Open Close
General Information
Symbol
Dmel\cnc
Species
D. melanogaster
Name
cap-n-collar
Annotation Symbol
CG43286
Feature Type
FlyBase ID
FBgn0262975
Gene Model Status
Stock Availability
Gene Snapshot
cap-n-collar (cnc) encodes cap-n-collar (cnc) encodes a transcription factor that interacts with the product of Keap1 to regulate the activation of genes by oxidative stress. The cnc-encoded product also contributes to mRNA localization mediated by microtubules, dendrite morphogenesis and intestinal stem cell homeostasis. [Date last reviewed: 2019-03-07]
Also Known As
CncC, Nrf2, Cap 'n' collar, cap and collar, l(3)03921
Key Links
Genomic Location
Cytogenetic map
Sequence location
3R:23,185,580..23,226,711 [-]
Recombination map
3-78
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
GO Summary Ribbons
Protein Family (UniProt)
Belongs to the bZIP family. CNC subfamily. (P20482)
Summaries
Gene Group (FlyBase)
BASIC LEUCINE ZIPPER TRANSCRIPTION FACTORS -
The basic leucine zipper (bZIP) transcription factors are sequence-specific DNA-binding proteins that regulate transcription. They are characterized by a 60-80 amino acid bZIP domain: a basic DNA binding domain followed by a leucine zipper dimerization domain. (Adapted from FBrf0152056).
Protein Function (UniProtKB)
Plays a role in posterior cephalic patterning. Probable subunit of a heterodimeric regulatory protein involved in the control of head morphogenesis. Isoform B may have a repressive effect on Dfd response elements, thereby modifying the activity and specificity of the Hox system and moving the body anterior/posterior axis.
(UniProt, P20482)
Summary (Interactive Fly)
Gene Model and Products
Number of Transcripts
16
Number of Unique Polypeptides
7

Please see the GBrowse view of Dmel\cnc or the JBrowse view of Dmel\cnc 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_with_stop_codon_read_through ; SO:0000697
Stop-codon suppression (UGA) postulated; FBrf0216884.
Gene model reviewed during 5.44
Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.
Annotated transcripts do not represent all supported alternative splices within 5' UTR.
Low-frequency RNA-Seq exon junction(s) not annotated.
Gene model reviewed during 5.47
Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0306747
3477
533
FBtr0306749
5180
805
FBtr0306748
6701
1383
FBtr0306746
3570
533
FBtr0306745
3550
533
FBtr0306744
3575
533
FBtr0306750
3921
533
FBtr0306751
3552
533
FBtr0306752
4750
1133
FBtr0306753
6785
1383
FBtr0306754
6954
1383
FBtr0306755
5119
1046
FBtr0308226
4737
1133
FBtr0308227
4746
1133
FBtr0330372
6701
1430
FBtr0336455
4261
711
Additional Transcript Data and Comments
Reported size (kB)
6.6, 5.4, 3.3 (northern blot)
2.722 (longest cDNA)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
FBpp0297670
56.5
533
9.06
FBpp0297672
85.2
805
7.66
FBpp0297671
147.4
1383
5.30
FBpp0297669
56.5
533
9.06
FBpp0297668
56.5
533
9.06
FBpp0297667
56.5
533
9.06
FBpp0297673
56.5
533
9.06
FBpp0297674
56.5
533
9.06
FBpp0297675
121.0
1133
6.35
FBpp0297676
147.4
1383
5.30
FBpp0297677
147.4
1383
5.30
FBpp0297678
111.6
1046
6.11
FBpp0300546
121.0
1133
6.35
FBpp0300547
121.0
1133
6.35
FBpp0303398
153.3
1430
5.49
FBpp0307561
75.5
711
7.17
Polypeptides with Identical Sequences

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

533 aa isoforms: cnc-PA, cnc-PD, cnc-PE, cnc-PF, cnc-PG, cnc-PH
1383 aa isoforms: cnc-PC, cnc-PJ, cnc-PK
1133 aa isoforms: cnc-PI, cnc-PM, cnc-PN
Additional Polypeptide Data and Comments
Reported size (kDa)
1296, 805, 533 (aa)
Comments
cnc protein shows the strongest resemblance to the jun subclass of bZIP proteins in the basic binding domain but is very divergent from this class in the leucine-repeat region.
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\cnc 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 (19 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from electronic annotation with InterPro:IPR004826, InterPro:IPR008917
(assigned by InterPro )
Biological Process (14 terms)
Terms Based on Experimental Evidence (14 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (0 terms)
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
No Assay Recorded
Stage
Tissue/Position (including subcellular localization)
Reference
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
organism

