Gene Dmel\RhoGAP54D

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General Information

Symbol

Dmel\RhoGAP54D

Species

D. melanogaster

Name

RhoGAP54D

Annotation symbol

CG6477

Feature type

protein_coding_gene

FlyBase ID

FBgn0034249

Created / Updated

2003-12-01/2003-12-01

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

54C11-54C12

Sequence location

2R:13,474,176..13,478,387 [-]

Map ( GBrowse )

Summary Information

Automatically generated summary

See sections below for more information

This gene is referred to in FlyBase by the symbol RhoGAP54D (CG6477, FBgn0034249). It has the cytological map location 54C11-54C12. Its sequence location is 2R:13474176..13478387. Its molecular function is unknown. It is involved in the biological process signal transduction. 3 alleles are reported. No phenotypic data is available. It has 2 annotated transcripts and 2 annotated polypeptides.

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

54C11-54C12

Limits computationally determined from genome sequence between P{EP}MESR4^EP386&P{EP}POSH^EP1206 and P{PZ}l(2)10505¹⁰⁵⁰⁵

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Molecular Map Data

Gene Order (in direction of increasing cytology)

References

Gene Order (overall orientation not stated)

References

Gene Model & Products

Please see the GBrowse view of Dmel\RhoGAP54D for information on other features

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

RhoGAP54D-RA

FBtr0086900

NM_137392

3543

1004

RhoGAP54D-RB

FBtr0086901

NM_206156

1958

424

Additional Transcript Data & Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kD)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

RhoGAP54D-PA

FBpp0086058

110.7

1004

6.46

NP_611236

AAF57827

RhoGAP54D-PB

FBpp0089290

48.1

424

7.96

NP_995878

AAS64816

Additional Polypeptide Data & Comments

Reported size (kD)

Comments

External Data

Linkouts

PANTHER - Protein classification by function, families, and pathways

•

FBgn0034249

Crossreferences

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

•

RhoGAP (IPR000198)

Rho GTPase activation protein (IPR008936)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Maps to

Does NOT map to

Identified with

RE04485

(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

External Data

Linkouts

DEDB - Drosophila exon database: splicing graphs

•

12106

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

Marker for

Subcellular Localization

CV Term

Summary of Polypeptide Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

External Data & Images

Linkouts

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

•

FBgn0034249

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

FBgn0034249

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

•

FBgn0034249

Alleles & Phenotypes

Summary of Allele Phenotypes

Phenotype manifest in

Allele

Classical Alleles ( 1 )

For All Classical Alleles Show

Allele of RhoGAP54D	Class	Mutagen	Stocks	Known lesion
RhoGAP54D^EY22686		P-element activity	1	--

Alleles Carried on Transgenic Constructs ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Allele of RhoGAP54D	Class	Mutagen	Stocks	Known lesion
RhoGAP54D^GD11935		in vitro construct \| RNAi in vitro construct \| regulatory fusion	2	Yes
RhoGAP54D^{dsRNA.Scer\UAS}		in vitro construct \| regulatory fusion in vitro construct \| RNAi	2	Yes

Aneuploid Aberrations

Useful duplication

Dp(2;Y)53D;57C

Disrupted in

Df(2R)Exel7149

(Ryder, 2004.4.26)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

P{GD11935}

P{UAS-RhoGAP54D-dsRNA}

Insertions

Type of insertions

Name

Expression data

insertion of mobile activating element

P{EPgy2}RhoGAP54D^EY22686

Related Comments

Please look at the allele reports for the complete phenotype data

Gene Ontology: Function, Process & Cellular Component ( 2 )

Molecular Function

CV term

Evidence

References

Biological Process

CV term

Evidence

References

signal transduction

inferred from electronic annotation with InterPro:IPR000198, InterPro:IPR008936

(FlyBase Curators et al., 2004-)

Cellular Component

CV term

Evidence

References

intracellular

inferred from electronic annotation with InterPro:IPR000198, InterPro:IPR008936

(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

RhoGAP54D allele

Gene

References

External Data

Linkouts

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

•

62684

Orthologs

Genome-wide drosophilid orthologs

Dpse\GA24875

Dana\GF11586

Dere\GG21038

Dmoj\GI20786

Dper\GL17687

Dsec\GM19966

Dvir\GJ20520

Dwil\GK10667

Dyak\GE13981

Curated drosophilid orthologs

Dpse\GA19623

Linkouts

InParanoid orthologs - Eukaryotic orthologs

•

MGI:1918335
Mus musculus (Informatics)
ENSXETP00000007408
Xenopus tropicalis (Ensembl)
GSTENP00030599001
Tetraodon nigroviridis (Ensembl)
ENSPTRP00000043882
Pan troglodytes (Ensembl)
ENSMODP00000005371
Monodelphis domestica (Ensembl)
ENSMMUP00000010279
Macaca mulatta (Ensembl)
ENSP00000351333
Homo sapiens (Ensembl)
ENSGALP00000032592
Gallus gallus (Ensembl)
NEWSINFRUP00000146491
Takifugu rubripes (Ensembl)
ENSCINP00000006823
Ciona intestinalis (Ensembl)
ENSCAFP00000013257
Canis familiaris (Ensembl)
ENSBTAP00000023097
Bos taurus (Ensembl)
ENSANGP00000011534
Anopheles gambiae (Ensembl)

