FB2024_03 , released June 25, 2024
Gene: Dmel\eIF1A
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General Information
Symbol
Dmel\eIF1A
Species
D. melanogaster
Name
eukaryotic translation initiation factor 1A
Annotation Symbol
CG8053
Feature Type
FlyBase ID
FBgn0026250
Gene Model Status
Stock Availability
Gene Summary
eukaryotic translation initiation factor 1A (eIF1A) encodes a protein required for mRNA translation. It is involved in 43S pre-initiation complex assembly, ensuring correct AUG start codon selection, and its dissociation from the 40S ribosome subunit is considered crucial for start codon recognition. [Date last reviewed: 2018-10-18] (FlyBase Gene Snapshot)
Also Known As

eIF-1A, Eukaryotic initiation factor 1A, eIF-4c, anon- EST:Liang-2.3 , lincRNA.S7087

Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
3-63
RefSeq locus
NT_033777 REGION:18274665..18283005
Sequence
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
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 RNA binding
inferred from electronic annotation with InterPro:IPR006196
inferred from sequence or structural similarity
inferred from biological aspect of ancestor with PANTHER:PTN000494875
Biological Process (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000494875
inferred from sequence or structural similarity
involved_in translation
inferred from sequence or structural similarity
Cellular Component (4 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
located_in cytosol
inferred from high throughput direct assay
located_in nucleoplasm
inferred from high throughput direct assay
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
is_active_in cytoplasm
inferred from biological aspect of ancestor with PANTHER:PTN000494875
located_in cytosol
inferred from sequence or structural similarity
inferred from sequence or structural similarity
Protein Family (UniProt)
-
Summaries
Gene Snapshot
eukaryotic translation initiation factor 1A (eIF1A) encodes a protein required for mRNA translation. It is involved in 43S pre-initiation complex assembly, ensuring correct AUG start codon selection, and its dissociation from the 40S ribosome subunit is considered crucial for start codon recognition. [Date last reviewed: 2018-10-18]
Gene Group (FlyBase)
CYTOPLASMIC TRANSLATION INITIATION FACTORS -
Cytoplasmic (or eukaryotic) translation initiation factors function in the initiation stage of ribosome-mediated translation in the cytoplasm. (Adapted from FBrf0233552 and PMID:20094052).
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\eIF1A 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 Q9VEA1)

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 5.52

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

Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0083572
1158
148
FBtr0083573
1199
148
FBtr0343927
1646
148
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
FBpp0082994
17.1
148
4.85
FBpp0089421
17.1
148
4.85
Polypeptides with Identical Sequences

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

148 aa isoforms: eIF1A-PA, eIF1A-PB, eIF1A-PC
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Linkouts
Sequences Consistent with the Gene Model
Nucleotide / Polypeptide Records
 
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\eIF1A 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).

0.93

Transcript Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in cytosol
inferred from high throughput direct assay
located_in nucleoplasm
inferred from high throughput direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\eIF1A in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
Flygut - An atlas of the Drosophila adult midgut
Images
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 12 )
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 eIF1A
Transgenic constructs containing regulatory region of eIF1A
Aberrations (Deficiencies and Duplications) ( 5 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (3)
13 of 14
Yes
Yes
13 of 14
Yes
Yes
1 of 14
No
No
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (3)
14 of 14
Yes
Yes
13 of 14
No
Yes
1 of 14
No
No
Mus musculus (laboratory mouse) (21)
14 of 14
Yes
Yes
13 of 14
No
Yes
13 of 14
No
Yes
13 of 14
No
Yes
13 of 14
No
Yes
13 of 14
No
Yes
13 of 14
No
Yes
12 of 14
No
Yes
12 of 14
No
Yes
12 of 14
No
Yes
10 of 14
No
Yes
10 of 14
No
Yes
9 of 14
No
Yes
9 of 14
No
Yes
9 of 14
No
Yes
9 of 14
No
Yes
9 of 14
No
Yes
9 of 14
No
Yes
1 of 14
No
Yes
1 of 14
No
Yes
1 of 14
No
No
Xenopus tropicalis (Western clawed frog) (2)
10 of 13
Yes
Yes
1 of 13
No
No
Danio rerio (Zebrafish) (3)
14 of 14
Yes
Yes
12 of 14
No
Yes
1 of 14
No
No
Caenorhabditis elegans (Nematode, roundworm) (2)
13 of 14
Yes
Yes
1 of 14
No
No
Anopheles gambiae (African malaria mosquito) (2)
12 of 12
Yes
Yes
Arabidopsis thaliana (thale-cress) (5)
12 of 13
Yes
Yes
12 of 13
Yes
Yes
1 of 13
No
No
1 of 13
No
Yes
1 of 13
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
12 of 13
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (2)
11 of 12
Yes
Yes
1 of 12
No
No
Escherichia coli (enterobacterium) (1)
1 of 11
Yes
Yes
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:eIF1A. Refer to their site for version information.
Paralogs
Paralogs (via DIOPT v9.1)
Drosophila melanogaster (Fruit fly) (1)
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 ( 7 )
    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?
    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
    Summary of Genetic Interactions
    esyN Network Diagram
    Show/hide secondary interactors 
    (data from AllianceMine provided by esyN)
    esyN Network Key:
    Suppression
    Enhancement
    Other Interaction Browsers

