FlyBase Gene Report: Dmel\rdx

General Information

Symbol

Dmel\rdx

Species

D. melanogaster

Name

roadkill

Annotation Symbol

CG12537

Feature Type

protein_coding_gene

FlyBase ID

FBgn0264493

Gene Model Status

Current

Stock Availability

39 publicly available

Gene Summary

roadkill (rdx) encodes a protein that functions as a substrate recognition component of Cul3-based E3 ubiquitin ligase complexes. It regulates the Hedgehog signaling pathway by promoting the degradation of the transcription factor encoded by ci. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Pathway
UniProtKB
Red Book
Interactive Fly

Also Known As

hib, l(3)88Aa, l(3)2004, SPOP, l(3)03477

Key Links

Genomic Location

Cytogenetic map

88A1-88A4

Sequence location

3R:13,967,061..14,032,057 [-]

Recombination map

3-54

RefSeq locus

NT_033777 REGION:13967061..14032057

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (21 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables protein binding

inferred from physical interaction with FLYBASE:ci; FB:FBgn0004859

(Zhang et al., 2009)

inferred from physical interaction with UniProtKB:P19538

(assigned by UniProt )

(Zhang et al., 2006)

inferred from physical interaction with UniProtKB:Q9V475

(assigned by UniProt )

(Zhang et al., 2006)

enables protein homodimerization activity

inferred from direct assay

(Zhou et al., 2015, Zhang et al., 2009)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables ubiquitin protein ligase binding

inferred from biological aspect of ancestor with PANTHER:PTN000698163

(assigned by GO_Central )

(Gaudet et al., 2011)

Biological Process (15 terms)

Terms Based on Experimental Evidence (14 terms)

CV Term

Evidence

References

involved_in compound eye morphogenesis

inferred from mutant phenotype

(Kent et al., 2006)

involved_in eye development

inferred from mutant phenotype

(assigned by UniProt )

(Zhang et al., 2006)

involved_in negative regulation of protein import into nucleus

inferred from mutant phenotype

(Seong et al., 2010)

inferred from genetic interaction with FLYBASE:ci; FB:FBgn0004859

(Seong and Ishii, 2013)

involved_in negative regulation of smoothened signaling pathway

inferred from mutant phenotype

(Zhou et al., 2015, Zhang et al., 2013, Seong et al., 2010, Kent et al., 2006, Zhang et al., 2006)

inferred from genetic interaction with FLYBASE:ci; FB:FBgn0004859

(Han et al., 2015)

inferred from genetic interaction with FLYBASE:dco; FB:FBgn0002413, FLYBASE:ci; FB:FBgn0004859, FLYBASE:CkIα; FB:FBgn0015024

(Shi et al., 2014)

inferred from genetic interaction with FLYBASE:Su(fu); FB:FBgn0005355

(Seong and Ishii, 2013)

involved_in positive regulation of apoptotic process

inferred from genetic interaction with FLYBASE:egr; FB:FBgn0033483

(Liu et al., 2009)

involved_in positive regulation of JNK cascade

inferred from mutant phenotype

(Liu et al., 2009)

involved_in positive regulation of protein catabolic process

inferred from mutant phenotype

(Kent et al., 2006)

inferred from genetic interaction with FLYBASE:ci; FB:FBgn0004859

(Seong and Ishii, 2013)

involved_in protein autoubiquitination

inferred from direct assay

(Zhou et al., 2015)

involved_in protein destabilization

inferred from mutant phenotype

(Zhang et al., 2009)

involved_in protein K48-linked ubiquitination

inferred from direct assay

(Zhang et al., 2013)

involved_in protein polyubiquitination involved in nucleus-associated proteasomal ubiquitin-dependent protein catabolic process

inferred from direct assay

(Zhou et al., 2015)

involved_in protein ubiquitination

inferred from direct assay

(Zhou et al., 2015)

inferred from mutant phenotype

(Liu et al., 2009, Zhang et al., 2006)

involved_in regulation of proteolysis

inferred from mutant phenotype

(Liu et al., 2009)

involved_in segment polarity determination

inferred from mutant phenotype

(assigned by UniProt )

(Zhang et al., 2006)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in proteasome-mediated ubiquitin-dependent protein catabolic process

inferred from biological aspect of ancestor with PANTHER:PTN000698163

(assigned by GO_Central )

