FlyBase Gene Report: Dmel\Rab3

General Information

Symbol

Dmel\Rab3

Species

D. melanogaster

Name

Rab3

Annotation Symbol

CG7576

Feature Type

protein_coding_gene

FlyBase ID

FBgn0005586

Gene Model Status

Current

Stock Availability

39 publicly available

Gene Summary

Rab3 (Rab3) encodes a member of a large family of Ras-like small GTPases. Localized primarily at the synapse, Rab3 product is involved in mechanisms that control synaptic development and function, including the regulation of active zone protein composition at the neuromuscular junction. [Date last reviewed: 2018-09-13] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

drab3, DmRab3, Rab3A, dm-Rab3

Key Links

Genomic Location

Cytogenetic map

47B7-47B7

Sequence location

2R:10,721,335..10,729,203 [-]

Recombination map

2-63

RefSeq locus

NT_033778 REGION:10721335..10729203

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

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

Function

Gene Ontology (GO) Annotations (20 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables GTP binding

inferred from direct assay

(Lardong et al., 2015)

enables magnesium ion binding

inferred from direct assay

(Lardong et al., 2015)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables GTP binding

inferred from electronic annotation with InterPro:IPR001806, InterPro:IPR005225

(InterPro Project Members, 2004-)

enables GTPase activity

inferred from electronic annotation with InterPro:IPR001806, InterPro:IPR037872

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN000635132

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with FLYBASE:Rab11; FB:FBgn0015790

(Gene Ontology Curators, 2002-)

enables myosin V binding

inferred from biological aspect of ancestor with PANTHER:PTN001178498

(GO Reference Genome Project, 2011-)

Biological Process (10 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

involved_in cytoskeletal matrix organization at active zone

inferred from mutant phenotype

(Ehmann et al., 2014)

involved_in maintenance of presynaptic active zone structure

inferred from mutant phenotype

(Graf et al., 2009)

involved_in regulation of neurotransmitter secretion

inferred from mutant phenotype

(Müller et al., 2011)

involved_in symbiont entry into host cell

inferred from high throughput mutant phenotype

(Hodgson et al., 2019)

involved_in vesicle-mediated transport

inferred from physical interaction with UniProtKB:Q9VB25

(Mauvezin et al., 2016)

Terms Based on Predictions or Assertions (6 terms)

CV Term

Evidence

References

involved_in exocytosis

inferred from biological aspect of ancestor with PANTHER:PTN004664821

(GO Reference Genome Project, 2011-)

involved_in neurotransmitter secretion

non-traceable author statement

(Lloyd et al., 2000)

involved_in Rab protein signal transduction

inferred from sequence or structural similarity with FLYBASE:Rab11; FB:FBgn0015790

(Gene Ontology Curators, 2002-)

involved_in regulation of short-term neuronal synaptic plasticity

inferred from sequence or structural similarity with UniProtKB:P63011

(Gene Ontology Curators, 2002-)

involved_in regulation of synaptic vesicle fusion to presynaptic active zone membrane

inferred from sequence or structural similarity with UniProtKB:P63011

(Gene Ontology Curators, 2002-)

involved_in vesicle-mediated transport

non-traceable author statement

(Lloyd et al., 2000)

inferred from sequence or structural similarity with FLYBASE:Rab11; FB:FBgn0015790

(Gene Ontology Curators, 2002-)

Cellular Component (6 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

colocalizes_with presynaptic active zone

inferred from direct assay

(Petersen and Stowers, 2011)

located_in presynaptic active zone

inferred from direct assay

(Graf et al., 2009)

located_in synapse

inferred from high throughput direct assay

(Chan et al., 2011)

inferred from mutant phenotype

(Müller et al., 2011)

colocalizes_with synaptic vesicle

inferred from direct assay

(Petersen and Stowers, 2011)

located_in synaptic vesicle

inferred from high throughput direct assay

(Chan et al., 2011)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

is_active_in endosome

inferred from biological aspect of ancestor with PANTHER:PTN000635134

(GO Reference Genome Project, 2011-)

is_active_in plasma membrane

inferred from biological aspect of ancestor with PANTHER:PTN000635134

(GO Reference Genome Project, 2011-)

located_in synaptic vesicle

non-traceable author statement

(Lloyd et al., 2000)

located_in vesicle

inferred from sequence or structural similarity with FLYBASE:Rab11; FB:FBgn0015790

