FB2022_02, released March 29, 2022

Gene: Dmel\eca

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General Information
Symbol
Dmel\eca
Species
D. melanogaster
Name
eclair
Annotation Symbol
CG33104
Feature Type
protein_coding_gene
FlyBase ID
FBgn0069242
Gene Model Status
Current
Stock Availability
6 publicly available
Gene Summary
Eca and bai are essential, though not redundant, for dorsoventral patterning of the embryo. Specifically required during early embryogenesis for the activity of maternal tkv, while the zygotic tkv is not affected. Involved in Golgi organization. (UniProt, Q9I7K5)
Contribute a Gene Snapshot for this gene.
All Summaries
Key Links
Genomic Location
Cytogenetic map
85E4-85E4
Sequence location
Recombination map
3-49
RefSeq locus
NT_033777 REGION:9684469..9685476
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
GO Summary Ribbons
Gene Ontology (GO) Annotations (14 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables cargo receptor activity
inferred from sequence model
(Carney and Bowen, 2004)
Biological Process (7 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
involved_in dorsal/ventral pattern formation
inferred from mutant phenotype
(assigned by UniProt )
(Bartoszewski et al., 2004)
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport
inferred from mutant phenotype
(Port et al., 2011)
involved_in wing disc development
inferred from mutant phenotype
(Port et al., 2011)
involved_in Wnt protein secretion
inferred from mutant phenotype
(Port et al., 2011)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport
inferred from biological aspect of ancestor with PANTHER:PTN000516376
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in Golgi organization
inferred from biological aspect of ancestor with PANTHER:PTN000516376
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in Golgi vesicle transport
inferred from sequence model
(Carney and Bowen, 2004)
involved_in intracellular protein transport
inferred from biological aspect of ancestor with PANTHER:PTN000516376
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (6 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in endomembrane system
inferred from high throughput direct assay
(Tan et al., 2009)
Terms Based on Predictions or Assertions (5 terms)
CV Term
Evidence
References
is_active_in COPII-coated ER to Golgi transport vesicle
inferred from biological aspect of ancestor with PANTHER:PTN000516376
(assigned by GO_Central )
(Gaudet et al., 2011)
is_active_in endoplasmic reticulum-Golgi intermediate compartment
inferred from biological aspect of ancestor with PANTHER:PTN000516376
(assigned by GO_Central )
(Gaudet et al., 2011)
is_active_in endoplasmic reticulum
inferred from biological aspect of ancestor with PANTHER:PTN000516376
(assigned by GO_Central )
(Gaudet et al., 2011)
is_active_in Golgi apparatus
inferred from biological aspect of ancestor with PANTHER:PTN000516376
(assigned by GO_Central )
(Gaudet et al., 2011)
located_in integral component of membrane
inferred from sequence model
(Carney and Bowen, 2004)
Gene Group (FlyBase)
Pathway (FlyBase)
Protein Family (UniProt)
Belongs to the EMP24/GP25L family. (Q9I7K5)
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
P24 TRANSPORTERS -
p24 proteins are single-pass type-I membrane proteins which are components of the COPI and COPII coated vesicles that mediate intracellular trafficking between the ER and Golgi. Their function in trafficking is unclear; they may be involved in cargo selection, quality control or vesicle formation. (Adapted from FBrf0174396 and FBrf0219054).
Pathway (FlyBase)
Wnt Production -
The Wnt-TCF (canonical Wnt) signaling pathway can be regulated upstream by the regulation of biogenesis and secretion of Wnt ligand. Genes within this group are directly involved in or have been shown to regulate this process.
Protein Function (UniProtKB)
Eca and bai are essential, though not redundant, for dorsoventral patterning of the embryo. Specifically required during early embryogenesis for the activity of maternal tkv, while the zygotic tkv is not affected. Involved in Golgi organization.
(UniProt, Q9I7K5)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\eca 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 New Section
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q9I7K5)

If you don't see the viewer to the right, 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.

Comments on Gene Model

Gene model reviewed during 5.39

Gene model reviewed during 5.46

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
eca-RA
FBtr0082098
NM_176439
946
216
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
eca-PA
FBpp0081576
25.2
216
7.05
NP_788616
AAG22137
Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

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\eca using the Feature Mapper tool.

