FlyBase Gene Report: Dmel\corn

General Information

Symbol

Dmel\corn

Species

D. melanogaster

Name

cornetto

Annotation Symbol

CG42278

Feature Type

protein_coding_gene

FlyBase ID

FBgn0259173

Gene Model Status

Current

Stock Availability

14 publicly available

Gene Summary

cornetto (corn) encodes a microtubule binding protein involved in exocytosis regulation. [Date last reviewed: 2019-09-12] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

65E5-65E6

Sequence location

3L:7,142,991..7,157,073 [-]

Recombination map

3-19

RefSeq locus

NT_037436 REGION:7142991..7157073

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (7 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables microtubule binding

inferred from direct assay

(Bulgheresi et al., 2001)

enables protein binding

inferred from physical interaction with FLYBASE:insc; FB:FBgn0011674

(Bulgheresi et al., 2001)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in positive regulation of exocytosis

inferred from mutant phenotype

(Finan et al., 2011)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (4 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

located_in apical part of cell

inferred from direct assay

(Bulgheresi et al., 2001)

located_in cell cortex

inferred from direct assay

(Bulgheresi et al., 2001)

located_in cytoplasm

inferred from direct assay

(Bulgheresi et al., 2001)

part_of protein-containing complex

inferred from physical interaction with FLYBASE:jar; FB:FBgn0011225

(Finan et al., 2011)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

cornetto (corn) encodes a microtubule binding protein involved in exocytosis regulation. [Date last reviewed: 2019-09-12]

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\corn 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

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q8IQ73)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

corn-RB

FBtr0299640

NM_079230

4234

960

corn-RC

FBtr0299641

NM_168193

5264

1107

corn-RD

FBtr0333374

NM_001274567

5246

1101

corn-RE

FBtr0333375

NM_001274568

5383

970

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

UniProt

RefSeq ID

GenBank

corn-PB

FBpp0288915

105.5

960

5.65

FBpp0288916

122.0

1107

5.57

FBpp0305566

121.3

1101

5.52

FBpp0305567

106.6

970

5.89

M9PBT2

NP_001261497

AGB94192

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

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

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

corn_1

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.83

Transcript Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 4

organism | ubiquitous

Comment: maternal contribution

(Bulgheresi et al., 2001)

embryonic stage 5 -- 8

organism | ubiquitous

(Bulgheresi et al., 2001)

embryonic stage 9 -- 12

epithelial cell

(Bulgheresi et al., 2001)

embryonic stage 9 -- 13

neuroblast | apical

(Bulgheresi et al., 2001)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 4 -- 6

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

ventral nerve cord primordium

Comment: reported as ventral nerve cord anlage

(Fisher et al., 2012)

embryonic stage 9 -- 10

central brain primordium

(Fisher et al., 2012)

organism | faint | ubiquitous

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 9 -- 12

midline primordium | subset

(Kearney et al., 2004)

embryonic stage 11 -- 12

central brain primordium

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

midline glial cell

(Kearney et al., 2004)

Additional Descriptive Data

Expression pattern inferred from unspecified enhancer trap line.

(Kearney et al., 2004)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 6 -- 11

organism | ubiquitous

(Bulgheresi et al., 2001)

embryonic stage 10

epidermal cell | apical

• cytoplasm | apical

(Bulgheresi et al., 2001)

neuroblast

• cytoplasm

Comment: anaphase; protein begins to accumulate apically

(Bulgheresi et al., 2001)

neuroblast | apical

• cytoplasm | apical

Comment: telophase-interphase; protein in apical crescent

(Bulgheresi et al., 2001)

embryonic stage 12 -- 13

presumptive embryonic/larval central nervous system

(Bulgheresi et al., 2001)

presumptive embryonic/larval peripheral nervous system

(Bulgheresi et al., 2001)

neuron of presumptive embryonic/larval central nervous system

• axon

(Bulgheresi et al., 2001)

scolopidial dendritic cap cell

(Bulgheresi et al., 2001)

western blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

organism

(Bulgheresi et al., 2001)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in apical part of cell

inferred from direct assay

(Bulgheresi et al., 2001)

located_in cell cortex

inferred from direct assay

(Bulgheresi et al., 2001)

located_in cytoplasm

inferred from direct assay

(Bulgheresi et al., 2001)

part_of protein-containing complex

inferred from physical interaction with FLYBASE:jar; FB:FBgn0011225

(Finan et al., 2011)

