

Bter\15215313

Linepithema humile

Argentine ant

Lhum\LH10823

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:001b6c

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG012701

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_11258

Tribolium castaneum

Red flour beetle

Tcas\TC034344

Pediculus humanus

Human body louse

Phum\PHUM275010

Rhodnius prolixus

Kissing bug

Rpro\RPRC006577

Cimex lectularius

Bed bug

Clec\CLEC003864

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI000855

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_17913

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X060W )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR001282

Strigamia maritima

European centipede

Smar\SMAR007785

Ixodes scapularis

Black-legged tick

Isca\ISCW005120

Ixodes scapularis

Black-legged tick

Isca\ISCW000732

Ixodes scapularis

Black-legged tick

Isca\ISCW015053

Ixodes scapularis

Black-legged tick

Isca\ISCW002862

Stegodyphus mimosarum

African social velvet spider

Smim\KFM57595.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM57516.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM57596.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur28g01060

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_51929

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0GHD )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-traf1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-traf3

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-traf4

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-traf6

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-traf3_1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-traf1_1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-traf

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-trafA

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-trafB

Ciona intestinalis

Vase tunicate

Cint\LOC100179623

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000004316

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000020502

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000001576

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000021357

Ciona intestinalis

Vase tunicate

Cint\zf(traf/ring)-1

Ciona intestinalis

Vase tunicate

Cint\LOC100178481

Gallus gallus

Domestic chicken

Ggal\TRAF1

Gallus gallus

Domestic chicken

Ggal\TRAF6

Gallus gallus

Domestic chicken

Ggal\TRAF2

Gallus gallus

Domestic chicken

Ggal\TRAF3

Gallus gallus

Domestic chicken

Ggal\TRAF-5

Gallus gallus

Domestic chicken

Ggal\TRAF4

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v7.1)

Drosophila melanogaster (Fruit fly) (2)

Gene Symbol

Score

Source

Alignment

3 of 10

2 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

Traf4^ex1

ameliorates retinitis pigmentosa

modeled by ninaE^P37H, ninaE¹⁷

(Griciuc et al., 2014)

Comments on Models/Modifiers Based on Experimental Evidence ( 0 )

Disease Associations of Human Orthologs (via DIOPT v7.1 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 15

602464

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

Interactions Browser

View in Interactions Browser

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

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

(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

anti tag coimmunoprecipitation, anti tag western blot, two hybrid

(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

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

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)

enhanceable

(Cha et al., 2003)

suppressible

(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)

suppressible

(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

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

33638

MIST (genetic) - An integrated Molecular Interaction Database

Traf4

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

Traf4

Pathways

Gene Group - Pathway Membership (FlyBase)

External Data

Linkouts

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

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

A8DYU9

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 (10)

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

c03104

v110766

v21214

w¹¹¹⁸ P{GD10100}v21214

v21213

w¹¹¹⁸; P{GD10100}v21213/TM3

Genomic Clones (24)

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

cDNA Clones (31)

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 sequences

BDGP DGC clones

LD20987

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.

FBgn0026319

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0026319

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

33638

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Mathew et al., 2011)

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: Traf4 Traf1

(Leptin et al., 2008.2.11)

Source for database merge of

Additional comments

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)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 55 )

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/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0026319

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

FBgn0026319

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

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

CG3048

Flygut - An atlas of the Drosophila adult midgut

FBgn0026319

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

33638

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

TC034344

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

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

Dmel_CG3048

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Apoptosis

modMine - A data warehouse for the modENCODE project

FBgn0026319

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

A8DYU9

Linkouts

BioGRID - A database of protein and genetic interactions.

59832

DPiM - Drosophila Protein interaction map

FBgn0026319

DroID - A comprehensive database of gene and protein interactions.

FBgn0026319

DRSC - Results frm RNAi screens

FBgn0026319

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0026319

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG3048-RA;CT35493

FlyMine - An integrated database for Drosophila genomics

FBgn0026319

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

Interactive Fly

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

33638

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Apoptosis - fly

MIST (genetic) - An integrated Molecular Interaction Database

Traf4

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

Traf4

Synonyms and Secondary IDs (23)

Reported As

Symbol Synonym

CG3048

(Hosono et al., 2015, 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

(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)

TRAF

(Kyriakis, 1999)

TRAF1

(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

(Lu et al., 2017, Ríos-Barrera and Riesgo-Escovar, 2013, Pirooznia et al., 2012)

Traf1

(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)

Traf4

(Zhu et al., 2019, Gene Disruption Project members, 2018-, Gilmour et al., 2017, Transgenic RNAi Project members, 2017-, Lee et al., 2016, Ou et al., 2016, Kavi et al., 2015, Faisal et al., 2014, Huang et al., 2013, Lim and Thiery, 2012, van Bergeijk et al., 2012, Mathew et al., 2011, Ozdemir et al., 2011, Jung et al., 2010, Nechaev et al., 2010, Mathew et al., 2009)

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

References (122)

Report Sections

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