External Data
Crossreferences
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
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage | female
adult brain
(Saleem et al., 2012)
adult ventral nerve cord
(Saleem et al., 2012)
adult fat body
(Saleem et al., 2012)
female accessory gland
(Saleem et al., 2012)
spermatheca
(Saleem et al., 2012)
egg chamber
(Saleem et al., 2012)
adult stage | male
adult fat body
(Saleem et al., 2012)
male accessory gland
(Saleem et al., 2012)
ejaculatory duct
(Saleem et al., 2012)
ejaculatory bulb
(Saleem et al., 2012)
seminal vesicle
(Saleem et al., 2012)
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
Additional Descriptive Data

In the adult brain, a subset of neurons labelled with eca protein co-express the peptidergic marker Scer\GAL4dimm-929.

(Saleem et al., 2012)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in endomembrane system
inferred from high throughput direct assay
(Tan et al., 2009)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\eca in GBrowse 2
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
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
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
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 6 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 8 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of eca
Transgenic constructs containing regulatory region of eca
Aberrations (Deficiencies and Duplications) ( 4 )
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (4)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\TMED4
14 of 15
Yes
Yes
Hsap\TMED9
12 of 15
No
Yes
Hsap\TICAM2
1 of 15
No
No
1  
Hsap\TMED10
1 of 15
No
No
1  
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (5)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Tmed4
14 of 15
Yes
Yes
Mmus\Tmed9
12 of 15
No
Yes
Mmus\Tmed11
6 of 15
No
Yes
Mmus\Ticam2
1 of 15
No
Yes
Mmus\Tmed10
1 of 15
No
No
Rattus norvegicus (Norway rat) (5)
Rnor\Tmed4
12 of 13
Yes
Yes
Rnor\Tmed9
11 of 13
No
Yes
Rnor\Tmed11
7 of 13
No
Yes
Rnor\Ticam2
1 of 13
No
Yes
Rnor\Tmed10
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (5)
Xtro\tmed4
9 of 12
Yes
Yes
Xtro\tmed9
7 of 12
No
Yes
Xtro\gp25l
2 of 12
No
Yes
Xtro\tmed10
1 of 12
No
No
Xtro\tmed10
1 of 12
No
No
Danio rerio (Zebrafish) (4)
Drer\tmed4
11 of 15
Yes
Yes
Drer\tmed9
10 of 15
No
Yes
Drer\si:ch211-255i20.3
6 of 15
No
Yes
Drer\tmed10
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (4)
Cele\tmed-4
13 of 15
Yes
Yes
Cele\tmed-12
6 of 15
No
Yes
Cele\C26C6.9
1 of 15
No
Yes
Cele\tmed-10
1 of 15
No
No
Arabidopsis thaliana (thale-cress) (10)
Atha\AT1G14010
4 of 9
Yes
No
Atha\AT1G26690
4 of 9
Yes
No
Atha\AT1G57620
4 of 9
Yes
No
Atha\AT1G69460
4 of 9
Yes
No
Atha\AT2G03290
4 of 9
Yes
No
Atha\AT3G29070
4 of 9
Yes
No
Atha\AT1G09580
3 of 9
No
No
Atha\AT2G03040
3 of 9
No
Yes
Atha\AT3G10780
3 of 9
No
No
Atha\p24delta5
3 of 9
No
No
Saccharomyces cerevisiae (Brewer's yeast) (5)
Scer\ERP1
12 of 15
Yes
Yes
Scer\ERP6
11 of 15
No
Yes
Scer\ERP5
9 of 15
No
Yes
Scer\EMP24
1 of 15
No
No
Scer\ERV25
1 of 15
No
No
Schizosaccharomyces pombe (Fission yeast) (2)
Spom\SPBC16E9.09c
11 of 12
Yes
Yes
Spom\erv25
1 of 12
No
No
Other Organism Orthologs (via OrthoDB)
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (8)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
p24-2
7 of 10
bai
3 of 10
CG9308
2 of 10
CG31787
2 of 10
CHOp24
2 of 10
loj
2 of 10
opm
2 of 10
p24-1
2 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 ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    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.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    TMED4; transmembrane p24 trafficking protein 4
    14 of 15
    612038
        TMED9; transmembrane p24 trafficking protein 9
        12 of 15
            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
            View in Interactions Browser
            Please see the Physical Interaction reports below for full details
            protein-protein
            Physical Interaction
            Assay
            References
            eca - Rab23
            anti tag coimmunoprecipitation, peptide massfingerprinting
            (Çiçek et al., 2016)
            Summary of Genetic Interactions
            esyN Network Diagram
            esyN Network Key:
            Suppression
            Enhancement
            View in Interactions Browser
            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
            dl
            suppressible
            eca
            (Bartoszewski et al., 2004)
            H
            enhanceable
            eca
            (Müller et al., 2005)
            wg
            suppressible
            eca
            (Port et al., 2011)
            External Data
            Linkouts
            BioGRID - A database of protein and genetic interactions.
            DroID - A comprehensive database of gene and protein interactions.
            MIST (protein-protein) - An integrated Molecular Interaction Database
            Pathways
            Signaling Pathways (FlyBase)
            Wnt Production -
            The Wnt-TCF (canonical Wnt) signaling pathway can be regulated upstream by the regulation of biogenesis and secretion of Wnt ligand. Genes within this group are directly involved in or have been shown to regulate this process.
            Metabolic Pathways
            External Data
            Linkouts
            Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
            Genomic Location and Detailed Mapping Data
            Chromosome (arm)
            3R
            Recombination map
            3-49
            Cytogenetic map
            85E4-85E4
            Sequence location
            FlyBase Computed Cytological Location
            Cytogenetic map
            Evidence for location
            85E4-85E4
            Limits computationally determined from genome sequence between P{EP}CrcEP3006 and P{lacW}s2681
            Experimentally Determined Cytological Location
            Cytogenetic map
            Notes
            References
            85E-85E
            (Luschnig et al., 2004)
            Experimentally Determined Recombination Data
            Location

            3-49

            (FlyBase, 2016)

            3-46.2

            (Comeron et al., 2012)
            Left of (cM)
            Right of (cM)
            Notes
            Stocks and Reagents
            Stocks (6)
            Genomic Clones (10)
             

            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 GBrowse 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
              DRSC - Results frm RNAi screens
              GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
              Antibody Information
              Laboratory Generated Antibodies
               

              polyclonal

              (Saleem et al., 2012)
              Commercially Available Antibodies
               
              Other Information
              Relationship to Other Genes
              Source for database identify of
              Source for database merge of

              Source for merge of: CG33104 eca

              (Bartoszewski et al., 2004)
              Additional comments

              Annotation CG9443 split into CG33104, CG33105 in release 3 of the genome annotation.

              (FlyBase Genome Annotators, 2002-2003)
              Other Comments
              Origin and Etymology
              Discoverer
              Etymology
              Identification
              External Crossreferences and Linkouts ( 36 )
              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/Swiss-Prot - Manually annotated and reviewed 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.
              BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
              Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
              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
              Flygut - An atlas of the Drosophila adult midgut
              GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
              iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
              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)
              modMine - A data warehouse for the modENCODE project
              Linkouts
              BioGRID - A database of protein and genetic interactions.
              DroID - A comprehensive database of gene and protein interactions.
              DRSC - Results frm RNAi screens
              FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
              FlyMine - An integrated database for Drosophila genomics
              MIST (protein-protein) - An integrated Molecular Interaction Database
              Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
              Synonyms and Secondary IDs (8)
              Datasets (8)
              Study focus (0)
              Experimental Role
              Project
              Project Type
              Title
              Study result (8)
              Result
              Result Type
              Title
              scRNAseq_2020_Cattenoz_NI_seq_clustering
              Clustering analysis of hemocytes from non-infested third instar larvae
              scRNAseq_2020_Cattenoz_WI_seq_clustering
              Clustering analysis of hemocytes from wasp-infested third instar larvae
              scRNAseq_2020_Cho_NI72LG_seq_clustering
              Clustering analysis of lymph gland cells from non-infested larvae at 72 h after egg-laying
              scRNAseq_2020_Cho_NI96LG_seq_clustering
              Clustering analysis of lymph gland cells from non-infested larvae at 96 h after egg-laying
              scRNAseq_2020_Cho_NI120LG_seq_clustering
              Clustering analysis of lymph gland cells from non-infested larvae at 120 h after egg-laying
              scRNAseq_2020_Cho_WI96LG_seq_clustering
              Clustering analysis of lymph gland cells from wasp-infested larvae at 96 h after egg-laying
              scRNAseq_2020_Cho_NI96HL_seq_clustering
              Clustering analysis of circulating hemocytes from non-infested larvae at 96 h after egg-laying
              scRNAseq_2020_Cho_NI120HL_seq_clustering
              Clustering analysis of circulating hemocytes from non-infested larvae at 120 h after egg-laying
              References (49)