(Gaudet et al., 2011)

involved_in regulation of proteolysis

inferred from biological aspect of ancestor with PANTHER:PTN000698163

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

part_of Cul3-RING ubiquitin ligase complex

inferred from direct assay

(Zhang et al., 2013)

located_in nucleus

inferred from direct assay

(Seong et al., 2010)

inferred from direct assay

(assigned by UniProt )

(Zhang et al., 2006)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN000698163

(assigned by GO_Central )

(Gaudet et al., 2011)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000698511

(assigned by GO_Central )

(Gaudet et al., 2011)

Gene Group (FlyBase)

Pathway (FlyBase)

Negative Regulators of Hedgehog Signaling Pathway

Protein Family (UniProt)

Belongs to the Tdpoz family. (Q9VFP2)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Pathway (FlyBase)

Negative Regulators of Hedgehog Signaling Pathway -: Negative regulators of hedgehog signaling down-regulate the pathway, resulting in the repression of transcription of hh-responsive genes.

Protein Function (UniProtKB)

Involved in segment polarity. In complex with gft/CUL3, promotes ubiquitination of ci and its subsequent degradation by the proteasome, which results in hh signaling attenuation. This regulation may be important during eye formation for proper packing of ommatidia into a hexagonal array.

(UniProt, Q9VFP2)

Phenotypic Description (Red Book; Lindsley and Zimm 1992)

l(3)88Aa

Homozygous larvae die in third instar; discs reported as missing, probably rudimentary (see Szabad and Bryant, l982, Dev. Biol. 93: 240-56). Mitotic chromosomes fuzzy and swollen; 27% of cells polyploid; chromosome breaks observed (Gatti and Baker, 1989, Genes Dev. 3: 438-53).

Summary (Interactive Fly)

a member of a conserved family of proteins that serve as substrate adaptors for Cullin3-mediated ubiquitylation - regulates Cubitus interruptus levels by targeting it for degradation

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\rdx 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

5' UTR contains an ORF described as a putative conserved uORF (FBrf0204849); potential peptide 25aa in length.

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

Gene model reviewed during 5.47

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

A non-AUG start codon may be used for translation of one or more transcripts of this gene; based on the presence of conserved protein signatures within the 5' UTR without an in-frame AUG (FBrf0243886).

Sequence Ontology: Class of Gene

gene

gene_with_edited_transcript

(Rodriguez et al., 2012)

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

rdx-RA

FBtr0301632

NM_169565

2962

406

rdx-RB

FBtr0301633

NM_169566

2311

374

rdx-RC

FBtr0301634

NM_142068

2802

403

rdx-RE

FBtr0100361

NM_142069

4159

829

rdx-RF

FBtr0334298

NM_169564

3856

406

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

rdx-PA

FBpp0290846

45.8

406

5.93

NP_731876

AAF55007

rdx-PB

FBpp0290847

42.3

374

5.97

NP_731877

AAN14348

rdx-PC

FBpp0290848

45.3

403

6.32

NP_650325

AAN14346

rdx-PE

FBpp0099767

89.7

829

7.66

NP_650326

AAF55008

rdx-PF

FBpp0306413

45.8

406

5.93

NP_731875

AAN14347

Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

406 aa isoforms: rdx-PA, rdx-PF

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Interacts with ci and gft/CUL3.

(UniProt, Q9VFP2)

Domain

The MATH domain interacts with ci.

The BTB (POZ) domain interacts with gft/CUL3.

(UniProt, Q9VFP2)

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q9VFP2

Mapped Features

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

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

anlage in statu nascendi

(Fisher et al., 2012)

central brain anlage in statu nascendi

(Fisher et al., 2012)

ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

primordial germ cell

(Fisher et al., 2012)

antennal anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)

dorsal head epidermis anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)

visual anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)

embryonic stage 7 -- 8

foregut anlage

(Fisher et al., 2012)

organism | segmentally repeated

(Fisher et al., 2012)

ventral ectoderm

(Fisher et al., 2012)

antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

hindgut anlage

(Fisher et al., 2012)

ventral nerve cord primordium

Comment: reported as ventral nerve cord anlage

(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)

foregut primordium

(Fisher et al., 2012)

organism | segmentally repeated

(Fisher et al., 2012)

ventral ectoderm

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

inclusive hindgut primordium

(Fisher et al., 2012)

embryonic stage 11

ectoderm | segmentally repeated | striped

Comment: two stripes per segment

(Von Ohlen and Hooper, 1999)

visual primordium | restricted

(Biehs et al., 2010)

tracheal pit

(Biehs et al., 2010)

embryonic stage 11 -- 12

central brain primordium

(Fisher et al., 2012)

foregut primordium

(Fisher et al., 2012)

procephalic neuroblast

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

hindgut proper primordium

(Fisher et al., 2012)

ventral epidermis primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic dorsal epidermis

