Gene Dmel\rtGEF

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General Information

Symbol

Dmel\rtGEF

Species

D. melanogaster

Name

rho-type guanine exchange factor

Annotation symbol

CG10043

Feature type

protein_coding_gene

FlyBase ID

FBgn0015803

Created / Updated

2003-12-01/2003-12-01

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

38C5-38C5

Sequence location

2L:20,350,436..20,365,261 [+]

Map ( GBrowse )

Summary Information

Automatically generated summary

See sections below for more information

The gene rho-type guanine exchange factor is referred to in FlyBase by the symbol rtGEF (CG10043, FBgn0015803). It has the cytological map location 38C5. Its sequence location is 2L:20350436..20365261. Its molecular function is described as: guanyl-nucleotide exchange factor activity; Rho guanyl-nucleotide exchange factor activity. It is involved in the biological processes: regulation of synapse organization and biogenesis; regulation of Rho protein signal transduction. 7 alleles are reported. The phenotypes of these alleles are annotated with: postsynaptic membrane; t-bar; NMJ bouton; synaptic vesicle. It has 4 annotated transcripts and 4 annotated polypeptides.

External Summaries

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

38C5-38C5

Limits computationally determined from genome sequence between P{lacW}k09005 and P{EP}CG16798^EP401&P{lacW}k07219

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

38C-38C

(Pinter, 1998.3.9)

38C-38C

(Werner, 1996.4.28)

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Molecular Map Data

Gene Order (in direction of increasing cytology)

References

In direction of increasing cytology: spir+ La- spir+ La- rtGEF+

(Bai and Tolias, 2000)

In direction of increasing cytology: anon-38C.39- rtGEF+ CG10947-

(Butler et al., 2001)

Gene Order (overall orientation not stated)

References

Overall orientation not stated: spir+ La- rtGEF+ Ugt37a1- CG16798-

(Parnas et al., 2001)

Gene Model & Products

Please see the GBrowse view of Dmel\rtGEF for information on other features

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

rtGEF-RA

FBtr0081356

NM_057826

3341

687

rtGEF-RB

FBtr0081357

NM_165327

2980

687

rtGEF-RC

FBtr0112884

NM_001103714

4422

1473

rtGEF-RD

FBtr0112885

NM_001103715

3689

973

Additional Transcript Data & Comments

Reported size (kB)

3.8 (northern blot)

(Werner and Manseau, 1997)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kD)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

rtGEF-PA

FBpp0080888

75.0

687

6.84

NP_477174

AAF53886

rtGEF-PB

FBpp0080889

75.0

687

6.84

NP_724258

AAF53887

rtGEF-PC

FBpp0111797

161.6

1473

6.28

NP_001097184

ABV53695

rtGEF-PD

FBpp0111798

106.1

973

8.50

NP_001097185

ABV53696

Additional Polypeptide Data & Comments

Reported size (kD)

687 (aa)

(Werner and Manseau, 1997)

Comments

External Data

Linkouts

PANTHER - Protein classification by function, families, and pathways

•

FBgn0015803

Crossreferences

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

•

Dbl homology (DH) domain (IPR000219)

Src homology-3 (IPR001452)

Pleckstrin-like (IPR001849)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Maps to

DS05187

(FlyBase, 1992-, Butler et al., 2001)

Does NOT map to

Identified with

GH13974

(Butler, 2001)

RE32772

(BDGP Project Members, 2000-)

Mapped Features & Mutations

Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here

Type

Symbol & Location

Additional Notes

References

point mutation

rtGEF[2]
2L:20,356,338..20,356,338

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change.
evidence=experimental
na_change=G20356338A
pr_change=G265R|rtGEF-PA,G265R|rtGEF-PB,G265R|rtGEF-PC,G 265R|rtGEF-PD
reported_pr_change=G265R

(Parnas et al., 2001)

External Data

Linkouts

DEDB - Drosophila exon database: splicing graphs

•

8188

Crossreferences

Expression Data

FlyBase-Curated Data

Transcript and
Protein data

Please see the FlyBase Gene Expression Report for details of gene expression from the literature.

