• Home
• Tools
  • Tools Overview
  • Query Tools

    
    • QuickSearch
    • QueryBuilder
    • TermLink
    • CytoSearch
    • Interactions Browser
    • ImageBrowse
    • Find A Person
    • Google™ FlyBase
  • Genomic/Map Tools

    
    • BLAST
    • GBrowse
    • CytoSearch
    • Aberrations Maps
    • Chromosome Maps
    • Coordinates Converter
  • Retrieve/Convert

    
    • Batch Download
    • Coordinates Converter
    • ID Converter
  • Data Submission

    
    • Fast-Track Your Paper
    • Submit Personal Comm
    • Add A New Person
    • Update Person Info
  • People

    
    • Find A Person
    • Add A New Person
    • Update Person Info
• Files
  • Files Overview
  • Downloads:
  • Precomputed files
  • Archived data
  • Releases (FTP)
  • Genomes (FTP)
  • AAA data (FTP)
  • Lists:
  • Transposons (Dmel)
  • Transposons (other)
  • Vectors & Constructs
  • Anatomical Terms
  • Map Conversion
• Species
  • Phylogeny
  • Sequenced Species
  • Synteny Table
  • Color Illustrations
  • Abbreviations
• Documents
  • About FlyBase
  • Reference Manual:
  • Sections
  • Contents
  • Nomenclature
  • Release Notes
• Resources
  • All Resources
  • Model Organisms
  • Stock Collections
  • Other links:
  • BDGP
  • DGRC
  • FlyExpress
  • Interactive Fly
  • modENCODE
  • Textpresso for Fly
• News
  • News
  • FlyBase Forum
  • FlyBase Positions
  • Meetings
  • Courses
  • Fly Board
  • White papers
  • Funding
  • bionet.dros
• Help
  • Google™ FlyBase
  • Site Map
  • FAQs
  • FlyBase Guides
  • Video Tutorials
  • Report help
  • New to Flies
  • Pers. comm.
  • Author guidelines
  • Contact FlyBase
• Archives
  • Prior Release
  • Other Archives
  • Coordinate Converter