Comment: maternally deposited

organism | ubiquitous

Comment: reference states 0-2 hr AEL

antennal anlage

Comment: reported as procephalic ectoderm anlage

central brain anlage

Comment: reported as procephalic ectoderm anlage

dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

visual anlage

Comment: reported as procephalic ectoderm anlage

northern blot
Stage
Tissue/Position (including subcellular localization)
Reference

Comment: reference states 0-2 hr AEL

Comment: reference states >2 hr AEL

Additional Descriptive Data
cnc is first seen in an anterior domain and a more posterior band anterior to the cephalic furrow at embryonic stage 7. By stage 9, expression extends from the posterior of the early "cap" of expression to form a ring around the stomodeum. In the germband extended embryo, there is a continuous expression domain from the mandibular lobes extending through the hypopharyngeal primordium and expression in the labrum.
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
cnc protein is expressed only in non-dorsal/ventral boundary cells of the wing pouch. No expression is observed in the haltere disc.
Strong cnc staining is observed in the mandibular and labral segments from stage 6 on. This is presumed to be isoform B since only the mRNA for isoform B is expressed in these cells.
cnc antiserum detects a low level ubiquitous staining in syncytial embryos. From stage 6-14, staining is localized to the mandibular and labral segments. After stage 14 a low level ubiquitous staining is observed in addition to the strong staining in the mandibular and labral cells. The antibody recognizes all cnc isoforms.
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\cnc 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 ( 50 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 20 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of cnc
Transgenic constructs containing regulatory region of cnc
Deletions and Duplications ( 11 )
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) (6)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
8 of 15
Yes
Yes
7 of 15
No
Yes
6 of 15
No
Yes
5 of 15
No
Yes
1 of 15
No
Yes
1 of 15
No
No
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (6)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
7 of 15
Yes
Yes
7 of 15
Yes
Yes
5 of 15
No
Yes
5 of 15
No
Yes
1 of 15
No
Yes
1 of 15
No
Yes
Rattus norvegicus (Norway rat) (6)
5 of 13
Yes
Yes
5 of 13
Yes
Yes
5 of 13
Yes
Yes
3 of 13
No
Yes
1 of 13
No
Yes
1 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (5)
6 of 12
Yes
Yes
4 of 12
No
Yes
3 of 12
No
Yes
2 of 12
No
Yes
1 of 12
No
Yes
Danio rerio (Zebrafish) (10)
7 of 15
Yes
Yes
7 of 15
Yes
Yes
6 of 15
No
Yes
6 of 15
No
Yes
5 of 15
No
Yes
5 of 15
No
Yes
2 of 15
No
Yes
1 of 15
No
Yes
1 of 15
No
Yes
1 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (2)
2 of 15
Yes
Yes
2 of 15
Yes
Yes
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) ( EOG09190387 )
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 sechellia
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila persimilis
Drosophila persimilis
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Drosophila grimshawi
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091501TH )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Glossina morsitans
Tsetse fly
Lucilia cuprina
Australian sheep blowfly
Mayetiola destructor
Hessian fly
Aedes aegypti
Yellow fever mosquito
Aedes aegypti
Yellow fever mosquito
Anopheles darlingi
American malaria mosquito
Anopheles gambiae
Malaria mosquito
Culex quinquefasciatus
Southern house mosquito
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W01LI )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bombyx mori
Silkmoth
Heliconius melpomene
Postman butterfly
Apis florea
Little honeybee
Apis florea
Little honeybee
Apis mellifera
Western honey bee
Apis mellifera
Western honey bee
Apis mellifera
Western honey bee
Bombus impatiens
Common eastern bumble bee
Bombus impatiens
Common eastern bumble bee
Bombus terrestris
Buff-tailed bumblebee
Linepithema humile
Argentine ant
Linepithema humile
Argentine ant
Megachile rotundata
Alfalfa leafcutting bee
Megachile rotundata
Alfalfa leafcutting bee
Megachile rotundata
Alfalfa leafcutting bee
Nasonia vitripennis
Parasitic wasp
Nasonia vitripennis
Parasitic wasp
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) ( EOG090X01JN )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Strigamia maritima
European centipede
Ixodes scapularis
Black-legged tick
Stegodyphus mimosarum
African social velvet spider
Tetranychus urticae
Two-spotted spider mite
Tetranychus urticae
Two-spotted spider mite
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G02EB )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Strongylocentrotus purpuratus
Purple sea urchin
Ciona intestinalis
Vase tunicate
Ciona intestinalis
Vase tunicate
Ciona intestinalis
Vase tunicate
Gallus gallus
Domestic chicken
Gallus gallus
Domestic chicken
Gallus gallus
Domestic chicken
Gallus gallus
Domestic chicken
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 ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 1 )
    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.
    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-protein
    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 (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Gene Group - Pathway Membership (FlyBase)
    External Data
    Linkouts
    SignaLink - A signaling pathway resource with multi-layered regulatory networks.
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3R
    Recombination map
    3-78
    Cytogenetic map
    Sequence location
    3R:23,185,580..23,226,711 [-]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    94E4-94E7
    Limits computationally determined from genome sequence between P{EP}hhEP3521 and P{PZ}cnc03921; Limits computationally determined from genome sequence between P{PZ}cnc03921 and P{PZ}l(3)0690606906
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    94E3-94E7
    (determined by in situ hybridisation)
    94E3-94E4
    (determined by in situ hybridisation)
    Experimentally Determined Recombination Data
    Location
    3-81.2
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (31)
    Genomic Clones (32)
    cDNA Clones (116)
     