    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
    External Data
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3R
    Recombination map
    3-63
    Cytogenetic map
    Sequence location
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    91A1-91A1
    Limits computationally determined from genome sequence between P{EP}cpoEP3679 and P{EP}Dlc90FEP3634
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Cytological location determined by hybridization to cytologically mapped P1 clones.
    Map location based on hybridisation to P1 clones.
    Experimentally Determined Recombination Data
    Notes
    Stocks and Reagents
    Stocks (14)
    Genomic Clones (19)
     
    cDNA Clones (173)
     

    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)
    RNAi and Array Information
    Linkouts
    DRSC - Results frm RNAi screens
    Antibody Information
    Laboratory Generated Antibodies
     
    Commercially Available Antibodies
     
    Cell Line Information
    Publicly Available Cell Lines
     
      Other Stable Cell Lines
       
        Other Comments

        RNAi screen using dsRNA made from templates generated with primers directed against this gene results in aberrantly short, monopolar spindles when assayed in S2 cells. This phenotype can be observed when the screen is performed with or without Cdc27 dsRNA.

        S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.

        Identification: in a subtractive hybridisation screen for genes that are transcriptionally activated by hop.

        Relationship to Other Genes
        Source for database merge of

        Source for merge of: eIF-4A anon- EST:Liang-2.3

        Source for merge of: eIF-1A anon- EST:Posey4

        Source for merge of: eIF-1A EP935

        Additional comments

        Source for merge of eIF-1A EP935 was that EP935 insertion is within eIF-1A (and in the right orientation) ( date:040519 ).

        Source for identity of eIF1A CG8053 was sequence comparison ( date:000327 ).

        Nomenclature History
        Source for database identify of

        Source for identity of: eIF-1A anon- EST:Liang-2.3

        Source for identity of: eIF1A CG8053

        Source for identity of: eIF1A eIF-1A

        Nomenclature comments
        Etymology
        Synonyms and Secondary IDs (18)
        Reported As
        Name Synonyms
        Eukaryotic initiation factor 1A
        Eukaryotic initiation factor 4c
        eukaryotic translation initiation factor 1A
        Secondary FlyBase IDs
        • FBgn0025531
        • FBgn0025959
        • FBgn0038594
        • FBgn0062638
        Datasets (0)
        Study focus (0)
        Experimental Role
        Project
        Project Type
        Title
        Study result (0)
        Result
        Result Type
        Title
        External Crossreferences and Linkouts ( 55 )
        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
        FlyMine - An integrated database for Drosophila genomics
        KEGG Genes - Molecular building blocks of life in the genomic space.
        MARRVEL_MODEL - MARRVEL (model organism gene)
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
        DroID - A comprehensive database of gene and protein interactions.
        DRSC - Results frm RNAi screens
        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
        Flygut - An atlas of the Drosophila adult midgut
        FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
        iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
        MIST (genetic) - An integrated Molecular Interaction Database
        MIST (protein-protein) - An integrated Molecular Interaction Database
        References (82)