Summary of Transcript Expression

Stage

Tissue/Position

Reference

embryonic stage | stage 12-15

ventral nerve cord

(Werner and Manseau, 1997)

oogenesis stage,adult stage

follicle cell

(Werner and Manseau, 1997)

embryonic stage | stage 12-15

embryonic/larval digestive system

(Werner and Manseau, 1997)

embryonic stage | stage 6-9

ventral furrow

(Werner and Manseau, 1997)

oogenesis stage,adult stage | stage <S9

oocyte

(Werner and Manseau, 1997)

oogenesis stage,adult stage

nurse cell

(Werner and Manseau, 1997)

embryonic stage | stage 11

neuroblast | ventral

(Werner and Manseau, 1997)

embryonic stage | stage 6-9

stomodeal invagination

(Werner and Manseau, 1997)

embryonic stage | stage 6-9

posterior plate of cibarium

(Werner and Manseau, 1997)

embryonic stage | stage 6-9

amnioproctodeal invagination

(Werner and Manseau, 1997)

embryonic stage | stage 11

anterior midgut primordium

(Werner and Manseau, 1997)

embryonic stage | cellular blastoderm

(Werner and Manseau, 1997)

embryonic stage | stage 6-9

cephalic furrow

(Werner and Manseau, 1997)

embryonic stage | early

(Werner and Manseau, 1997)

embryonic stage | stage 11

hindgut primordium

(Werner and Manseau, 1997)

embryonic stage | stage 10-11

mesoderm

(Werner and Manseau, 1997)

embryonic stage | stage 11

posterior midgut primordium

(Werner and Manseau, 1997)

Marker for

Subcellular Localization

CV Term

Summary of Polypeptide Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

Microarray Data

Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)

Untitled Document detailed view

AA978901
AI238011

External Data & Images

Linkouts

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

•

FBgn0015803

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

FBgn0015803

GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies

•

FBgn0015803

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

viable (with Df(2L)PJ19)

semi-lethal (with Df(2L)PJ19)

rtGEF^p1036

Other Phenotypes

Allele

neurophysiology defective (with Df(2L)PJ19)

neuroanatomy defective

rtGEF¹

neuroanatomy defective (with Df(2L)PJ19)

neuroanatomy defective (with rtGEF²)

rtGEF¹

neuroanatomy defective (with rtGEF¹)

rtGEF²

Phenotype manifest in

Allele

postsynaptic membrane (with rtGEF²)

rtGEF¹

synaptic vesicle (with Df(2L)PJ19)

NMJ bouton

rtGEF¹

postsynaptic membrane (with rtGEF¹)

rtGEF²

postsynaptic membrane (with Df(2L)PJ19)

rtGEF^p1036

t-bar (with Df(2L)PJ19)

rtGEF^p1036

NMJ bouton (with Df(2L)PJ19)

rtGEF^p1036

Classical Alleles ( 6 )

For All Classical Alleles Show

Allele of rtGEF	Class	Mutagen	Stocks	Known lesion
rtGEF¹		ethyl methanesulfonate	0	--
rtGEF²		ethyl methanesulfonate	0	Yes
rtGEF³		ethyl methanesulfonate	0	--
rtGEF^P59		Δ2-3	0	Yes
rtGEF^f07074		piggyBac transposase	1	--
rtGEF^p1036	amorph	Δ2-3	0	Yes

Alleles Carried on Transgenic Constructs ( 1 )

For All Alleles Carried on Transgenic Constructs Show

Allele of rtGEF	Class	Mutagen	Stocks	Known lesion
rtGEF^GD6845		in vitro construct \| RNAi in vitro construct \| regulatory fusion	2	Yes

Aneuploid Aberrations

Useful deficiency

Df(2L)pr76

Disrupted in

Df(2L)Exel6046

(Ryder, 2004.4.26)