(Fisher et al., 2012)

embryonic esophagus

(Fisher et al., 2012)

embryonic hindgut

(Fisher et al., 2012)

embryonic ventral epidermis

(Fisher et al., 2012)

larval ventral nerve cord

(Fisher et al., 2012)

third instar larval stage

eye disc posterior to the morphogenetic furrow

(Zhang et al., 2006)

anterior-posterior compartment boundary of the wing disc

(Zhang et al., 2006)

anterior-posterior compartment boundary of the antennal disc

(Zhang et al., 2006)

anterior-posterior compartment boundary of the ventral thoracic disc

(Zhang et al., 2006)

wandering third instar larval stage

wing pouch | restricted

(Molnar et al., 2012)

wing hinge primordium | restricted

(Molnar et al., 2012)

Additional Descriptive Data

rdx is present in both the posterior optic lobe and adjacent anterior optic lobe cells in mid stage 11 embryos. rdx is also expressed in tracheal pits.

(Biehs et al., 2010)

rdx is expressed posterior to the morphogenetic furrow in the eye disc. Expression is elevated near the anterior-posterior compartment boundary of antenna, leg and wing discs.

(Zhang et al., 2006)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of Cul3-RING ubiquitin ligase complex

inferred from direct assay

(Zhang et al., 2013)

located_in nucleus

inferred from direct assay

(Seong et al., 2010)

inferred from direct assay

(assigned by UniProt )

(Zhang et al., 2006)

Expression Deduced from Reporters

Reporter: P{PZ}rdx⁰³⁴⁷⁷

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

anterior-posterior compartment boundary of the wing disc | anterior to

(Seong et al., 2010)

eye disc posterior to the morphogenetic furrow

(Zhang et al., 2006)

anterior-posterior compartment boundary of the wing disc

(Zhang et al., 2006)

anterior-posterior compartment boundary of the antennal disc

(Zhang et al., 2006)

anterior-posterior compartment boundary of the ventral thoracic disc

(Zhang et al., 2006)

wandering third instar larval stage

imaginal disc

(Meister and Braun, 1995.10)

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\rdx 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\rdx

View exonic expression by tissue for Dmel\rdx

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

FBgn0264493

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

41704/tissue=All

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

FBgn0264493

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0086364

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

FBgn0264493

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

CG9924

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 84 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 23 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of rdx

Transgenic constructs containing regulatory region of rdx

Aberrations (Deficiencies and Duplications) ( 18 )

Inferred from experimentation ( 18 )

Gene not disrupted in

Df(3R)l26c

(Jarman and Collett, 1998)

Df(3R)M36

(Jarman and Collett, 1998, Mortin et al., 1992)

Df(3R)red-P1

(Jarman and Collett, 1998, Mortin et al., 1992)

Df(3R)red-P6

(Mortin et al., 1992)

Df(3R)red-P93

(Mortin et al., 1992)

Df(3R)su(Hw)7

(Jarman and Collett, 1998)

Df(3R)su(Hw)V

(Mortin et al., 1992)

Df(3R)urd

(Jarman and Collett, 1998)

Inferred from location ( 0 )

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Lethality

Allele

lethal

lethal, with Scer\GAL4^btl.PS

rdx^GD13540

lethal (with Df(3R)293γ7)

rdx¹¹

lethal (with rdx¹)

lethal (with rdx²)

lethal (with rdx³)

lethal (with rdx⁴)

lethal (with rdx⁵)

lethal (with rdx⁶)