Functional Complementation between Species

Inter-Species Misexpression Data

Produces phenotype in

Produces NO phenotype in

Stocks & Reagents

Stocks Listed in FlyBase ( 5 )

VDRC

v27638

w¹¹¹⁸; P{GD11935}v27638

v27639

w¹¹¹⁸; P{GD11935}v27639

Bloomington

6440

y¹ w^*; P{UAS-RhoGAP54D-dsRNA}5.1

6441

y¹ w^*; P{UAS-RhoGAP54D-dsRNA}4.2

22579

y¹ w^67c23; P{EPgy2}RhoGAP54D^EY22686

Genomic Clones ( 1 )

BACR12C23

cDNA Clones ( 14 )

cDNA Clones, Fully Sequenced

BDGP DGC clones

Other clones

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Affy Oligo

Linkouts

DRSC - RNAi screening (Harvard): high-throughput cell culture data and design

•

FBgn0034249

GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data

•

FBgn0034249

Antibody Information

Other Information

Discoverer

Etymology

Identification

Position Effect Variegation Data

Relationship to Other Genes

Source for database identity of

Source for database merge of

Additional comments

Comments About Role

Comments About Molecular Function

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.

(Kiger et al., 2003)

External Crossreferences & Linkouts

Sequence Crossreferences

RefSeq (Transcripts)

•

RefSeq (Proteins)

•

DDBJ / EMBL / GenBank

•

UniProtKB/TrEMBL

•

Other Crossreferences

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

•

RhoGAP (IPR000198)

Rho GTPase activation protein (IPR008936)

Linkouts

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

•

62684

DEDB - Drosophila exon database: splicing graphs

•

12106

DRSC - RNAi screening (Harvard): high-throughput cell culture data and design

•

FBgn0034249

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

•

FBgn0034249

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

FBgn0034249

FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans

•

FBgn0034249

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

•

FBgn0034249

GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data

•

FBgn0034249

InParanoid orthologs - Eukaryotic orthologs

•

MGI:1918335
Mus musculus (Informatics)
ENSXETP00000007408
Xenopus tropicalis (Ensembl)
GSTENP00030599001
Tetraodon nigroviridis (Ensembl)
ENSPTRP00000043882
Pan troglodytes (Ensembl)
ENSMODP00000005371
Monodelphis domestica (Ensembl)
ENSMMUP00000010279
Macaca mulatta (Ensembl)
ENSP00000351333
Homo sapiens (Ensembl)
ENSGALP00000032592
Gallus gallus (Ensembl)
NEWSINFRUP00000146491
Takifugu rubripes (Ensembl)
ENSCINP00000006823
Ciona intestinalis (Ensembl)
ENSCAFP00000013257
Canis familiaris (Ensembl)
ENSBTAP00000023097
Bos taurus (Ensembl)
ENSANGP00000011534
Anopheles gambiae (Ensembl)

PANTHER - Protein classification by function, families, and pathways

•

FBgn0034249

Synonyms & Secondary IDs ( 2 )

Reported As

Symbol Synonym

CG6477

(Bernards, 2003, Asha et al., 2003, Billuart et al., 2001, )

RhoGAP54D

Name Synonym

RhoGAP54D

Secondary FlyBase IDs

References ( 12 )

Research paper

Asha et al., 2003, Genetics 163(1): 203--215: Analysis of ras-induced overproliferation in Drosophila hemocytes. [FBrf0155813]
Billuart et al., 2001, Cell 107(2): 195--207: Regulating axon branch stability. The role of p190 RhoGAP in repressing a retraction signaling pathway. [FBrf0139610]

Supplementary material

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]

Review

Bernards, 2003, Biochim. biophys. Acta 1603(2): 47--82: GAPs galore! A survey of putative Ras superfamily GTPase activating proteins in man and Drosophila. [FBrf0158741]

Personal communication to FlyBase

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]
Bellen, 2006.8.3, MBBatch686_2.xml: MBBatch686_2.xml [FBrf0191805]
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]
Ryder, 2004.4.26, Exelixis CG deletion data.: Exelixis CG deletion data. [FBrf0184335]

FlyBase analysis

FlyBase, 1992-, FlyBase curation: FlyBase curation. [FBrf0105495]

Computer file

BDGP Project Members, 2000-, Berkeley Drosophila Genome Project.: Berkeley Drosophila Genome Project. [FBrf0125078]

Automatic genome annotation

FamiliarityBreedsContempt, 1999.11, [Annotations performed at the Celera Jamboreee.]: [Annotations performed at the Celera Jamboreee.] [FBrf0126705]