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General Information
Symbol
Dmel\RhoGEF3
Species
D. melanogaster
Name
Rho guanine nucleotide exchange factor 3
Annotation Symbol
CG43976
Feature Type
FlyBase ID
FBgn0264707
Gene Model Status
Stock Availability
Gene Summary
Contribute a Gene Snapshot for this gene.
Also Known As

RhoGEF

Key Links
Genomic Location
Cytogenetic map
Sequence location
3L:277,437..305,292 [+]
Recombination map
3-1
RefSeq locus
NT_037436 REGION:277437..305292
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (5 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from sequence or structural similarity with FLYBASE:GEFmeso; FB:FBgn0050115
Biological Process (4 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
involved_in wound healing
inferred from mutant phenotype
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (0 terms)
There is no information supporting a Cellular Component term for this gene. (Based on a review of available data on: 2013-08-30 )
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Protein Family (UniProt)
-
Summaries
Gene Group (FlyBase)
RHO GUANINE NUCLEOTIDE EXCHANGE FACTORS -
RhoGEFs are Guanine Nucleotide Exchange Factors (GEFs) for Rho family GTPases. They include Dbl-homology domain-containing proteins (the largest family of RhoGEFs) and CZH2 domain/Dock family GEFs. (Adapted from FBrf0190957).
Gene Model and Products
Number of Transcripts
12
Number of Unique Polypeptides
10

Please see the JBrowse view of Dmel\RhoGEF3 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

Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

Gene model reviewed during 5.46

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

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

Gene model reviewed during 6.32

Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0333952
4541
1011
FBtr0333955
3086
932
FBtr0333954
3153
925
FBtr0333953
3168
930
FBtr0333956
3564
1011
FBtr0333957
3258
920
FBtr0333958
3501
1026
FBtr0333959
3082
820
FBtr0333960
3157
820
FBtr0333961
11114
3519
FBtr0333962
12307
3518
FBtr0479920
3428
971
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
FBpp0306075
112.1
1011
8.65
FBpp0306078
103.2
932
7.23
FBpp0306077
102.5
925
7.70
FBpp0306076
103.0
930
7.23
FBpp0306079
112.1
1011
8.65
FBpp0306080
102.0
920
7.23
FBpp0306081
112.7
1026
6.09
FBpp0306082
91.6
820
6.83
FBpp0306083
91.6
820
6.83
FBpp0306084
384.0
3519
9.46
FBpp0306085
383.9
3518
9.46
FBpp0428252
107.7
971
7.85
Polypeptides with Identical Sequences

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

1011 aa isoforms: RhoGEF3-PA, RhoGEF3-PF
820 aa isoforms: RhoGEF3-PJ, RhoGEF3-PK
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\RhoGEF3 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
organism

Comment: maternally deposited

organism | segmentally repeated

Comment: stripes partially overlap en stripes

antennal primordium

Comment: reported as procephalic ectoderm primordium

central brain primordium

Comment: reported as procephalic ectoderm primordium

visual primordium

Comment: reported as procephalic ectoderm primordium

dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

Additional Descriptive Data

Expression in stage P3 pupal leg discs is ubiquitous.

Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\RhoGEF3 in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
EMBL-EBI Single Cell Expression Atlas
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 18 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 16 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of RhoGEF3
Transgenic constructs containing regulatory region of RhoGEF3
Aberrations (Deficiencies and Duplications) ( 1 )
Inferred from experimentation ( 1 )
Gene disrupted in
Inferred from location ( 0 )
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (16)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
5 of 15
Yes
Yes
5 of 15
Yes
Yes
4 of 15
No
Yes
3 of 15
No
Yes
2 of 15
No
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1  
1 of 15
No
No
1 of 15
No
No
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (17)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
5 of 15
Yes
Yes
5 of 15
Yes
Yes
5 of 15
Yes
Yes
3 of 15
No
Yes
2 of 15
No
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
Rattus norvegicus (Norway rat) (13)
4 of 13
Yes
Yes
4 of 13
Yes
Yes
3 of 13
No
Yes
1 of 13
No
No
1 of 13
No
Yes
1 of 13
No
Yes
1 of 13
No
Yes
1 of 13
No
Yes
1 of 13
No
Yes
1 of 13
No
Yes
1 of 13
No
Yes
1 of 13
No
No
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (9)
3 of 12
Yes
Yes
3 of 12
Yes
Yes
1 of 12
No
Yes
1 of 12
No
Yes
1 of 12
No
Yes
1 of 12
No
Yes
1 of 12
No
Yes
1 of 12
No
Yes
1 of 12
No
No
Danio rerio (Zebrafish) (14)
5 of 15
Yes
Yes
5 of 15
Yes
Yes
4 of 15
No
Yes
4 of 15
No
Yes
2 of 15
No
Yes
1 of 15
No
No
1 of 15
No
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (5)
2 of 15
Yes
No
2 of 15
Yes
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (2)
3 of 15
Yes
Yes
1 of 15
No
No
Schizosaccharomyces pombe (Fission yeast) (2)
1 of 12
Yes
No
1 of 12
Yes
No
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG0919002X )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Drosophila simulans
Drosophila sechellia
Drosophila sechellia
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila persimilis
Drosophila persimilis
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Drosophila grimshawi
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( None identified )
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
No non-Arthropod Metazoa orthologies identified
Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (4)
2 of 10
1 of 10
1 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 ( 1 )
    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.
    Functional Complementation Data
    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
    Interactions
    Summary of Physical Interactions
    esyN Network Diagram
    Show neighbor-neighbor interactions:
    Select Layout:
    Legend:
    Protein
    RNA
    Selected Interactor(s)
    Interactions Browser

    Please see the Physical Interaction reports below for full details
    protein-protein
    Physical Interaction
    Assay
    References
    Summary of Genetic Interactions
    esyN Network Diagram
    esyN Network Key:
    Suppression
    Enhancement

    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
    External Data
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3L
    Recombination map
    3-1
    Cytogenetic map
    Sequence location
    3L:277,437..305,292 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    61B3-61B3
    Limits computationally determined from genome sequence between P{PZ}trh10512 and P{EP}EP3104EP3104
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    61B1-61B3
    Experimentally Determined Recombination Data
    Location
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (21)
    Genomic Clones (29)
    cDNA Clones (115)
     

    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
    Other clones
    Drosophila Genomics Resource Center cDNA clones

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

    cDNA Clones, End Sequenced (ESTs)
    RNAi and Array Information
    Linkouts
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    Antibody Information
    Laboratory Generated Antibodies
     
    Commercially Available Antibodies
     
    Other Information
    Relationship to Other Genes
    Source for database identify of

    Source for identity of: RhoGEF3 CG1225

    Source for database merge of

    Source for merge of: RhoGEF3 CG42377

    Additional comments

    Annotations CG42378 and CG42377 merged as CG43976 in release 5.46 of the genome annotation. Merge supported by RNA-seq junction data.

    Source for split of: CG13882

    Annotation CG13882 split in release 5.10 of the genome annotation. The 5' portion of CG13882 has been merged with the CG13882 annotation to create the annotation CG42377. The 3' portion of CG13882 has been merged with the CG13883 and CG1225 annotations to create annotation CG42378 (which corresponds to RhoGEF3.

    Source for identity of RhoGEF3 CG1225 was sequence comparison ( date:001007 ).

    Other Comments

    dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology.

    Origin and Etymology
    Discoverer
    Etymology
    Identification
    External Crossreferences and Linkouts ( 89 )
    Sequence Crossreferences
    NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
    GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
    GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
    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
    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
    EMBL-EBI Single Cell Expression Atlas
    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
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    KEGG Genes - Molecular building blocks of life in the genomic space.
    MARRVEL_MODEL
    SignaLink - A signaling pathway resource with multi-layered regulatory networks.
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    Synonyms and Secondary IDs (12)
    Reported As
    Name Synonyms
    CG13881
    CG13883
    Rho guanine nucleotide exchange factor 3
    RhoGEF3
    Secondary FlyBase IDs
    • FBgn0259743
    • FBgn0035128
    • FBgn0259724
    • FBgn0035127
    • FBgn0035126
    • FBgn0259744
    • FBan0013882
    • FBgn0259723
    • FBgn0035125
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (81)