Df(2L)PJ19

(Bai and Tolias, 2000, Parnas et al., 2001)

Df(2L)PJ2

(Bai and Tolias, 2000)

Not disrupted in

Df(2L)PJ17

(Parnas et al., 2001)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

P{GD6845}

Insertions

Type of insertions

Name

Expression data

miscellaneous insertions

PBac{WH}rtGEF^f07074

insertion of enhancer trap

P{lacW}l(2)SH1482^SH1482

insertion of mobile activating element

P{EP}rtGEF^P59

P{EP}rtGEF^p1036

Related Comments

Please look at the allele reports for the complete phenotype data

Gene Ontology: Function, Process & Cellular Component ( 5 )

Molecular Function

CV term

Evidence

References

Rho guanyl-nucleotide exchange factor activity

inferred from electronic annotation with InterPro:IPR000219

(FlyBase Curators et al., 2004-)

guanyl-nucleotide exchange factor activity

inferred from sequence or structural similarity

(Werner et al., 1996)

Biological Process

CV term

Evidence

References

regulation of Rho protein signal transduction

inferred from electronic annotation with InterPro:IPR000219

(FlyBase Curators et al., 2004-)

regulation of synapse organization and biogenesis

inferred from mutant phenotype

(Parnas et al., 2001)

Cellular Component

CV term

Evidence

References

intracellular

inferred from electronic annotation with InterPro:IPR000219

(FlyBase Curators et al., 2004-)

Sequence Ontology: Class of Gene

protein_coding_gene

nuclear_gene

Interactions & Pathways

Summary of Genetic Interactions

Interacts with

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

rtGEF allele

Gene

References

External Data

Linkouts

BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions

•

61272

Orthologs

Genome-wide drosophilid orthologs

Dana\GF14535

Dere\GG21230

Dgri\GH10131

Dmoj\GI22172

Dper\GL26605

Dpse\GA10030

Dsec\GM23345

Dsim\GD24253

Dvir\GJ20041

Dwil\GK18264

Dyak\GE13305

Curated drosophilid orthologs

Dpse\GA10030

Linkouts

InParanoid orthologs - Eukaryotic orthologs

•

ENSANGP00000007278
Anopheles gambiae (Ensembl)
ENSBTAP00000023726
Bos taurus (Ensembl)
ENSCAFP00000027983
Canis familiaris (Ensembl)
ENSCINP00000003447
Ciona intestinalis (Ensembl)
NEWSINFRUP00000181354
Takifugu rubripes (Ensembl)
ENSGALP00000010378
Gallus gallus (Ensembl)
ENSP00000354803
Homo sapiens (Ensembl)
ENSMMUP00000018108
Macaca mulatta (Ensembl)
ENSMODP00000005526
Monodelphis domestica (Ensembl)
ENSPTRP00000010268
Pan troglodytes (Ensembl)
ENSRNOP00000001158
Rattus norvegicus (Ensembl)
GSTENP00025933001
Tetraodon nigroviridis (Ensembl)
ENSXETP00000038015
Xenopus tropicalis (Ensembl)
WBGene00010776
Caenorhabditis elegans (Wormbase)
ZDB-CDNA-041212-54
Danio rerio (Zfin)
ZDB-GENE-041212-49
Danio rerio (Zfin)
MGI:1860493
Mus musculus (Informatics)

Functional Complementation between Species

Inter-Species Misexpression Data

Produces phenotype in

Produces NO phenotype in

Stocks & Reagents

Stocks Listed in FlyBase ( 4 )

Harvard

PBac{WH}rtGEF^f07074

VDRC

v17966

w¹¹¹⁸; P{GD6845}v17966

v17965

w¹¹¹⁸; P{GD6845}v17965/TM3

Szeged

P{lacW}l(2)SH1482^SH1482

Genomic Clones ( 1 )

BACR03G24

cDNA Clones ( 43 )

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

RE32772

Other clones

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones