FB2025_01 , released February 20, 2025
Gene: Dmel\ebo
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General Information
Symbol
Dmel\ebo
Species
D. melanogaster
Name
ellipsoid body open
Annotation Symbol
CG3923
Feature Type
protein_coding_gene
FlyBase ID
FBgn0266572
Gene Model Status
Current
Stock Availability
6 publicly available
Gene Summary
ellipsoid body open (ebo) encodes a protein that complexes with actin, the product of chic, and Ran-GTPase to mediate actin nuclear export. Loss of ebo during development results in defects in the ellipsoid body of the central complex. In the adult brain, accumulation of nuclear actin results in the inhibition of the product of bs and subsequent loss of visual orientation memory. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)
All Summaries
Also Known As

Exp6, Exportin 6, EG:165H7.3

Key Links
Genomic Location
Cytogenetic map
1B4-1B4
Sequence location
Recombination map
1-0
RefSeq locus
NC_004354 REGION:471019..476579
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (8 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables nuclear export signal receptor activity
inferred from electronic annotation with InterPro:IPR040016
(InterPro Project Members, 2004-)
enables small GTPase binding
inferred from electronic annotation with InterPro:IPR001494
(InterPro Project Members, 2004-)
Biological Process (6 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
involved_in central complex development
inferred from mutant phenotype
(Renn et al., 1999)
involved_in flight behavior
inferred from mutant phenotype
(Ilius et al., 1994)
involved_in mushroom body development
inferred from mutant phenotype
(de Belle and Heisenberg, 1996)
involved_in short-term memory
inferred from mutant phenotype
(Thran et al., 2013)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in adult walking behavior
traceable author statement
(Ilius et al., 1994)
involved_in protein export from nucleus
inferred from electronic annotation with InterPro:IPR040016
(InterPro Project Members, 2004-)
inferred from biological aspect of ancestor with PANTHER:PTN001087101
(GO Reference Genome Project, 2011-)
Cellular Component (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Snapshot
ellipsoid body open (ebo) encodes a protein that complexes with actin, the product of chic, and Ran-GTPase to mediate actin nuclear export. Loss of ebo during development results in defects in the ellipsoid body of the central complex. In the adult brain, accumulation of nuclear actin results in the inhibition of the product of bs and subsequent loss of visual orientation memory. [Date last reviewed: 2019-03-07]
Phenotypic Description (Red Book; Lindsley and Zimm 1992)
l(1)1Bb
Homozygous clones in eyes display swelling and vacuolization of pigment cells (alleles designated MM2 and TE10). Deletion for l(1)1Bb enhances central-nervous-system and eye effects of ASC deficiencies (Jimenez and Campos-Ortega, 1987, J. Neurogenet. 4: 179-200; Gonzalez, Romani, Cubas, Modolell, and Campuzano, 1989, EMBO J. 8: 3553-62).
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
3

Please see the JBrowse view of Dmel\ebo 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 X2J9Y4)

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
Comments on Gene Model

Gene model reviewed during 5.49

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

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

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
ebo-RA
FBtr0070098
NM_080140
4142
1047
ebo-RB
FBtr0339442
NM_001297809
4160
1053
ebo-RC
FBtr0339443
NM_001297810
4163
1054
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
UniProt
RefSeq ID
GenBank
ebo-PA
FBpp0070093
117.8
1047
5.86
Q9W5G1
NP_524879
AAF45504
ebo-PB
FBpp0308528
118.6
1053
5.86
X2JDN0
NP_001284738
AHN59209
ebo-PC
FBpp0308529
118.6
1054
5.86
X2J9Y4
NP_001284739
AHN59210
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
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\ebo using the Feature Mapper tool.

External Data
Crossreferences
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).

-0.80

Transcript Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\ebo in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 8 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of ebo
Transgenic constructs containing regulatory region of ebo
Aberrations (Deficiencies and Duplications) ( 1 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (4)
Hsap\XPO6
12 of 14
Yes
Yes
Hsap\XPO1
1 of 14
No
No
Hsap\XPO5
1 of 14
No
No
Hsap\XPOT
1 of 14
No
Yes
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (3)
Rnor\Xpo6
12 of 14
Yes
Yes
Rnor\Xpo1
1 of 14
No
No
Rnor\Xpo5
1 of 14
No
No
Mus musculus (laboratory mouse) (4)
Mmus\Xpo6
11 of 14
Yes
Yes
Mmus\Xpo1
1 of 14
No
No
Mmus\Xpo5
1 of 14
No
No
Mmus\Xpot
1 of 14
No
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\xpo6
9 of 13
Yes
Yes
Xtro\abhd5
1 of 13
No
No
Danio rerio (Zebrafish) (2)
Drer\xpo6
11 of 14
Yes
Yes
Drer\xpo1a
1 of 14
No
No
Caenorhabditis elegans (Nematode, roundworm) (0)
Anopheles gambiae (African malaria mosquito) (3)
Agam\AgaP_AGAP000271
9 of 12
Yes
Yes
Agam\AgaP_AGAP009929
1 of 12
No
No
Agam\AgaP_AGAP011888
1 of 12
No
No
Arabidopsis thaliana (thale-cress) (3)
Atha\HST
1 of 13
Yes
No
Atha\XPO1A
1 of 13
Yes
No
Atha\XPO1B
1 of 13
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (2)
Scer\CRM1
1 of 13
Yes
No
Scer\MSN5
1 of 13
Yes
No
Schizosaccharomyces pombe (Fission yeast) (2)
Spom\crm1
1 of 12
Yes
No
Spom\SPAC328.01c
1 of 12
Yes
No
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:ebo. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Gene Symbol
Score
Source
Compara
Domainoid
eggNOG
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Drosophila melanogaster (Fruit fly) (2)
emb
1 of 13
Ranbp21
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 ( 0 )
    Allele
    Disease
    Interaction
    References
    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?
    XPO6; exportin 6
    12 of 14
    608411
        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
        Other Interaction Browsers
        Summary of Genetic Interactions
        esyN Network Diagram
        Other Interaction Browsers
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        External Data
        Linkouts
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Pathways
        Signaling Pathways (FlyBase)
        Metabolic Pathways
        FlyBase
        External Links
        External Data
        Linkouts
        KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
        Class of Gene
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        X
        Recombination map
        1-0
        Cytogenetic map
        1B4-1B4
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        1B4-1B4
        Limits computationally determined from genome sequence between P{EP}CG17896EP1320&P{EP}EP1398 and P{EP}svrEP356&P{EP}argEP452
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location

        1-0

        (FlyBase, 2016)

        1-0.0

        (Comeron et al., 2012)

        1-3.8

        (Varnam et al., 1996)
        Left of (cM)
        Right of (cM)
        (Ilius et al., 1993)
        Notes
        Stocks and Reagents
        Stocks (6)
        Genomic Clones (8)
         

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

        cDNA Clones (243)
         

        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
        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)
        BDGP DGC clones
        Other clones
        RNAi and Array Information
        Linkouts
        Antibody Information
        Laboratory Generated Antibodies
         
        Commercially Available Antibodies
         
        Cell Line Information
        Publicly Available Cell Lines
         
          Other Stable Cell Lines
           
            Other Comments

            ebo is required for central complex formation.

            (Fleischmann et al., 1995)
            Relationship to Other Genes
            Source for database merge of

            Source for merge of: Exp6 ebo

            (Thran et al., 2013)
            Additional comments

            l(1)1Bb19 complements ebo678, indicating that l(1)1Bb and ebo are not members of the same complementation group.

            (Poeck, 2014.3.8)

            The l(1)1Bb complementation group was previously merged with the ebo gene in FlyBase, based on information in FBrf0125093 (which provided molecular map information for the region including ebo and information about changes in the restriction enzyme map of this region in l(1)1Bb mutants). However, FBrf0224496 shows that the l(1)1Bb19 allele complements ebo mutant alleles. Thus l(1)1Bb and ebo have been split back out into separate gene records in FlyBase.

            (FlyBase, 1992-)
            Nomenclature History
            Source for database identify of
            Nomenclature comments
            Etymology
            Synonyms and Secondary IDs (11)
            Datasets (0)
            Study focus (0)
            Experimental Role
            Project
            Project Type
            Title
            Study result (0)
            Result
            Result Type
            Title
            External Crossreferences and Linkouts ( 47 )
            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.
            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.
            UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
            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.
            DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
            EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
            FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
            InterPro - A database of protein families, domains and functional sites
            KEGG Genes - Molecular building blocks of life in the genomic space.
            MARRVEL_MODEL - MARRVEL (model organism gene)
            Linkouts
            Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
            FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
            FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
            Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
            iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
            KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
            MIST (protein-protein) - An integrated Molecular Interaction Database
            References (67)