(Gene Ontology Curators, 2002-)

Gene Group (FlyBase)

RAB GTPASES

Protein Family (UniProt)

Belongs to the small GTPase superfamily. Rab family. (P25228)

Protein Signatures (InterPro)

Catalytic Activity (EC/Rhea)

GTPase activity
RHEA 19669:

Summaries

Gene Snapshot

Gene Group (FlyBase)

RAB GTPASES -: The Rab family are members of the Ras superfamily of small GTPases. Rabs regulate vesicle trafficking including cargo selection, vesicle budding, transport, docking and targeting. They localize to different intracellular compartments directed by specific isoprenylation of C-terminal motifs. (Adapted from PMID:15731001).

Protein Function (UniProtKB)

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal (By similarity).

(UniProt, P25228)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Rab3 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

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry P25228)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

PDB - An information portal to biological macromolecular structures

4RKF

Comments on Gene Model

Gene model reviewed during 5.49

Gene model reviewed during 6.19

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Rab3-RA

FBtr0088257

NM_078963

3757

220

Rab3-RB

FBtr0473383

NM_001370044

2124

220

Additional Transcript Data and Comments

Reported size (kB)

3.8 (northern blot)

(DiAntonio et al., 1993)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Rab3-PA

FBpp0087352

24.9

220

4.79

FBpp0422979

24.9

220

4.79

P25228

QCD26197

Polypeptides with Identical Sequences

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

220 aa isoforms: Rab3-PA, Rab3-PB

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Interacts with Rph.

(UniProt, P25228)

Crossreferences

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

PDB - An information portal to biological macromolecular structures

4RKF

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Rab3 using the Feature Mapper tool.

External Data

Crossreferences

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

Rab3_1

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.67

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

(DiAntonio et al., 1993)

embryonic stage 13 -- 17

presumptive embryonic/larval central nervous system

(DiAntonio et al., 1993)

larval antenno-maxillary sensory complex

(DiAntonio et al., 1993)

adult stage

cell body of adult brain

(DiAntonio et al., 1993)

RT-PCR

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

larval brain

(Nakaoka et al., 2017)

Additional Descriptive Data

Rab3 transcripts are first detected in 12-15hr embryos on northern blots and are detected at all subsequent stages tested. The are enriched in adult head relative to adult body. Transcripts are detected by in situ hybridization in mid-late embryos in the CNS and in the antenno-maxillary complex. In sections of adult brain, transcripts are detected in the cell bodies of the central nuclei but not in the cortex of the visual system.

(DiAntonio et al., 1993)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

synapse

• presynaptic active zone

(Graf et al., 2009)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

colocalizes_with presynaptic active zone

inferred from direct assay

(Petersen and Stowers, 2011)

located_in presynaptic active zone

inferred from direct assay

(Graf et al., 2009)

located_in synapse

inferred from high throughput direct assay

(Chan et al., 2011)

inferred from mutant phenotype

(Müller et al., 2011)

colocalizes_with synaptic vesicle

inferred from direct assay

(Petersen and Stowers, 2011)

located_in synaptic vesicle

inferred from high throughput direct assay

(Chan et al., 2011)

Expression Deduced from Reporters

Reporter: PBac{I-SceI(FRT.Rab3-GAL4.ATG(loxP.3xP3-RFP))}

Stage

Tissue/Position (including subcellular localization)

Reference

pupal stage P6 -- P7

neuron of adult optic lobe

Comment: 30-40h APF

(Jin et al., 2012)

mushroom body | intense

Comment: 30-40h APF

(Jin et al., 2012)

eye photoreceptor cell | intense

Comment: 30-40h APF

(Jin et al., 2012)

neuron | subset of pupal brain

Comment: 30-40h APF

(Chan et al., 2011)

mushroom body

Comment: 30-40h APF

(Chan et al., 2011)

eye photoreceptor cell

Comment: 30-40h APF

(Chan et al., 2011)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Rab3 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Rab3

View exonic expression by tissue for Dmel\Rab3

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

FBgn0005586

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

36127/tissue=All

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

FBgn0005586

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0005586

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

FBgn0005586

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

CG7576

Flygut - An atlas of the Drosophila adult midgut

FBgn0005586

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Rab3

Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 14 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 46 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Rab3

Transgenic constructs containing regulatory region of Rab3

Aberrations (Deficiencies and Duplications) ( 2 )

Inferred from experimentation ( 2 )

Gene disrupted in

Df(2R)ED2076

(Graf et al., 2009)

Gene partially disrupted in

Df(2R)CRIMIC-CR71442

(Gene Disruption Project members, 2018-)

Inferred from location ( 7 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Lethality

Allele

lethal - all die before end of larval stage, with Scer\GAL4^2-286

Rab3^KK108633

lethal - all die before end of larval stage, with Scer\GAL4^phtm.PU

Rab3^KK108633

partially lethal - majority live, with Scer\GAL4^phtm.PO

Rab3^KK108633

viable

Sterility

Allele

fertile

Rab3^rup

Other Phenotypes

Allele

abnormal developmental rate | larval stage, with Scer\GAL4^phtm.PO

Rab3^KK108633

abnormal developmental rate | larval stage | cold sensitive

Rab3^rup

abnormal neuroanatomy (with Df(2R)ED2076)

Rab3^rup

abnormal neuroanatomy | larval stage

Rab3^rup

abnormal neuroanatomy | larval stage, with Scer\GAL4^elav.PU

Rab3^KK108633

abnormal neuroanatomy | third instar larval stage (with Df(2R)ED2076)

Rab3^rup

abnormal neuroanatomy | third instar larval stage | RU486 conditional, with Scer\GAL4^{elav.Switch.PO}

abnormal neurophysiology (with Df(2R)ED2076)

Rab3^rup

abnormal neurophysiology | adult stage

Rab3^rup

abnormal neurophysiology | third instar larval stage

Rab3^rup

abnormal neurophysiology | third instar larval stage (with Df(2R)ED2076)

Rab3^rup

abnormal size | larval stage

Rab3^rup

decreased size | adult stage

Rab3^rup

increased body size | third instar larval stage, with Scer\GAL4^phtm.PO

Rab3^KK108633

some die during larval stage, with Scer\GAL4^phtm.PO

Rab3^KK108633

visible | adult stage

Rab3^rup

Phenotype manifest in

Allele

embryonic/larval neuromuscular junction | larval stage

Rab3^rup

embryonic/larval neuromuscular junction | third instar larval stage (with Df(2R)ED2076)

Rab3^rup

embryonic/larval neuromuscular junction | third instar larval stage | RU486 conditional, with Scer\GAL4^{elav.Switch.PO}

neuromuscular junction (with Df(2R)ED2076)

Rab3^rup

presynaptic active zone | larval stage

Rab3^rup

presynaptic active zone | larval stage, with Scer\GAL4^elav.PU

Rab3^KK108633

retina

Rab3^rup

t-bar (with Df(2R)ED2076)

Rab3^rup

type I bouton | larval stage

Rab3^rup

type I bouton | larval stage, with Scer\GAL4^elav.PU

Rab3^KK108633

wing

Rab3^rup

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (54)

Hsap\RAB3C

12 of 14

Yes

Hsap\RAB3A

11 of 14

Yes

Hsap\RAB3B

9 of 14

Yes

Hsap\RAB3D

8 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (35)

Rnor\Rab3c

12 of 14

Yes

Rnor\Rab3a

11 of 14

Yes

Rnor\Rab3b

8 of 14

Yes

Rnor\Rab3d

7 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (33)

Mmus\Rab3c

12 of 14

Yes

Mmus\Rab3a

10 of 14

Yes

Mmus\Rab3b

8 of 14

Yes

Mmus\Rab3d

8 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (25)

Xtro\rab3c

10 of 13

Yes

Xtro\rab3a

9 of 13

Yes

Xtro\rab3b

9 of 13

Yes

Xtro\rab3d

8 of 13

Yes

Xtro\cplane2

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (38)

Drer\rab3aa

11 of 14

Yes

Drer\rab3ab

11 of 14

Yes

Drer\rab3c

11 of 14

Yes

Drer\rab3da

6 of 14

Yes

Drer\rab3b

5 of 14

Yes

Drer\rab3db

4 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (25)

Cele\rab-3

13 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (20)

Agam\AgaP_AGAP005255

12 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (43)

Atha\AT5G59840

2 of 13

Yes

Atha\RAB8

2 of 13

Yes

Atha\RAB8C

2 of 13

Yes

Atha\RABE1c

2 of 13

Yes

Atha\RABE1e

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\SGP2

1 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (14)

Scer\SEC4

2 of 13

Yes

Scer\YHR022C

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Schizosaccharomyces pombe (Fission yeast) (7)

Spom\ypt2

2 of 12

Yes

Spom\ryh1

1 of 12

Spom\spg1

1 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Rab3. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (39)

3 of 13

3 of 13

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Ran

1 of 13

Rgk2

1 of 13

Rheb

1 of 13

RhoL

1 of 13

Ric

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

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 ( 3 )

Allele

Disease

Interaction

References

Rab3^{T35N.UASp.YFP}

exacerbates Parkinson's disease 8

modeled by Lrrk¹

(Inoshita et al., 2022)

Rab3^{Q80L.UASp.YFP}

ameliorates Huntington's disease

modeled by Hsap\HTT^{128Q.1-336.UAS}

(Al-Ramahi et al., 2018)

Rab3^UAS.cGa

ameliorates nervous system disease

modeled by unc-104^bris

(Zhang et al., 2016)

Disease Associations of Human Orthologs (via DIOPT v9.1 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?

RAB3C; RAB3C, member RAS oncogene family

12 of 14

612829

RAB3A; RAB3A, member RAS oncogene family

11 of 14

179490

RAB3B; RAB3B, member RAS oncogene family

9 of 14

179510

RAB3D; RAB3D, member RAS oncogene family

8 of 14

604350

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

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Rab3 - Gdi

experimental knowledge based

(Guruharsha et al., 2011)

Rab3 - Klp98A

anti tag coimmunoprecipitation, anti tag western blot

(Mauvezin et al., 2016)

Rab3 - Rab35

experimental knowledge based

(Guruharsha et al., 2011)

Rab3 - Sec15

pull down, western blot

(Wu et al., 2005)

Rab3 - strat

experimental knowledge based

(Guruharsha et al., 2011)

Summary of Genetic Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Rab3

enhanceable

Sec15

(Kang et al., 2024)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Gαq

suppressible

Rab3

(Yamanaka et al., 2015)

Rab3-GAP

enhanceable

Rab3

(Müller et al., 2011)

External Data

Subunit Structure (UniProtKB)

Interacts with Rph.

(UniProt, P25228 )

Linkouts

BioGRID - A database of protein and genetic interactions.

61936

DroID - A comprehensive database of gene and protein interactions.

FBgn0005586

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

36127

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

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

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-63

Cytogenetic map

47B7-47B7

Sequence location

2R:10,721,335..10,729,203 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

47B7-47B7

Limits computationally determined from genome sequence between P{PZ}lola⁰⁰³⁴⁹&P{EP}lola^EP952 and P{lacW}l(2)k00909^k00909&P{EP}EP2619^EP2619

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

47B-47B

(Lloyd et al., 2000)

47B-47B

(determined by in situ hybridisation)

(Johnston et al., 1991)

Determined by comparing Celera genomic sequence with sequence from BDGP BAC and P1 clones.

(Lloyd et al., 2000)

Experimentally Determined Recombination Data

Location

2-63

(FlyBase, 2016)

2-61.9

(Comeron et al., 2012)

2-43--48

(Graf et al., 2009)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (39)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

78045

w^*; Rab3^rup

78048

w^*; M{UAS-Rab3.WT}ZH-86Fb

48588

w¹¹¹⁸; P{GMR13H03-GAL4}attP2

52465

w¹¹¹⁸; P{GMR13H03-lexA}attP40

62541

w¹¹¹⁸; TI{TI}Rab3^EYFP

81906

w^*; PBac{U6:3-Rab3.gRNA}VK00027

31691

y¹ v¹; P{TRiP.JF02020}attP2

9764

y¹ w^*; P{UASp-YFP.Rab3.Q80L}11

9766

y¹ w^*; P{UASp-YFP.Rab3.T35N}04L

7576R-3

v330151

v100787

More stocks available...

Genomic Clones (25)

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

cDNA Clones (259)

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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

LP05860

Other clones

DPiM_LP05860

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.

FBgn0005586

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0005586

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Graf et al., 2009)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Rab3 is not required for the rapid induction or the sustained expression of synaptic homeostasis.

(Müller et al., 2011)

Rab3 apears necessary for normal morphological synapse development but opposes the expression of homeostatic plasticity.

(Müller et al., 2011)

dsRNA has been made from templates generated with primers directed against this gene.