    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
    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: cnc anon-WO0153538.6 anon-WO0153538.7
    Source for merge of: cnc CG17894
    Source for merge of: CG13826 BcDNA:RE05559
    Source for merge of: cnc CG13826
    Additional comments
    Annotations CG17894 and CG13826 merged as CG43286 in release 5.35 of the genome annotation.
    Annotations CG4566, CG4578 and CG17894 merged as CG17894 (which corresponds to cnc) in release 3 of the genome annotation.
    Source for merge of cnc anon-WO0153538.6 anon-WO0153538.7 was sequence comparison ( date:051113 ).
    Source for merge of cnc CG17894 was a shared cDNA ( date:010720 ).
    Source for merge of CG13826 BcDNA:RE05559 was a shared cDNA ( date:030728 ).
    Other Comments
    DNA-protein interactions: genome-wide binding profile assayed for cnc protein in 0-12 hr embryos; see mE1_TFBS_cnc collection report.
    Identification: in a germline clone screen for mutants that are defective in localisation of an Avic\GFP-stau marker in living oocytes. 3 alleles of cnc have been identified in the screen.
    cnc has diverse functions in anterior-posterior patterning in the embryonic head.
    Identification: Enhancer trap expression pattern survey for loci expressed in the ring gland.
    The autosomal "FLP-DFS" technique (using the P{ovoD1-18} P{FRT(whs)} P{hsFLP} chromosomes) has been used to identify the specific maternal effect phenotype for the zygotic lethal mutation. cnc is required for germ cell viability or early oogenesis.
    cnc interacts with Dfd, hh and shd. Null mutations delete both labral and mandibular structures.
    Mutations of cnc interact with Dfd to reduce the viability of the Dfd3/Dfd13 combination.
    cnc functions in combination with Dfd to specify mandibular development and is also required for labral segment identity. fkh and cnc homeotic genes are required for the maintenance of segment polarity gene expression in the foregut. cnc is required for the continued expression of the dorsal pharyngeal domains of wg and hh expression past stage 10 and the labral domain of wg expression past the middle stage 11.
    In its anterior domain (labral primordia) cnc is activated by bcd and tor maternal pathways, but activation in intercalary and mandibular primordia requires zygotic gap gene products, activation by btd and repression by oc (anteriorly) or sna (ventrally).
    In situ hybridization reveals cnc transcripts are localised to the mandibular segment and the hypopharyngeal and labial primordia, first detectable in late blastoderm stages. Sequence analysis of cnc gene product reveals similarities to transcription factors of the leucine zipper (bZIP) class.
    Expression pattern and DNA sequence data suggest a role of cnc in cephalic patterning during embryogenesis.
    Origin and Etymology
    Discoverer
    Etymology
    Identification
    External Crossreferences and Linkouts ( 118 )
    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.
    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.
    Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
    SignaLink - A signaling pathway resource with multi-layered regulatory networks.
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
    MIST (genetic) - An integrated Molecular Interaction Database
    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 (38)
    Reported As
    Symbol Synonym
    BcDNA:RE05559
    anon-WO0153538.6
    anon-WO0153538.7
    Secondary FlyBase IDs
    • FBgn0000338
    • FBgn0010824
    • FBgn0039062
    • FBgn0039063
    • FBgn0045881
    • FBgn0045892
    • FBgn0040590
    • FBgn0047182
    Datasets (1)
    Study focus (1)
    Experimental Role
    Project
    Project Type
    Title
    • bait_protein
    Genome-wide localization of transcription factors by ChIP-chip and ChIP-Seq.
    References (252)