Gene Dmel\Rabex-5

General Information
Symbol	Dmel\Rabex-5	Species	D. melanogaster
Name	Rabex-5	Annotation symbol	CG9139
Feature type	protein_coding_gene	FlyBase ID	FBgn0262937
Gene Model Status	Current	Stock availability	5 publicly available
Genomic Location
Chromosome (arm)	3L	Recombination map
Cytogenetic map	61F5-61F5	Sequence location	3L:1,295,742..1,298,497 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene Rabex-5 is referred to in FlyBase by the symbol Dmel\Rabex-5 (CG9139, FBgn0262937). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: guanyl-nucleotide exchange factor activity. There is experimental evidence that it is involved in the biological process: eye-antennal disc development; imaginal disc-derived wing vein specification; negative regulation of multicellular organism growth; positive regulation of protein ubiquitination. 12 alleles are reported. The phenotypes of these alleles are annotated with: wing vein L5; posterior crossvein; wing; wing vein; wing vein L2. It has one annotated transcript and one annotated polypeptide. Protein features are: Vacuolar sorting protein 9; Vacuolar sorting protein 9, subgroup; Zinc finger, A20-type. Gene sequence location is 3L:1295742..1298497.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2011_10
FB2012_01	Sequence features BKN25419 HFA08628
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 61F5-61F5   Limits computationally determined from genome sequence between P{PZ}l(3)0596705967 and P{PZ}l(3)0264002640
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Rabex-5 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Rabex-5-RA FBtr0072663  NM_138249   2544   696
Additional Transcript Data & 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 protein Rabex-5-PA   FBpp0072557   76.7   696   5.26     NP_612093   AAF47467
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Zinc finger, A20-type (IPR002653) Vacuolar sorting protein 9 (IPR003123) Vacuolar sorting protein 9, subgroup (IPR013995)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA979337   AE014296 AAF47467   AI532017   AI532191   AI534113   AI534697   AI534876   AI541690   AW944304   AY058763 AAL13992   BF487381   BH634802   BI169212   BI241368   BI241446   BI638453   CA806631   CA807706   CO155455   CO187608   CO297191   CO337162   CZ489531   EC213222   EC237801   EC261104   EC262410
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9W0H9
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
mass spectroscopy Stage Tissue/Position (including subcellular localization) Reference day 5 of adulthood & male -- day 7 of adulthood & male   spermatozoon   (Wasbrough et al., 2010)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. [an error occurred while processing this directive] modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_23
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | larval stage, with Scer\GAL4unspecified Rabex-5VDRC.cUa lethal | larval stage (with Df(3L)BSC250) Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 lethal | larval stage | recessive Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 lethal | P-stage, with Scer\GAL4unspecified Rabex-5VDRC.cUa lethal | P-stage (with Df(3L)BSC250) Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 lethal | P-stage | recessive Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 viable, with Scer\GAL4pnr-MD237 Rabex-5GD14133 Other Phenotypes Allele large body, with Scer\GAL4Act.PU Rabex-5VDRC.cUa melanotic mass phenotype | larval stage, with Scer\GAL4unspecified Rabex-5VDRC.cUa melanotic mass phenotype | larval stage (with Df(3L)BSC250) Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 melanotic mass phenotype | larval stage | recessive Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 melanotic mass phenotype | P-stage, with Scer\GAL4unspecified Rabex-5VDRC.cUa melanotic mass phenotype | P-stage (with Df(3L)BSC250) Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 melanotic mass phenotype | P-stage | recessive Rabex-5ex9 Rabex-5ex40 Rabex-5ex42 visible, with Rabex-5ex42, Scer\GAL4C-765 Rabex-5VDRC.cUa visible, with Rabex-5VDRC.cUa, Scer\GAL4C-765 Rabex-5ex42 visible, with Scer\GAL4Act.PU Rabex-5VDRC.cUa visible, with Scer\GAL4C-765 Rabex-5VDRC.cUa visible, with Scer\GAL4en-e16E Rabex-5DPYT.Scer\UAS.T:Hsap\MYC Rabex-5Scer\UAS.T:Hsap\MYC Phenotype manifest in Allele posterior crossvein, with Rabex-5ex42, Scer\GAL4C-765 Rabex-5VDRC.cUa posterior crossvein, with Rabex-5VDRC.cUa, Scer\GAL4C-765 Rabex-5ex42 posterior crossvein, with Scer\GAL4Act.PU Rabex-5VDRC.cUa posterior crossvein, with Scer\GAL4C-765 Rabex-5VDRC.cUa posterior crossvein, with Scer\GAL4en-e16E Rabex-5DPYT.Scer\UAS.T:Hsap\MYC Rabex-5Scer\UAS.T:Hsap\MYC wing, with Scer\GAL4Act.PU Rabex-5VDRC.cUa wing vein Rabex-5ex42 wing vein L2, with Rabex-5ex42, Scer\GAL4C-765 Rabex-5VDRC.cUa wing vein L2, with Rabex-5VDRC.cUa, Scer\GAL4C-765 Rabex-5ex42 wing vein L2, with Scer\GAL4Act.PU Rabex-5VDRC.cUa wing vein L2, with Scer\GAL4C-765 Rabex-5VDRC.cUa wing vein L5, with Scer\GAL4en-e16E Rabex-5DPYT.Scer\UAS.T:Hsap\MYC Rabex-5Scer\UAS.T:Hsap\MYC
Classical Alleles ( 5 )
For All Classical Alleles Show
Allele of Rabex-5 Class Mutagen Stocks Known lesion Rabex-5EP681a P-element activity 1 Yes Rabex-5f06801 piggyBac transposase 1 -- Rabex-5ex40 0 Yes Rabex-5ex42 0 Yes Rabex-5ex9 0 Yes
Alleles Carried on Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Rabex-5 Class Mutagen Stocks Known lesion Rabex-5GD14133 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rabex-5JF02521 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rabex-5KK104459 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Rabex-5DPYT.Scer\UAS.T:Hsap\MYC in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct - site directed mutagenesis 0 Yes Rabex-5FY.Scer\UAS.T:Hsap\MYC in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct - site directed mutagenesis 0 Yes Rabex-5Scer\UAS.T:Hsap\MYC in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes Rabex-5VDRC.cUa in vitro construct - regulatory fusion in vitro construct - RNAi 0 Yes
Aneuploid Aberrations
