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General Information
Symbol
Dmel\cic
Species
D. melanogaster
Name
capicua
Annotation Symbol
CG43122
Feature Type
FlyBase ID
FBgn0262582
Gene Model Status
Stock Availability
Gene Snapshot
capicua (cic) encodes an HMG-box family transcriptional repressor that serves as a general sensor of RTK signaling. cic-dependent gene silencing is alleviated by phosphorylation mediated by the product of rl, which causes the translocation of the product of cic from the nucleus to the cytoplasm. It governs gene expression in diverse processes including cell proliferation and specification. [Date last reviewed: 2019-03-07]
Also Known As
fettucine, fet, E(Dl)D49
Key Links
Genomic Location
Cytogenetic map
Sequence location
3R:20,252,770..20,303,942 [+]
Recombination map
3-68
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
GO Summary Ribbons
Protein Family (UniProt)
-
Summaries
Gene Group (FlyBase)
HIGH MOBILITY GROUP BOX TRANSCRIPTION FACTORS -
The High mobility group box (HMGB) transcription factors are sequence-specific DNA binding proteins that regulate transcription. The HMGB proteins have a characteristic L-shaped HMGB domain of about 80 amino acid residues, which binds the DNA minor groove and induce DNA bending. The HMGB domains are found in one or more copies and are involved in the regulation of DNA-dependent processes such as transcription, replication and chromatin remodeling. (Adapted from FBrf0194706, FBrf0108466, PMID:24086078 and PMID:23153957).
Pathway (FlyBase)
Epidermal Growth Factor Receptor Signaling Pathway Core Components -
The Epidermal Growth Factor Receptor (EGFR) signaling pathway is used multiple times during development (FBrf0190321). It is activated by the binding of a secreted ligand to the receptor tyrosine kinase Egfr and acts via the canonical Ras/Raf/MAP kinase (ERK) cascade. (Adapted from FBrf0190321 and FBrf0221727).
Torso Signaling Pathway Core Components -
The formation of Drosophila embryonic termini is controlled by the localized activation of Torso (tor) receptor tyrosine kinase. The Torso signaling pathway acts via the canonical Ras/Raf/MAP kinase cascade. (Adapted from FBrf0157176.)
Protein Function (UniProtKB)
Transcriptional repressor required for the specification of numerous cell types during embryonic development. Required for terminal patterning of early embryos. May associate with gro to repress tll and hkb, restricting their expression to embryonic terminal poles where they initiate correct development of head and tail structures. Required for dorsoventral patterning of oocytes and early embryos. Cooperates with dl to repress zen and other dorsal specific genes within the embryo and promotes expression of the ventralizing factor pip in ovarian follicle cells. Required during wing development for the specification of intervein areas, where it mediates localized repression of vein specific genes such as aos, dpp and vvl.
(UniProt, Q9U1H0)
Summary (Interactive Fly)
Gene Model and Products
Number of Transcripts
6
Number of Unique Polypeptides
6

Please see the GBrowse view of Dmel\cic or the JBrowse view of Dmel\cic 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
Low-frequency RNA-Seq exon junction(s) not annotated.
Annotated transcripts do not represent all supported alternative splices within 5' UTR.
Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.
Gene model reviewed during 5.47
Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated
Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0305026
5167
1403
FBtr0305027
6454
1832
FBtr0305028
5152
1427
FBtr0305029
7259
2141
FBtr0334305
10984
2150
FBtr0334306
4940
1275
Additional Transcript Data and Comments
Reported size (kB)
5.175 (sequence analysis)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
FBpp0293563
150.1
1403
9.05
FBpp0293564
195.7
1832
7.17
FBpp0293565
152.7
1427
9.05
FBpp0293566
230.6
2141
9.18
FBpp0306420
231.6
2150
9.13
FBpp0306421
136.6
1275
9.06
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)
Interacts with gro.
(UniProt, Q9U1H0)
Crossreferences
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\cic 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 (18 terms)
Molecular Function (4 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (0 terms)
Biological Process (12 terms)
Terms Based on Experimental Evidence (12 terms)
CV Term
Evidence
References
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from direct assay
inferred from genetic interaction with FLYBASE:tor; FB:FBgn0003733
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000316564
(assigned by GO_Central )
Cellular Component (2 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000316564
(assigned by GO_Central )
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
antennal primordium