lethal | pupal stage, with Scer\GAL4^pnr-MD237

rdx^GD7750

lethal | recessive

lethal - all die before end of first instar larval stage

lethal - all die before end of larval stage | recessive

rdx^88Aa-1

lethal - all die during embryonic stage

rdx⁶

partially lethal - majority die, with Scer\GAL4^pnr-MD237

rdx^GD13540

partially lethal - majority die | pupal stage, with Scer\GAL4^pnr-MD237

rdx^GD7750

viable

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

rdx^GD13540

viable, with Scer\GAL4^tin.CΔ4

rdx^GD13540

viable | germline clone

Sterility

Allele

fertile

Other Phenotypes

Allele

abnormal body color, with Scer\GAL4^pnr-MD237

rdx^GD13540

abnormal meiotic cell cycle

rdx^P19

abnormal mitotic cell cycle

rdx^88Aa-1

abnormal mitotic cell cycle | germline clone

rdx⁶

abnormal size | larval stage

rdx^88Aa-1

decreased occurrence of cell division | larval stage

rdx^88Aa-1

flightless, with Scer\GAL4^Mef2.PR

rdx^GD13540

some die during embryonic stage

rdx⁶

some die during first instar larval stage

some die during larval stage | recessive

rdx^88Aa-1

some die during pupal stage, with Scer\GAL4^pnr-MD237

rdx^GD13540

visible, with Scer\GAL4^pnr-MD237

visible | somatic clone

rdx^Δ6

Phenotype manifest in

Allele

cell cycle

rdx^88Aa-1

chaeta | increased number, with Scer\GAL4^pnr-MD237

embryo | germline clone

rdx⁶

eye

rdx^Δ6

imaginal disc

rdx^88Aa-1

imaginal disc | larval stage

rdx^88Aa-1

interommatidial bristle

mesothoracic tergum, with Scer\GAL4^pnr-MD237

myofibril, with Scer\GAL4^Mef2.PR

rdx^GD13540

ommatidial precursor cluster

retina

rdx⁵

tormogen cell, with Scer\GAL4^pnr-MD237

rdx^GD7750

trichogen cell, with Scer\GAL4^pnr-MD237

rdx^GD13540

wing, with Scer\GAL4^Bx-MS1096

rdx^{A.UAS.Tag:MYC}

wing | somatic clone

rdx⁵

wing vein | ectopic, with Scer\GAL4^Bx-MS1096

rdx^{A.UAS.Tag:MYC}

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (3)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\SPOP

10 of 15

Yes

Hsap\SPOPL

9 of 15

Yes

Hsap\BTBD8

1 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (15)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Spop

10 of 15

Yes

Mmus\Spopl

7 of 15

Yes

Mmus\Gm10696

4 of 15

Yes

Mmus\Tdpoz2

4 of 15

Yes

Mmus\Tdpoz3

4 of 15

Yes

Mmus\Tdpoz4

4 of 15

Yes

Mmus\Tdpoz5

4 of 15

Yes

Mmus\Gm9125

3 of 15

Yes

Mmus\Tdpoz1

3 of 15

Yes

Mmus\Gm4858

2 of 15

Yes

Mmus\Gm10697

2 of 15

Yes

Mmus\Btbd8

1 of 15

Mmus\Gm4778

1 of 15

Yes

Mmus\Gm5286

1 of 15

Yes

Mmus\Gm9107

1 of 15

Yes

Rattus norvegicus (Norway rat) (9)

Rnor\Spopl

7 of 13

Yes

Rnor\Spop

7 of 13

Yes

Rnor\RGD1563667

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Rnor\RGD1566337

1 of 13

Xenopus tropicalis (Western clawed frog) (2)

Xtro\spop

9 of 12

Yes

Xtro\spopl

5 of 12

Yes

Danio rerio (Zebrafish) (3)

Drer\spop

9 of 15

Yes

Drer\spoplb

8 of 15

Yes

Drer\spopla

7 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (28)

Cele\bath-43

10 of 15

Yes

Cele\mel-26

3 of 15

Yes

Cele\bath-40

2 of 15

Yes

Cele\bath-41

2 of 15

Yes

Cele\bath-42

2 of 15

Yes

Cele\bath-30

1 of 15

Yes

Cele\bath-44

1 of 15

Cele\btb-5

1 of 15

Yes

Cele\btb-6

1 of 15

Yes

Cele\btb-7

1 of 15

Yes

Cele\btb-9

1 of 15

Yes

Cele\btb-11

1 of 15

Yes

Cele\btb-12

1 of 15

Yes

Cele\btb-13

1 of 15

Yes

Cele\btb-14

1 of 15

Yes

Cele\btb-15

1 of 15

Yes

Cele\btb-16

1 of 15

Yes

Cele\btb-17

1 of 15

Yes

Cele\btb-18

1 of 15

Yes

Cele\btb-19

1 of 15

Yes

Cele\btb-20

1 of 15

Yes

Cele\btb-21

1 of 15

Yes

Cele\math-10

1 of 15

Yes

Cele\math-21

1 of 15

Yes

Cele\math-25

1 of 15

Yes

Cele\math-50

1 of 15

Yes

Cele\R10E4.1

1 of 15

Yes

Cele\Y59E9AL.8

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (9)

