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General Information
Symbol
Dmel\cno
Species
D. melanogaster
Name
canoe
Annotation Symbol
CG42312
Feature Type
FlyBase ID
FBgn0259212
Gene Model Status
Stock Availability
Gene Summary
canoe (cno) encodes a scaffold protein in adherens junctions that is involved in morphogenesis in a variety of tissues. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)
Also Known As

lips, afadin, lip

Key Links
Genomic Location
Cytogenetic map
Sequence location
3R:5,170,004..5,217,456 [-]
Recombination map
3-47.5
RefSeq locus
NT_033777 REGION:5170004..5217456
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (20 terms)
Molecular Function (4 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
inferred from physical interaction with FLYBASE:Ran; FB:FBgn0020255
inferred from physical interaction with FLYBASE:pins; FB:FBgn0040080
inferred from physical interaction with FLYBASE:Rap1; FB:FBgn0004636
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000044747
(assigned by GO_Central )
Biological Process (12 terms)
Terms Based on Experimental Evidence (12 terms)
CV Term
Evidence
References
inferred from genetic interaction with FLYBASE:mbt; FB:FBgn0025743
involved_in dorsal closure
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from genetic interaction with FLYBASE:Ran; FB:FBgn0020255
inferred from genetic interaction with FLYBASE:pins; FB:FBgn0040080
inferred from mutant phenotype
inferred from mutant phenotype
inferred from direct assay
inferred from genetic interaction with FLYBASE:smo; FB:FBgn0003444
inferred from mutant phenotype
inferred from mutant phenotype
inferred from genetic interaction with FLYBASE:bsk; FB:FBgn0000229
inferred from direct assay
inferred from mutant phenotype
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000044747
(assigned by GO_Central )
Cellular Component (4 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
located_in cell cortex
inferred from direct assay
inferred from high throughput direct assay
inferred from direct assay
located_in rhabdomere
inferred from direct assay
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
is_active_in adherens junction
inferred from biological aspect of ancestor with PANTHER:PTN000044747
(assigned by GO_Central )
Gene Group (FlyBase)
Protein Family (UniProt)
-
Summaries
Gene Snapshot
canoe (cno) encodes a scaffold protein in adherens junctions that is involved in morphogenesis in a variety of tissues. [Date last reviewed: 2019-03-07]
Pathway (FlyBase)
Positive Regulators of Hedgehog Signaling Pathway -
Positive regulators of hedgehog signaling up-regulate the pathway, resulting in the activation of transcription of hh-responsive genes.
Phenotypic Description (Red Book; Lindsley and Zimm 1992)
cno: canoe
Homozygous lethal; dorsal surface of embryo open.
Summary (Interactive Fly)
Gene Model and Products
Number of Transcripts
8
Number of Unique Polypeptides
7

Please see the JBrowse view of Dmel\cno 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 5.47

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

Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.

No evidence for 13aa QQQRYLGQSLPAE from SWP:Q24279 in the 18th exon of this gene.

Gene model reviewed during 6.03

Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0299709
7597
1882
FBtr0299710
6252
1817
FBtr0300525
6987
2051
FBtr0334910
5707
1721
FBtr0334911
6687
1951
FBtr0334912
6738
1968
FBtr0334913
9118
1818
FBtr0347363
10585
2051
Additional Transcript Data and Comments
Reported size (kB)

8.2, 7.5, 7.0 (northern blot)

Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
FBpp0288987
208.9
1882
7.83
FBpp0288988
200.5
1817
7.78
FBpp0289752
226.9
2051
7.23
FBpp0306931
190.0
1721
7.19
FBpp0306932
216.3
1951
7.62
FBpp0306933
218.1
1968
7.06
FBpp0306934
200.6
1818
7.74
FBpp0312543
226.9
2051
7.23
Polypeptides with Identical Sequences

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

2051 aa isoforms: cno-PE, cno-PJ
Additional Polypeptide Data and Comments
Reported size (kDa)

1893 (aa); 200 (kD observed)

Comments
External Data
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\cno using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
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
epithelial cell

Comment: within polygonal cortical network

epithelium

Comment: within polygonal cortical network

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

In wild type embryos, cno transcripts are expressed in dorsal-ventral oriented rows of cells in the posterior portion of each thoracic and abdominal segment. cno was shown to be induced by ubiquitous Ubx expression. cno expression in various homeotic mutant backgrounds was also described.

cno transcripts are most abundant in embryos, decrease in larvae, and increase again in pupae and adults. The relative abundance of the three transcript species varies with developmental stage. In early stage 5 embryos, a low uniform level of cno transcripts is seen. At the cellular blastoderm stage, expression is seen along the dorsal midline and in three ectodermal stripes in the central region of the embryo. During stages 7-10, expression is confined to the dorsal furrows and the posterior midgut rudiment. Ectodermal expression becomes evident in stage 10. In stage 13, focal stainings are detected near the attachment site of the midgut with the foregut and hindgut. In eye discs, cno is expressed ubiquitously with a higher concentration of transcripts in the lateral edge region.

Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immuno-electron microscopy
Stage
Tissue/Position (including subcellular localization)
Reference
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
western blot
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data

cno protein is localized to the adherens junctions of neuroepithelial cell in the larval inner and outer optic anlagen.

Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in cell cortex
inferred from direct assay
inferred from high throughput direct assay
inferred from direct assay
located_in rhabdomere
inferred from direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\cno 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
EMBL-EBI Single Cell Expression Atlas
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
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 55 )
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 cno
Transgenic constructs containing regulatory region of cno
Aberrations (Deficiencies and Duplications) ( 7 )
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
macrochaeta & postpronotum
macrochaeta & scutellum
macrochaeta & scutum
macrochaeta & wing
rhabdomere R1 & microvillus
rhabdomere R4 & microvillus
Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (4)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
11 of 15
Yes
Yes
1  
1 of 15
No
Yes
1 of 15
No
Yes
1 of 15
No
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (4)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
10 of 15
Yes
Yes
1 of 15
No
Yes
1 of 15
No
Yes
1 of 15
No
Yes
Rattus norvegicus (Norway rat) (3)
9 of 13
Yes
Yes
1 of 13
No
Yes
1 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (3)
5 of 12
Yes
Yes
1 of 12
No
Yes
1 of 12
No
Yes
Danio rerio (Zebrafish) (4)
6 of 15
Yes
Yes
1 of 15
No
Yes
1 of 15
No
Yes
1 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
11 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (1)
1 of 15
Yes
No
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091900ET )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
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) ( EOG0915009Q )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Glossina morsitans
Tsetse fly
Lucilia cuprina
Australian sheep blowfly
Lucilia cuprina
Australian sheep blowfly
Mayetiola destructor
Hessian fly
Mayetiola destructor
Hessian fly
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) ( EOG090W007R )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Danaus plexippus
Monarch 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) ( EOG090X007B )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
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
Tetranychus urticae
Two-spotted spider mite
Daphnia pulex
Water flea
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G00CA )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Strongylocentrotus purpuratus
Purple sea urchin
Strongylocentrotus purpuratus
Purple sea urchin
Strongylocentrotus purpuratus
Purple sea urchin
Ciona intestinalis
Vase tunicate
Ciona intestinalis
Vase tunicate
Gallus gallus
Domestic chicken
Paralogs
Paralogs (via DIOPT v8.0)
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
Disease Associations of Human Orthologs (via DIOPT v8.0 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
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
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
Signaling Pathways (FlyBase)
Positive Regulators of Hedgehog Signaling Pathway -
Positive regulators of hedgehog signaling up-regulate the pathway, resulting in the activation of transcription of hh-responsive genes.
Metabolic Pathways
External Data
Linkouts
Genomic Location and Detailed Mapping Data
Chromosome (arm)
3R
Recombination map
3-47.5
Cytogenetic map
Sequence location
3R:5,170,004..5,217,456 [-]
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
82F3-82F6
Limits computationally determined from genome sequence between P{PZ}l(3)0273302733 and P{EP}EP974
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
82E-82F
(determined by in situ hybridisation)
Experimentally Determined Recombination Data
Left of (cM)
Right of (cM)
Notes
Stocks and Reagents
Stocks (21)
Genomic Clones (44)
cDNA Clones (56)
 

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 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
GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
Antibody Information
Laboratory Generated Antibodies
 

polyclonal (species: Rat; amino acids 729-1171 were used to generate antibody)

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

Source for identity of: cno CG2534

Source for database merge of

Source for merge of: lip cno

Source for merge of: cno CG31537

Source for merge of: cno anon-WO0172774.47

Additional comments

snRNA:U4atac:82E is encoded in an intron of cno.

Annotations CG2534 and CG31537 merged as CG42312 in release 5.9 of the genome annotation.

"S(CycEJP)68S10" is unlikely to correspond to "cno"; mutations in the two loci complement each other.

Source for merge of cno anon-WO0172774.47 was sequence comparison ( date:051113 ).

Eleven further alleles (all EMS) discarded by Tubingen.

Other Comments

cno is required for normal proneural wave progression.

A Ser-N-cno complex mediates essential interactions between glia and neuroepithelial cells in optic lobe development.

cno regulates linkage between adherens junctions and the actin cytoskeleton during morphogenesis.

RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R+ cells.

R and cno proteins act in the same molecular pathway during dorsal closure and the function of both proteins in dorsal closure depends on their ability to interact with each other. R acts upstream of cno in dorsal closure, but unlike cno, is not involved in the stimulation of JNK pathway activity.

dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology.

New annotation (CG31537) in release 3 of the genome annotation.

Both loss-of-function mutations of cno and overexpression of cno result in malformation of the rhabdomeres in the ommatidia.

Mutants are isolated in an EMS mutagenesis screen to identify zygotic mutations affecting germ cell migration at discrete points during embryogenesis: mutants exhibit pattern defects (dorsal open).

cno protein binds directly to pyd protein.

cno is involved in the JNK pathway for dorsal closure in embryos, as a modulator acting upstream of or in parallel with Rac1.

The mechanism by which cno product controls cone cell formation in the developing compound eye is studied.

lips is likely to be cno based on sequence identity and sequence of a nonsense cno mutation.

Isolated during a subtractive hybridisation protocol to identify Ubx-activated target genes. Ubx inducible during embryogenesis.

Genetic interactions suggest that cno participates with members of the N pathway in regulating adhesive cell-cell interactions for the determination of cell fate.

cno mutants display failure of dorsal closure.

Origin and Etymology
Discoverer
Etymology
Identification
External Crossreferences and Linkouts ( 87 )
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/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
EMBL-EBI Single Cell Expression Atlas
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
FlyMine - An integrated database for Drosophila genomics
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.
MARRVEL_MODEL
modMine - A data warehouse for the modENCODE project
SignaLink - A signaling pathway resource with multi-layered regulatory networks.
Linkouts
BioGRID - A database of protein and genetic interactions.
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
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
Synonyms and Secondary IDs (19)
Reported As
Symbol Synonym
anon-WO0172774.47
dlhA
mis
Secondary FlyBase IDs
  • FBgn0000340
  • FBgn0000465
  • FBgn0005637
  • FBgn0046384
  • FBgn0051537
Datasets (0)
Study focus (0)
Experimental Role
Project
Project Type
Title
References (216)