Disrupted in	Df(3L)BSC250 (Yan et al., 2010)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{UAS-Rabex-5.DPYT.MYC} NA P{UAS-Rabex-5.FY.MYC} NA P{UAS-Rabex-5.MYC} NA characterization construct P{VDRC.Rabex-5.U} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}Rabex-5EP681a NA miscellaneous insertions PBac{WH}Rabex-5f06801 NA
Gene Ontology: Function, Process & Cellular Component ( 7 unique terms )
Terms Based on Experimental Evidence ( 4 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
eye-antennal disc development inferred from mutant phenotype (Yan et al., 2010) imaginal disc-derived wing vein specification inferred from mutant phenotype (Yan et al., 2010) negative regulation of multicellular organism growth inferred from mutant phenotype (Yan et al., 2010) positive regulation of protein ubiquitination inferred from direct assay (Yan et al., 2010)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
DNA binding inferred from electronic annotation with InterPro:IPR002653 (FlyBase Curators et al., 2004-) guanyl-nucleotide exchange factor activity inferred from sequence or structural similarity with EMBL:AJ001119 (FlyBase, 1992-) zinc ion binding inferred from electronic annotation with InterPro:IPR002653 (FlyBase Curators et al., 2004-)
Biological Process ( 0 terms)
Cellular Component ( 0 terms)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Protein-protein
Interacting group Assay References
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Rabex-5 allele Gene References
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0262937
Orthologs
Genome-wide drosophilid orthologs	Dana\GF24448 Dere\GG14776 Dgri\GH15447 Dmoj\GI13048 Dper\GL16172 Dpse\GA21570 Dsec\GM14395 Dsim\GD13604 Dvir\GJ12144 Dwil\GK21172 Dyak\GE21139
Curated drosophilid orthologs	Dpse\GA21570
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 5 )
Bloomington	29357 y1 v1; P{TRiP.JF02521}attP2/TM3, Sb1 17189 w1118; P{EP}Rabex-5EP681a P{EP}slmbEP681b
Harvard	- PBac{WH}Rabex-5f06801
VDRC	v105534 P{KK104459}VIE-260B v46329 w1118; P{GD14133}v46329
Genomic Clones ( 1 )
	BACR17K17 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 22 )
	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	SD03358
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT22163 LD33845 RE10321 RE38421 RE38521 SD01141 SD03593 SD06704 SD07687 SD20745
Other clones	82924 125845 524872 562231 EK030803 EK216335 EN06059 EN13942 ESG014b.E21_C01 ESG019a.E21_G11 SD06628
RNAi & Array Information
Linkouts	GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 38144
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Rabex-5 CG9139 (Yan et al., 2010)
Source for database merge of
Additional comments
Other Comments
	Putative substrate for the kinase png. (Lee et al., 2005) dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology. (Kiger et al., 2003)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_138249 RefSeq (Proteins) • NP_612093 DDBJ / EMBL / GenBank • AAF47467 AAL13992 AI532017 AW944304 AY058763 BH634802 CZ489531 Entrez Gene - A searchable database of RefSeq genes. • 38144 UniProtKB/TrEMBL • Q9W0H9
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Zinc finger, A20-type (IPR002653) Vacuolar sorting protein 9 (IPR003123) Vacuolar sorting protein 9, subgroup (IPR013995)
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0262937 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 38144
Synonyms & Secondary IDs ( 3 )
Reported As
Symbol Synonym	CG9139 (Lee et al., 2005, Keleman et al., 2009.8.5, Perkins et al., 2009, Cheli et al., 2010, Kim et al., 2005, Yan et al., 2010, Wasbrough et al., 2010) Rabex-5 (Yan et al., 2010) RabGEF1 (Yan et al., 2010)
Name Synonym	Rabex-5 (Yan et al., 2010)
Secondary FlyBase IDs
	FBgn0035202 FBgn0262584
References ( 20 )
Research paper	Cheli et al., 2010, Hum. Mol. Genet. 19(5): 861--878 Genetic modifiers of abnormal organelle biogenesis in a Drosophila model of BLOC-1 deficiency. [FBrf0209903] Purvanov et al., 2010, Sci. Signal. 3(136): ra65 A direct and functional interaction between go and rab5 during g protein-coupled receptor signaling. [FBrf0211592] Yan et al., 2010, Curr. Biol. 20(15): 1378--1382 Rabex-5 Ubiquitin Ligase Activity Restricts Ras Signaling to Establish Pathway Homeostasis in Drosophila. [FBrf0211477] Kim et al., 2005, Nature Immunology 6(2): 211--218 Downregulation of lipopolysaccharide response in Drosophila by negative crosstalk between the AP1 and NF-kappaB signaling modules. [FBrf0184193] Lee et al., 2005, Dev. Cell 8(3): 435--442 Drosophila genome-scale screen for PAN GU kinase substrates identifies Mat89Bb as a cell cycle regulator. [FBrf0183883]
Supplementary material	The modENCODE Consortium, 2010, Science 330(6012): DataS14: Gene co-expression clusters. [FBrf0213979] Wasbrough et al., 2010, J. Proteomics 73(11): Supplemental Table 1. Mass spectrometry data. [FBrf0213252] Mummery-Widmer et al., 2009, Nature 458(7241): Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518] Giot et al., 2003, Science 302(5651): Tables S1 to S7. [FBrf0166452] Kiger et al., 2003, J. Biol. 2(4): Additional data file 1: The gene identity and primer sequences for dsRNAs used in the RNAi screens. [FBrf0174231]
Personal communication to FlyBase	Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510] Perkins et al., 2009, Update to TRiP stock collection. Update to TRiP stock collection. [FBrf0208864] Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327] FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215]
FlyBase analysis	FlyBase, 1996-, FlyBase inference based on genome sequence analysis. FlyBase inference based on genome sequence analysis. [FBrf0104946] FlyBase, 1992-, FlyBase curation FlyBase curation. [FBrf0105495]
Computer file	Gene Disruption Project members and Exelixis, 2005, Genomic mapping of Exelixis insertion collection. Genomic mapping of Exelixis insertion collection. [FBrf0184340] Gene Disruption Project members, 2001-, [title not yet available] [title not yet available] [FBrf0132177] BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. Berkeley Drosophila Genome Project. [FBrf0125078]
Curated genome annotation	Gelbart, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126667]