Atha\BPM1

3 of 9

Yes

Atha\BPM2

3 of 9

Yes

Atha\BPM3

3 of 9

Yes

Atha\BPM4

3 of 9

Yes

Atha\BPM5

2 of 9

Yes

Atha\BPM6

2 of 9

Yes

Atha\AT1G21780

1 of 9

Yes

Atha\AT1G55760

1 of 9

Yes

Atha\AT4G08455

1 of 9

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG0919066A )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA22127

Drosophila persimilis

Dper\GL23319

Drosophila willistoni

Dwil\GK22480

Drosophila virilis

Dvir\GJ14385

Drosophila mojavensis

Dmoj\GI10787

Drosophila grimshawi

Dgri\GH18432

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG0915054W )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17018546

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_00754

Mayetiola destructor

Hessian fly

Mdes\Mdes000490

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL005512

Anopheles darlingi

American malaria mosquito

Adar\ADAC003211

Anopheles gambiae

Malaria mosquito

Agam\AGAP003428

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ005760

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W06G6 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA012495

Danaus plexippus

Monarch butterfly

Dple\DPOGS201231-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL005347

Apis florea

Little honeybee

Aflo\2579621652

Apis mellifera

Western honey bee

Amel\GB46209

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP19503

Bombus terrestris

Buff-tailed bumblebee

Bter\15210993

Linepithema humile

Argentine ant

Lhum\LH12058

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:002cad

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG011878

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG014544

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG009581

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_09585

Tribolium castaneum

Red flour beetle

Tcas\TC032118

Pediculus humanus

Human body louse

Phum\PHUM522980

Rhodnius prolixus

Kissing bug

Rpro\RPRC006552

Cimex lectularius

Bed bug

Clec\CLEC003606

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI003679

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_17095

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X06BW )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR012787

Ixodes scapularis

Black-legged tick

Isca\ISCW018847

Stegodyphus mimosarum

African social velvet spider

Smim\KFM61939.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM58413.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur02g00490

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_53888

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G07ZM )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Spop

Ciona intestinalis

Vase tunicate

Cint\LOC100187520

Gallus gallus

Domestic chicken

Ggal\SPOP

Gallus gallus

Domestic chicken

Ggal\SPOPL

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (2)

Gene Symbol

Score

Source

Alignment

2 of 10

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 ( 0 )

Allele

Disease

Interaction

References

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?

SPOP; speckle type BTB/POZ protein

10 of 15

602650

SPOPL; speckle type BTB/POZ protein like

9 of 15

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

rdx

anti tag coimmunoprecipitation, anti tag western blot

(Zhou et al., 2015, Zhang et al., 2009)

rdx - CG14074

two hybrid

(Hu et al., 2017.6.13)

rdx - CG8833

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

rdx - COX5B

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

rdx - Cand1

pull down, western blot

(Kim et al., 2010)

rdx - Cul3

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

(Zhou et al., 2015, Zhang et al., 2013, Kim et al., 2010, Arama et al., 2007, Zhang et al., 2006)

rdx - Pc

pull down, peptide massfingerprinting

(Strübbe et al., 2011)

rdx - RanBP3

two hybrid

(Hu et al., 2017.6.13)

rdx - Ubi-p5E

anti tag coimmunoprecipitation, anti tag western blot

(Zhou et al., 2015)

rdx - Ubi-p63E

anti tag coimmunoprecipitation, anti tag western blot

(Zhou et al., 2015)

rdx - cal1

anti tag coimmunoprecipitation, western blot, two hybrid

(Bade et al., 2014)

rdx - ci

pull down, anti tag western blot, two hybrid, enzymatic study, peptide massfingerprinting, western blot, anti tag coimmunoprecipitation

(Han et al., 2019, Zhou et al., 2015, Liu et al., 2014, Shi et al., 2014, Zhang et al., 2013, Seong et al., 2010, Zhang et al., 2009, Kent et al., 2006, Zhang et al., 2006)

rdx - lwr

two hybrid

(Hu et al., 2017.6.13)

rdx - puc

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

(Liu et al., 2009, Zhang et al., 2009, Zhuang 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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

enhanceable

rdx

(Zhang et al., 2006)

suppressible

rdx

(Strübbe et al., 2011)

External Data

Subunit Structure (UniProtKB)

Interacts with ci and gft/CUL3.

(UniProt, Q9VFP2 )

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0264493

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

Pathways

Signaling Pathways (FlyBase)

Negative Regulators of Hedgehog Signaling Pathway -: Negative regulators of hedgehog signaling down-regulate the pathway, resulting in the repression of transcription of hh-responsive genes.

Metabolic Pathways

External Data

Linkouts

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

Hedgehog signaling pathway - fly

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-54

Cytogenetic map

88A1-88A4

Sequence location

3R:13,967,061..14,032,057 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

88A1-88A4

Left limit from in situ hybridisation (FBrf0099762) Right limit from in situ hybridisation (FBrf0099762); Limits computationally determined from genome sequence between P{PZ}flfl⁰¹⁹⁴⁹ and P{lacW}trx^j14A6&P{PZ}trx⁰⁰³⁴⁷

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

88A-88B

(determined by in situ hybridisation)

(Lukacsovich et al., 2001)

88A4-88A5

(determined by in situ hybridisation)

(Spradling et al., 1999)

88A1-88A2

(determined by in situ hybridisation)

(Szeged Stock Center, 1998-, Deak et al., 1997)

88A-88A

(Sekelsky et al., 1999)

66B10-66B11

82A3--5

(BDGP Project Members, 1994-1999)

Experimentally Determined Recombination Data

Location

3-54

(FlyBase, 2016)

3-52.0

(Comeron et al., 2012)

3-50.3

(Gatti and Baker, 1989)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (39)

Bloomington

43403

w^*; P{GSV1}rdx^EP-149

33220

w^*; P{ID.VP16AD}rdx^D39L.2

4813

rdx^M2 red¹/TM6B, Tb¹

9010

mwh¹ rdx^88Aa-1 e¹/TM1

Kyoto

113331

w^*; P{GawB}rdx^NP3538

123009

w¹¹¹⁸; P{RS3}rdx^CB-0018-3

124297

w¹¹¹⁸; P{RS3}rdx^UM-8036-3

124400

w¹¹¹⁸; P{RS3}rdx^UM-8183-3

126073

w¹¹¹⁸; P{RS5}rdx^5-SZ-3461

112188

w^*; P{GawB}rdx^NP0440 / CyO

VDRC

v106945

P{KK111898}VIE-260B

v107294

P{KK107670}VIE-260B

More stocks available...

Genomic Clones (42)

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

cDNA Clones (141)

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

DPiM_RE34508

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.

FBgn0264493

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

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

41704

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: rdx CG9924

(Kent et al., 2006)

Source for database merge of

Source for merge of: rdx mei-P19

(Seong et al., 2010)

Source for merge of: l(3)dsl6 l(3)SG40

(Shearn, 1995.5.3)

Source for merge of: l(3)88Aa l(3)03477

(Jarman and Collett, 1998)

Source for merge of: CG12537 anon-WO0118547.577

(FlyBase Genome Annotators, 2005, FlyBase, 1996-)

Source for merge of: rdx CG9924

(Wang, 2007.3.16)

Source for merge of: CG9924 BEST:GM07940

(Rana, 2004.7.8)

Source for merge of: rdx l(3)S086909

(Link et al., 2007)

Additional comments

Source for merge of CG12537 anon-WO0118547.577 was sequence comparison ( date:051113 ).

(FlyBase Genome Annotators, 2005, FlyBase, 1996-)

Other Comments

Host gene for maternally inherited stable intronic sequence RNA (sisRNA).

(Tay and Pek, 2017)

rdx is expressed in response to hh.

(Kent et al., 2006)

Area matching Drosophila EST AA696584 (inverted).

(Davies, 2001.3.15)

Identification: In a genetic screen for meiotic mutants.

(Sekelsky et al., 1999)

Origin and Etymology

Discoverer

Etymology

One allele generates embryos with mitotic defects that often fail to completely cellularize, hence, the name "roadkill".

(Kent et al., 2004)

Identification

External Crossreferences and Linkouts ( 78 )

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.

41704

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/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

Q9VFP2

Other crossreferences

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0264493

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

FBgn0264493

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

41704/tissue=All

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

FBgn0264493

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0086364

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

FBgn0264493

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

CG9924

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

41704

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

TC032118

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

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

Dmel_CG12537

MARRVEL_MODEL - MARRVEL (model organism gene)

41704

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

Q9VFP2

Linkouts

ApoDroso - Functional genomic database for photoreceptor development, survival and function

12135-CG9924[j1E7]

DroID - A comprehensive database of gene and protein interactions.

FBgn0264493

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

Interactive Fly

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

Hedgehog signaling pathway - fly

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 (34)

Reported As

Symbol Synonym

0869/09

(Deak et al., 1997)

BEST:GM07940

CG10235

(Kent et al., 2006)

CG12537

(Hosono et al., 2015, Keleman et al., 2009.8.5, Perkins et al., 2009, González et al., 2008, Lim et al., 2004, Giot et al., 2003)

CG9924

(Jayanandanan et al., 2011, Seong et al., 2010, Liu et al., 2009, Hayden and Bosco, 2008, Arama et al., 2007, Buszczak et al., 2007, Li et al., 2007, Link et al., 2007, Quinones-Coello, 2007, Wang, 2007.3.16, Kent et al., 2006, Molnar et al., 2006, Zhang et al., 2006, Grad et al., 2004)

D-SPOP

(Liu et al., 2009)

Dromel_CG9924_FBtr0082871_rdx_mORF

(Hayden and Bosco, 2008)

HIB

(Han et al., 2019, Han et al., 2015, Xiong et al., 2015, Shi et al., 2014, Chen and Jiang, 2013, Jia et al., 2010, Kim et al., 2010, Zhuang et al., 2009)

Hib

(Zhou et al., 2015)

Rdx

(Pan et al., 2017, Chen and Jiang, 2013, Zhang et al., 2013, Zhang et al., 2013, Strübbe et al., 2011, Hayden and Bosco, 2008)

SPOP

(Zhang et al., 2009, Zhuang et al., 2009)

Spop

(Arama et al., 2007)

anon-WO0118547.577

hib

(Zhou et al., 2015, Liu et al., 2014, Chen and Jiang, 2013, Zhang et al., 2009, Huang et al., 2008, Chien-Hsiang et al., 2007, Ou et al., 2007, Wang, 2007.3.16, Jiang, 2006, Zhang et al., 2006)

l(3)03477

(Spradling et al., 1999)

l(3)2004

(Gatti and Baker, 1989)

l(3)88Aa

(Jarman and Collett, 1998, BDGP Project Members, 1994-1999, Lindsley and Zimm, 1992, Mortin et al., 1992, Szabad and Bryant, 1982, Shearn et al., 1971)

l(3)A6

l(3)S086909

l(3)SG40

l(3)dsl-6

(Cohen, 1993)

l(3)dsl6

l(3)j1D1

l(3)j4C7

mei-P19

Name Synonyms

CG9924

Cul3-Hedghog-induced MATH and BTB domain-containing protein

(Zhang et al., 2009)

Hh-induced MATH and BTB domain containing protein

(Zhang et al., 2006)

Roadkill

(Xu et al., 2016, Zhou et al., 2013, Zhuang et al., 2009, Hayden and Bosco, 2008)

hedegehog-induced BTB protein

(Wang, 2007.3.16)

hedgehog- induced BTB protein

(Kim et al., 2010)

lethal (3) S086909

meiotic P19

roadkill

(Chen et al., 2015, Nakayama et al., 2014, Lawlor et al., 2011, Biehs et al., 2010, Kim et al., 2010, Baker et al., 2009, Wang, 2007.3.16, Kent et al., 2006, Von Ohlen and Hooper, 1999)

Secondary FlyBase IDs

FBgn0011366
FBgn0011314
FBgn0010801
FBgn0004722
FBgn0002364
FBpp0082336
FBtr0082873
FBgn0061865
FBgn0044329
FBgn0038193
FBgn0038192
FBgn0026625
FBgn0086364
FBgn0262907
FBgn0028076

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (132)

Report Sections

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