(Kouranti et al., 2006)

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)

Evolutionary conservation of both structure and localisation suggests that n-syb, Rab3 and syt have an important function in the synaptic vesicle.

(DiAntonio et al., 1993)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (15)

Reported As

Symbol Synonym

AAF58762

(Armstrong, 2000)

CG7576

(Meadows, 2017.1.11, Nakaoka et al., 2017, Çiçek et al., 2016, Dunst et al., 2015, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Pan and Zhang, 2009, Ni et al., 2008, Zhang et al., 2007, Colicelli, 2004)

DRAB3

(Kohno et al., 1994)

DRab3

(Fabian-Fine et al., 2003)

DmRab3

(Pereira-Leal and Seabra, 2001, Pereira-Leal and Seabra, 2001)

Drab3

(Satoh et al., 1997, Parfitt et al., 1995)

P25228

(Rojas et al., 2012)

RAB3

(Ciampelli et al., 2025)

Rab3

(Akai et al., 2025, Davis et al., 2024, Hofbauer et al., 2024, Kim et al., 2024, Turrel et al., 2024, Zhou et al., 2023, Cabrita et al., 2022, Certel et al., 2022, Guo et al., 2022, Ochi et al., 2022, van de Leemput et al., 2022, Allen et al., 2021, Duan et al., 2021, Ma and Brill, 2021, Sauvola and Littleton, 2021, Hope et al., 2020, Kitani-Morii and Noto, 2020, Selma-Soriano et al., 2020, White et al., 2020, Hodgson et al., 2019, Krämer et al., 2019, Williams et al., 2019, Al-Ramahi et al., 2018, Artiushin et al., 2018, Gene Disruption Project members, 2018-, Jin et al., 2018, Shearin et al., 2018, Coutinho-Budd et al., 2017, Dourlen et al., 2017, Böhme et al., 2016, Caviglia et al., 2016, Kittel and Heckmann, 2016, Mauvezin et al., 2016, Nijhof et al., 2016, Zhang et al., 2016, Kroll et al., 2015, Lardong et al., 2015, White et al., 2015, Yamanaka et al., 2015, Cavanaugh et al., 2014, Gillingham et al., 2014, Gillingham et al., 2014, Kwon et al., 2013, O'Sullivan et al., 2013, Shearin et al., 2013, Graf et al., 2012, Japanese National Institute of Genetics, 2012.5.21, Nechipurenko and Broihier, 2012, Nfonsam et al., 2012, Wang et al., 2012, Cheng et al., 2011, Müller et al., 2011, Peled and Isacoff, 2011, Petersen and Stowers, 2011, Thomas et al., 2009, Bakal et al., 2007, Zhang et al., 2007, Zhang et al., 2007, Kouranti et al., 2006, Wu et al., 2005, Fukuda, 2004, Monnier et al., 2002)

Rab3A

(Martinez-Arroyo et al., 2021, Littleton et al., 1998)

dRab3

(Solis et al., 2017)

dm-Rab3

(Fukuda, 2004, Fukuda et al., 2004)

drab3

(Lloyd et al., 2000, Burgess and Schwarz, 1993, DiAntonio et al., 1993)

Name Synonyms

Rab-protein 3

Rab3

Secondary FlyBase IDs

Datasets (1)

Study focus (1)

Experimental Role

Project

Project Type

Title

bait_protein

Rab_Effectors_interaction_map

interactome

Interaction map generated by purification of most Rab factors, with identification of copurifying effectors by mass spectrometry.

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 54 )

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.

36127

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/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

P25228

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

P25228

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

A0A4P7VAW6

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

P25228

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0005586

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

36127/tissue=All

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

FBgn0005586

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

FBgn0005586

FlyMine - An integrated database for Drosophila genomics

FBgn0005586

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

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

dme:Dmel_CG7576

MARRVEL_MODEL - MARRVEL (model organism gene)

36127

PDB - An information portal to biological macromolecular structures

4RKF

Linkouts

BioGRID - A database of protein and genetic interactions.

61936

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

FBgn0005586

DroID - A comprehensive database of gene and protein interactions.

FBgn0005586

DRSC - Results frm RNAi screens

FBgn0005586

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

Rab3_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0005586

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0005586

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

CG7576

Flygut - An atlas of the Drosophila adult midgut

FBgn0005586

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0005586

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

TC010990

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

36127

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

References (174)

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

-0.67

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