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General Information
Symbol
Dmel\upd3
Species
D. melanogaster
Name
unpaired 3
Annotation Symbol
CG33542
Feature Type
FlyBase ID
FBgn0053542
Gene Model Status
Stock Availability
Gene Snapshot
unpaired 3 (upd3) encodes a "cytokine" (secreted protein) of the Unpaired family that can bind and activate the JAK-STAT receptor encoded by dome. It is induced in hemocytes or in the intestine upon damage to regulate the repair response in these tissues through JAK-STAT activation. [Date last reviewed: 2019-03-21]
Also Known As

os, Upd, upd-3, Upd-like, outstretched

Key Links
Genomic Location
Cytogenetic map
Sequence location
X:18,277,233..18,284,596 [+]
Recombination map

1-60

RefSeq locus
NC_004354 REGION:18277233..18284596
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
GO Summary Ribbons
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
Predictions / Assertions
-
Summaries
Gene Group (FlyBase)
UNPAIRED FAMILY -
The Unpaired (UPD) family encodes the only known cytokines capable of activating the JAK/STAT pathway in D.mel, by binding the receptor dome. This pathway is involved in cell proliferation, embryonic development and stem cell maintenance. (Adapted from FBrf0232479, FBrf0213113 and FBrf0219535).
Pathway (FlyBase)
JAK-STAT Signaling Pathway Core Components -
The JAK-STAT signaling pathway is initiated by the binding of an extracellular ligand to a cell surface receptor leading to receptor dimerization and the intracellular activation of a Janus kinase (JAK) family member. JAK phosphorylates cytoplasmic STAT family members which dimerize, translocate into the nucleus and regulate target gene expression. In Drosophila, the core pathway is limited to three ligands (the Unpaired family of cytokines), a single receptor (dome), JAK kinase (hop) and STAT (Stat92E). (Adapted from FBrf0225259).
Summary (Interactive Fly)

interleukin-like ligands of Domeless - activators of JAK/STAT signaling pathway - mutation results in the stripe-specific loss of expression of , , and

Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the GBrowse view of Dmel\upd3 or the JBrowse view of Dmel\upd3 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 5.53

Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0113465
2221
401
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
FBpp0112376
45.6
401
11.46
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
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\upd3 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 (11 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (0 terms)
Biological Process (9 terms)
Terms Based on Experimental Evidence (7 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from electronic annotation with InterPro:IPR031901
(assigned by InterPro )
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from sequence model
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
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
RT-PCR
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data

upd3 transcript is expressed in the medullary zone and posterior signalling centre of the lymph gland primary lobe, and in scattered cells in the cortical zone.

upd3 is expressed in the gonad at stage 13 when the gonad has just coalesced and later refines anteriorly in the gonad.

upd3 is also expressed in adult hemocytes in response to bacterial challenge.

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

GBrowse - Visual display of RNA-Seq signals

View Dmel\upd3 in GBrowse 2
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
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Flygut - An atlas of the Drosophila adult midgut
Images
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 13 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 22 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of upd3
Transgenic constructs containing regulatory region of upd3
Deletions and Duplications ( 5 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
Sterility
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (0)
No records found.
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (0)
No records found.
Rattus norvegicus (Norway rat) (0)
No records found.
Xenopus tropicalis (Western clawed frog) (0)
No records found.
Danio rerio (Zebrafish) (0)
No records found.
Caenorhabditis elegans (Nematode, roundworm) (0)
No records found.
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190B4X )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Drosophila suzukii
Spotted wing Drosophila
Drosophila simulans
Drosophila sechellia
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila persimilis
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Drosophila grimshawi
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( None identified )
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
No non-Arthropod Metazoa orthologies identified
Paralogs
Paralogs (via DIOPT v7.1)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 1 )
    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?
    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

    Please see the Physical Interaction reports below for full details
    RNA-RNA
    Physical Interaction
    Assay
    References
    protein-protein
    Physical Interaction
    Assay
    References
    Summary of Genetic Interactions
    esyN Network Diagram
    esyN Network Key:
    Suppression
    Enhancement

    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
    DroID - A comprehensive database of gene and protein interactions.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    JAK-STAT Signaling Pathway Core Components -
    The JAK-STAT signaling pathway is initiated by the binding of an extracellular ligand to a cell surface receptor leading to receptor dimerization and the intracellular activation of a Janus kinase (JAK) family member. JAK phosphorylates cytoplasmic STAT family members which dimerize, translocate into the nucleus and regulate target gene expression. In Drosophila, the core pathway is limited to three ligands (the Unpaired family of cytokines), a single receptor (dome), JAK kinase (hop) and STAT (Stat92E). (Adapted from FBrf0225259).
    Metabolic Pathways
    External Data
    Linkouts
    KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    X
    Recombination map

    1-60

    Cytogenetic map
    Sequence location
    X:18,277,233..18,284,596 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    17A4-17A4
    Limits computationally determined from genome sequence between P{EP}ari-1EP317 and P{EP}EP1378
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (35)
    Genomic Clones (16)
     

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

    cDNA Clones (3)
     

    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: upd3 CG5963 CG15062

        Additional comments

        Annotations CG5963 and CG15062 merged as CG33542 (which corresponds to upd3) in release 4.1 of the genome annotation.

        "upd" and "os" can be genetically separated. This raises the possibility that "os" function may reside with an "upd-like" gene ("upd2" or "upd3").

        Other Comments

        upd2 and upd3 exhibit an additive effect in inducing intestinal stem cell proliferation in response to gut infection.

        Gene expression is increased in response to the presence of two copies of Scer\GAL4hs.PB.

        Origin and Etymology
        Discoverer
        Etymology
        Identification
        External Crossreferences and Linkouts ( 31 )
        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
        BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
        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.
        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
        SignaLink - A signaling pathway resource with multi-layered regulatory networks.
        Linkouts
        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
        Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
        KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Synonyms and Secondary IDs (33)
        Reported As
        Symbol Synonym
        CG15062/CG5963
        od
        odsy
        sy
        unpaired 3
        upd3
        (Ahlers et al., 2019, Asri et al., 2019, Bailetti et al., 2019, Banerjee et al., 2019, Barik and Mishra, 2019, Gultekin and Steller, 2019, Herrera and Bach, 2019, Hill et al., 2019, Ho et al., 2019, Houtz et al., 2019, Khezri and Rusten, 2019, Mundorf et al., 2019, Nie et al., 2019, Reedy et al., 2019, Singh et al., 2019, Troha and Buchon, 2019, Xu et al., 2019, Zhang et al., 2019, Ahmed-de-Prado et al., 2018, Akagi et al., 2018, Bazzi et al., 2018, Doupé et al., 2018, Gáliková and Klepsatel, 2018, Hori et al., 2018, La Fortezza et al., 2018, Li et al., 2018, Obata et al., 2018, Prange et al., 2018, Tokusumi et al., 2018, Ueda et al., 2018, Vicente et al., 2018, Beshel et al., 2017, Katheder et al., 2017, Kenmoku et al., 2017, Lee et al., 2017, Péan et al., 2017, Takemura and Nakato, 2017, Terriente-Félix et al., 2017, Tian et al., 2017, Transgenic RNAi Project members, 2017-, Wang et al., 2017, Atkins et al., 2016, Fink et al., 2016, Guillou et al., 2016, Guo et al., 2016, Hoi et al., 2016, Shen et al., 2016, Shih et al., 2016, Tian et al., 2016, Wang et al., 2016, Doggett et al., 2015, Katsuyama et al., 2015, Külshammer et al., 2015, Santabárbara-Ruiz et al., 2015, Shapiro-Kulnane et al., 2015, Woodcock et al., 2015, Xia et al., 2015, Zang et al., 2015, Zhai et al., 2015, Chambers et al., 2014, Fernando et al., 2014, Huang et al., 2014, Kux and Pitsouli, 2014, Li et al., 2014, Wang et al., 2014, Yu et al., 2014, Aleksic et al., 2013, Djiane et al., 2013, Garcia et al., 2013, Guo et al., 2013, Kemp et al., 2013, Kingsolver et al., 2013, Morin-Poulard et al., 2013, Sinha et al., 2013, Zhou et al., 2013, Zoranovic et al., 2013, Amoyel and Bach, 2012, Chakrabarti et al., 2012, Cordero et al., 2012, Kelsey et al., 2012, Osman et al., 2012, Osman et al., 2012, Poernbacher et al., 2012, Rajan and Perrimon, 2012, Feng et al., 2011, Jiang et al., 2011, Karpac et al., 2011, Kuraishi et al., 2011, Marcu et al., 2011, Opota et al., 2011, Paredes et al., 2011, Sinenko et al., 2011, Wright et al., 2011, Beebe et al., 2010, Buchon et al., 2010, Makki et al., 2010, Shaw et al., 2010, Sotillos et al., 2010, Wu et al., 2010, Buchon et al., 2009, Buchon et al., 2009, Classen et al., 2009, Jacques et al., 2009, Liu and Lehmann, 2008, López-Onieva et al., 2008, Pastor-Pareja et al., 2008, Rivas et al., 2008, Sexton and Harrison, 2008, Wang and Harrison, 2008, Avila and Erickson, 2007, Sexton and Harrison, 2007, Wang and Harrison, 2007, Brun et al., 2006, Hombria et al., 2005, Wawersik et al., 2005)
        Secondary FlyBase IDs
        • FBgn0030909
        • FBgn0030910
        • FBgn0069074
        Datasets (0)
        Study focus (0)
        Experimental Role
        Project
        Project Type
        Title
        References (289)