Comment: reported as procephalic ectoderm primordium

central brain primordium

Comment: reported as procephalic ectoderm primordium

visual primordium

Comment: reported as procephalic ectoderm primordium

dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

Additional Descriptive Data
cic transcripts are present at high levels in early blastoderm embryos, consistent with maternal expression and decay rapidly thereafter. They are barely detectable by gastrulation.
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
cic protein is detected in the eye imaginal disc. There is a stripe of increased expression just anterior to the furrow and less within the furrow.
cic protein is present in blastoderm embryos in nuclei in the trunk region. It is absent from both poles.
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\cic 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
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 37 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 36 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of cic
Transgenic constructs containing regulatory region of cic
Deletions and Duplications ( 3 )
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) (19)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
9 of 15
Yes
Yes
1 of 15
No
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
 
1 of 15
No
No
1 of 15
No
No
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (18)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
9 of 15
Yes
Yes
1 of 15
No
No
1 of 15
No
No
 
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
Rattus norvegicus (Norway rat) (14)
6 of 13
Yes
Yes
1 of 13
No
Yes
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (7)
1 of 12
Yes
Yes
1 of 12
Yes
No
1 of 12
Yes
No
1 of 12
Yes
No
1 of 12
Yes
No
1 of 12
Yes
No
1 of 12
Yes
No
Danio rerio (Zebrafish) (18)
9 of 15
Yes
Yes
8 of 15
No
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (7)
4 of 15
Yes
Yes
1 of 15
No
Yes
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
1 of 15
No
No
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (1)
1 of 15
Yes
No
Schizosaccharomyces pombe (Fission yeast) (1)
1 of 12
Yes
No
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091900JL )
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) ( EOG0915005X )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Glossina morsitans
Tsetse fly
Lucilia cuprina
Australian sheep blowfly
Culex quinquefasciatus
Southern house mosquito
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W00XY )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Danaus plexippus
Monarch butterfly
Heliconius melpomene
Postman butterfly
Heliconius melpomene
Postman butterfly
Heliconius melpomene
Postman butterfly
Apis florea
Little honeybee
Apis mellifera
Western honey bee
Bombus impatiens
Common eastern bumble bee
Bombus terrestris
Buff-tailed bumblebee
Linepithema humile
Argentine ant
Megachile rotundata
Alfalfa leafcutting bee
Nasonia vitripennis
Parasitic wasp
Dendroctonus ponderosae
Mountain pine beetle
Tribolium castaneum
Red flour beetle
Pediculus humanus
Human body louse
Rhodnius prolixus
Kissing bug
Cimex lectularius
Bed bug
Acyrthosiphon pisum
Pea aphid
Zootermopsis nevadensis
Nevada dampwood termite
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X00W9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Strigamia maritima
European centipede
Stegodyphus mimosarum
African social velvet spider
Tetranychus urticae
Two-spotted spider mite
Daphnia pulex
Water flea
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) (8)
2 of 10
1 of 10
1 of 10
1 of 10
1 of 10
1 of 10
1 of 10
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 ( 1 )
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Comments on Models/Modifiers Based on Experimental Evidence ( 0 )
     
    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
    Subunit Structure (UniProtKB)
    Interacts with gro.
    (UniProt, Q9U1H0 )
    Linkouts
    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
    Gene Group - Pathway Membership (FlyBase)
    Epidermal Growth Factor Receptor Signaling Pathway Core Components -
    The Epidermal Growth Factor Receptor (EGFR) signaling pathway is used multiple times during development (FBrf0190321). It is activated by the binding of a secreted ligand to the receptor tyrosine kinase Egfr and acts via the canonical Ras/Raf/MAP kinase (ERK) cascade. (Adapted from FBrf0190321 and FBrf0221727).
    Torso Signaling Pathway Core Components -
    The formation of Drosophila embryonic termini is controlled by the localized activation of Torso (tor) receptor tyrosine kinase. The Torso signaling pathway acts via the canonical Ras/Raf/MAP kinase cascade. (Adapted from FBrf0157176.)
    External Data
    Linkouts
    KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
    SignaLink - A signaling pathway resource with multi-layered regulatory networks.
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3R
    Recombination map
    3-68
    Cytogenetic map
    Sequence location
    3R:20,252,770..20,303,942 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    92D9-92E2
    Limits computationally determined from genome sequence between P{PZ}l(3)1058510585 and P{EP}SyndEP409
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    92D-92D
    (determined by in situ hybridisation)
    Mapped by standard recombination and deficiency tests (details unspecified).
    Experimentally Determined Recombination Data
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (28)
    Genomic Clones (42)
    cDNA Clones (65)
     

    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)
    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 identity of: cic fet
    Source for database merge of
    Source for merge of: cic CG5067
    Source for merge of: E(Dl)D49 cic
    Source for merge of: cic CG5060
    Additional comments
    Annotations CG5067 and CG5060 merged as CG43122 in release 5.32 of the genome annotation.
    "hab" is allelic to "cic" and "bwk". This locus is genetically and molecularly complex, encoding distinct genetic functions and producing multiple isoforms.
    Molecular analysis indicates that the "fet" and "cic" mutations are allelic (mutant lesions responsible for "fet" mutations are located in the open reading frame of the "cic" gene, and a "cic" rescue construct rescues the maternal and zygotic "fet" phenotypes). cic1/cicfet-U6 females produce embryos with a tor gain-of-function phenotype, indicating that both alleles affect the same germline function. However, cic1 complements the follicle cell defect of "fet" mutants, as eggs laid by transheterozygous females show apparently normal dorsoventral polarity of the eggshell and embryo. The relationship between "cic" (and therefore "fet") and "bwk" is unclear. "bwk" alleles complement the "fet" eggshell and wing defects, while the embryos laid by "fet"/"bwk" transheterozygotes are bicaudal (maternal effect "bwk" mutations result in bicaudal embryos).
    The P{PZ} insertion in "bwk08482" maps approximately 300bp away from the hobo insertion in "cic1". However, "cic1" and "bwk08482" complement each other, produce different phenotypes and while the P{cic+tJa} construct rescues "cic1", it does not rescue "bwk08482", indicating that "bwk" and cic represent separate gene functions.
    Other Comments
    New annotation (CG43122) in release 5.32 of the genome annotation.
    cic represses appendage-producing follicle cell fate during development.
    cic acts as a repressor of terminal genes regulated by the tor pathway. cic also mediates repression along the dorsoventral axis, a process mediated by dl and gro.
    cic acts downstream of the tor phosphorylation cascade.
    Mutant embryos form head and tail structures but lack most of the segmented trunk.
    Identification: fettucine was originally isolated by D. Morisato as a dominant suppressor of spzDom.
    A screen that identified Dominant enhancers of the wing phenotype associated with Dl9P and DlFE32 identified this E(Dl) locus.
    Origin and Etymology
    Discoverer
    Etymology
    The gene is named "capicua", Catalan for "head-and-tail", after the phenotype of embryos produced by homozygous females (they form head and tail structures but lack most of the segmented trunk).
    "capicua" is Catalonian for "head-and-tail".
    Identification
    External Crossreferences and Linkouts ( 72 )
    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 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/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
    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.
    Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
    KEGG Genes - Molecular building blocks of life in the genomic space.
    KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
    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
    Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
    KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Synonyms and Secondary IDs (14)
    Reported As
    Symbol Synonym
    Secondary FlyBase IDs
    • FBgn0028386
    • FBgn0010023
    • FBgn0038782
    • FBgn0038780
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (169)