FB2020_01, released Feb 12, 2020

Gene: Dmel\eIF5B

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General Information
Symbol
Dmel\eIF5B
Species
D. melanogaster
Name
eukaryotic translation initiation factor 5B
Annotation Symbol
CG10840
Feature Type
protein_coding_gene
FlyBase ID
FBgn0026259
Gene Model Status
Current
Stock Availability
14 publicly available
Gene Snapshot
In progress.Contributions welcome.
Other Summaries
Also Known As

cIF2, dIF2, IF2, eukaryotic initiation factor 5B, cytoplasmic Initiation Factor 2

Key Links
Genomic Location
Cytogenetic map
63E1-63E1
Sequence location
3L:3,428,658..3,460,977 [-]
Recombination map

3-8

RefSeq locus
NT_037436 REGION:3428658..3460977
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 Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
protein binding
Predictions / Assertions
DEAD/H-box RNA helicase binding; GTP binding; GTPase activity; translation initiation factor activity
Summaries
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
5
Number of Unique Polypeptides
3

Please see the GBrowse view of Dmel\eIF5B or the JBrowse view of Dmel\eIF5B 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
Comments on Gene Model

Gene model reviewed during 5.41

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

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

Gene model reviewed during 5.50

Sequence Ontology: Class of Gene
gene_with_edited_transcript
(Graveley et al., 2011)
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
eIF5B-RB
FBtr0073144
NM_143717
4107
1144
eIF5B-RC
FBtr0309836
NM_001259670
4378
1144
eIF5B-RD
FBtr0309837
NM_001259671
3952
1090
eIF5B-RE
FBtr0309838
NM_001259672
4006
1108
eIF5B-RF
FBtr0309839
NM_001259673
4403
1144
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
eIF5B-PB
FBpp0073003
127.2
1144
5.17
NP_651974
AAF47774
eIF5B-PC
FBpp0301570
127.2
1144
5.17
NP_001246599
AFH04270
eIF5B-PD
FBpp0301571
121.1
1090
5.15
NP_001246600
AFH04271
eIF5B-PE
FBpp0301572
123.3
1108
5.16
NP_001246601
AFH04272
eIF5B-PF
FBpp0301573
127.2
1144
5.17
NP_001246602
AFH04273
Polypeptides with Identical Sequences

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

1144 aa isoforms: eIF5B-PB, eIF5B-PC, eIF5B-PF
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
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\eIF5B using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (8 terms)
Molecular Function (5 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
protein binding
inferred from physical interaction with UniProtKB:P09052
(assigned by UniProt )
(Carrera et al., 2000)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
DEAD/H-box RNA helicase binding
traceable author statement
(Johnstone and Lasko, 2001)
GTP binding
inferred from electronic annotation with InterPro:IPR000795, InterPro:IPR004161, InterPro:IPR005225
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
GTPase activity
inferred from electronic annotation with InterPro:IPR000795
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
translation initiation factor activity
inferred from biological aspect of ancestor with PANTHER:PTN000561881
(assigned by GO_Central )
(Gaudet et al., 2011)
inferred from sequence or structural similarity
(Lasko, 2000)
Biological Process (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
translational initiation
inferred from sequence or structural similarity
(Lasko, 2000)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
cytosol
inferred from high throughput direct assay
(Lye et al., 2014)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
cytoplasm
inferred from sequence or structural similarity
(Lasko, 2000)
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
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
cytosol
inferred from high throughput direct assay
(Lye et al., 2014)
Expression Deduced from Reporters
Reporter: PBac{768.FSVS-0}eIF5BCPTI003501
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult brain cell body rind

Comment: punctate expression in adult brain cortex

(Knowles-Barley, 2011.8.24)
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\eIF5B 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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 14 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 5 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of eIF5B
Transgenic constructs containing regulatory region of eIF5B
Deletions and Duplications ( 6 )
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (1)
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\EIF5B
12 of 15
Yes
Yes
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (1)
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\Eif5b
12 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
Rnor\Eif5b
10 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\eif5b
4 of 12
Yes
Yes
Xtro\hbs1l
1 of 12
No
No
Danio rerio (Zebrafish) (1)
Drer\eif5b
10 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\iffb-1
12 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (5)
Atha\AT1G21160
8 of 9
Yes
Yes
Atha\AT1G76720
8 of 9
Yes
Yes
Atha\AT1G76810
6 of 9
No
Yes
Atha\AT1G76820
6 of 9
No
Yes
Atha\AT2G27700
5 of 9
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\FUN12
12 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\SPAC56F8.03
9 of 12
Yes
Yes
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091903ZC )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Dmel\eIF5B
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00007839
Drosophila simulans
Dsim\GD13328
Drosophila sechellia
Dsec\GM14051
Drosophila erecta
Dere\GG14257
Drosophila yakuba
Dyak\GE20685
Drosophila ananassae
Dana\GF10267
Drosophila pseudoobscura pseudoobscura
Dpse\GA10589
Drosophila persimilis
Dper\GL13259
Drosophila willistoni
Dwil\GK20375
Drosophila virilis
Dvir\GJ13104
Drosophila mojavensis
Dmoj\GI12960
Drosophila grimshawi
Dgri\GH15356
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG0915040X )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17006465
Musca domestica
House fly
Mdoa\17006832
Glossina morsitans
Tsetse fly
Gmor\GMOY002327
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_10990
Mayetiola destructor
Hessian fly
Mdes\Mdes002744
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL009241
Anopheles darlingi
American malaria mosquito
Adar\ADAC010464
Anopheles gambiae
Malaria mosquito
Agam\AGAP004824
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ015682
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0MPA )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA001265
Danaus plexippus
Monarch butterfly
Dple\DPOGS205159-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL003611
Heliconius melpomene
Postman butterfly
Hmel\HMEL009831
Apis florea
Little honeybee
Aflo\2262004036
Apis mellifera
Western honey bee
Amel\GB51257
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP20106
Bombus terrestris
Buff-tailed bumblebee
Bter\15205929
Linepithema humile
Argentine ant
Lhum\LH26135
Linepithema humile
Argentine ant
Lhum\LH14933
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:00068f
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG012245
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_04484
Tribolium castaneum
Red flour beetle
Tcas\GLEAN_07444
Pediculus humanus
Human body louse
Phum\PHUM409240
Pediculus humanus
Human body louse
Phum\PHUM506500
Rhodnius prolixus
Kissing bug
Rpro\RPRC001448
Cimex lectularius
Bed bug
Clec\CLEC012286
Cimex lectularius
Bed bug
Clec\CLEC012285
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI007156
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_07251
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0EG1 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR015134
Strigamia maritima
European centipede
Smar\SMAR004680
Ixodes scapularis
Black-legged tick
Isca\ISCW009538
Stegodyphus mimosarum
African social velvet spider
Smim\KFM78349.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM66345.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur21g00400
Tetranychus urticae
Two-spotted spider mite
Turt\tetur21g00390
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_205517
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G114V )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Eif5B_1
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Eif5bL
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Eif5B_2
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Eif5B
Gallus gallus
Domestic chicken
Ggal\EIF5B
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v7.1)
Drosophila melanogaster (Fruit fly) (1)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
mIF2
1 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 v7.1 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?
    EIF5B; eukaryotic translation initiation factor 5B
    12 of 15
    606086
        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
        eIF5B - rictor
        anti tag coimmunoprecipitation, Identification by mass spectrometry
        (Vinayagam et al., 2016)
        eIF5B - vas
        two hybrid, pull down, anti tag western blot
        (Dehghani and Lasko, 2016, Johnstone and Lasko, 2004, Carrera et al., 2000)
        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
        vas
        enhanceable
        eIF5B
        (Carrera et al., 2000)
        External Data
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        DroID - A comprehensive database of gene and protein interactions.
        InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Pathways
        Signaling Pathways (FlyBase)
        Metabolic Pathways
        External Data
        Linkouts
        KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        3L
        Recombination map

        3-8

        Cytogenetic map
        63E1-63E1
        Sequence location
        3L:3,428,658..3,460,977 [-]
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        63E1-63E1
        Limits computationally determined from genome sequence between P{PZ}kst01318 and P{PZ}Sc205634
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        63D-63D
        (Carrera, 1999.4.14)
        63D2-63D3
        (Lasko, 1999.3.3)
        Experimentally Determined Recombination Data
        Location

        3-8

        (FlyBase, 2016)

        3-6.9

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (14)
        Genomic Clones (30)
        cDNA Clones (77)
         

        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 sequences
        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
         
        Commercially Available Antibodies
         
        Other Information
        Relationship to Other Genes
        Source for database identify of
        Source for database merge of

        Source for merge of: cIF2 CG10840

        (Bayraktaroglu, 2000.8.7)

        Source for merge of: eIF5B anon-WO0118547.362

        (FlyBase, 1996-)

        Source for merge of: cIF2 CG14970

        (FlyBase Genome Annotators, 2002-2003)
        Additional comments

        Annotations CG10840 and CG14970 merged as CG10840 in release 3 of the genome annotation.

        (FlyBase Genome Annotators, 2002-2003)

        Source for merge of eIF5B anon-WO0118547.362 was sequence comparison ( date:051113 ).

        (FlyBase, 1996-)
        Other Comments

        Area matching Drosophila EST AA803203. Probable intron in gene represented by EST AA803203.

        (Davies, 2001.3.15)

        Identification: Protein that interacts with vas protein in a yeast two-hybrid assay.

        (Johnstone et al., 1999)

        Mutations in eIF5B are recessive lethal. Ovaries derived from homozygous germ line clones contain fewer egg chambers than normal, and those egg chambers that do form often have too many nurse cells and two oocytes.

        (Johnstone et al., 1999)
        Origin and Etymology
        Discoverer
        Etymology
        Identification
        External Crossreferences and Linkouts ( 56 )
        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/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
        Other crossreferences
        Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
        Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
        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
        InterPro - A database of protein families, domains and functional sites
        KEGG Genes - Molecular building blocks of life in the genomic space.
        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
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
        FlyMine - An integrated database for Drosophila genomics
        InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
        KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
        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 (13)
        Datasets (0)
        Study focus (0)
        Experimental Role
        Project
        Project Type
        Title
        References (82)