Expression Deduced from Reporters

Reporter: P{ST.lexA::HG}corn^SE134

Stage

Tissue/Position (including subcellular localization)

Reference

wandering third instar larval stage

larval ventral nerve cord

(Bloomington Drosophila Stock Center, 2019)

larval central nervous system

(Bloomington Drosophila Stock Center, 2019)

eye disc

(Bloomington Drosophila Stock Center, 2019)

photoreceptor neuron

(Bloomington Drosophila Stock Center, 2019)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\corn in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\corn

View exonic expression by tissue for Dmel\corn

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

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0259173

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

38786/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0259173

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0259173

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0259173

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG32386

Flygut - An atlas of the Drosophila adult midgut

FBgn0259173

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 14 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 8 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of corn

Transgenic constructs containing regulatory region of corn

Aberrations (Deficiencies and Duplications) ( 4 )

Inferred from experimentation ( 4 )

Gene partially disrupted in

Df(3L)melt^Δ1

(Mikeladze-Dvali et al., 2005, Teleman et al., 2005)

Df(3L)melt-Δ3

(Mikeladze-Dvali et al., 2005)

Gene disrupted in

Df(3L)Exel6110

(Ryder, 2004.4.26)

Df(3L)Exel6111

(Ryder, 2004.4.26)

Df(3L)melt^Δ1

(Mikeladze-Dvali et al., 2005, Teleman et al., 2005)

Df(3L)melt-Δ3

(Mikeladze-Dvali et al., 2005)

Inferred from location ( 5 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

viable

corn⁰⁴²⁰²

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

corn^GD10876

viable, with Scer\GAL4^Mef2.PR

corn^GD10876

viable, with Scer\GAL4^pnr-MD237

corn^GD10876

viable, with Scer\GAL4^tin.CΔ4

corn^GD10876

Other Phenotypes

Allele

embryonic/larval segmentation phenotype, with Scer\GAL4^en-e16E

corn^VDRC.cUa

Phenotype manifest in

Allele

macrochaeta

ventral denticle belt, with Scer\GAL4^en-e16E

corn^VDRC.cUa

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (0)

Mus musculus (laboratory mouse) (0)

Xenopus tropicalis (Western clawed frog) (0)

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP007336

10 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:corn. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (0)

Human Disease Associations

FlyBase Human Disease Model Reports

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 v9.1 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:

Off

Show/hide secondary interactors
(data from AllianceMine provided by esyN)

Select Layout:

Force Directed

Circle

Concentric

Legend:

Protein

RNA

Selected Interactor(s)

Other Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

corn - insc

pull down, autoradiography, two hybrid

(Bulgheresi et al., 2001)

corn - jar

anti bait coimmunoprecipitation, western blot, pull down, anti tag western blot, peptide massfingerprinting

(Finan et al., 2011)

corn - βTub56D

cosedimentation through density gradient, western blot

(Bulgheresi et al., 2001)

Summary of Genetic Interactions

esyN Network Diagram

Other Interaction Browsers

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.

64231

DroID - A comprehensive database of gene and protein interactions.

FBgn0259173

MIST (protein-protein) - An integrated Molecular Interaction Database

38786

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-19

Cytogenetic map

65E5-65E6

Sequence location

3L:7,142,991..7,157,073 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

65E5-65E6

Limits computationally determined from genome sequence between P{lacW}l(3)L4060^L4060 and P{PZ}corn⁰⁴²⁰²

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

65E1-65E12

(determined by in situ hybridisation)

(Spradling et al., 1999)

65E1-65E12

(BDGP Project Members, 1994-1999)

Experimentally Determined Recombination Data

Location

3-19

(FlyBase, 2016)

3-16.6

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (14)

Genomic Clones (17)

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

cDNA Clones (68)

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 JBrowse 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.

FBgn0259173

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0259173

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Finan et al., 2011, Bulgheresi et al., 2001)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Identification: in a yeast two-hybrid screen for proteins that bind with insc protein.

(Schober et al., 1999)

Relationship to Other Genes

Source for database merge of

Source for merge of: corn CG32390

(FlyBase Genome Annotators, 2008)

Source for merge of: corn CG8621

(FlyBase, 1996-)

Additional comments

Annotations CG32386 and CG32390 merged as CG42278 in release 5.8 of the genome annotation.

(FlyBase Genome Annotators, 2008)

Source for merge of corn CG8621 was sequence comparison ( date:010521 ).

(FlyBase Genome Annotators, 2002-2003, FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Gene is named "cornetto" based on the subcellular localisation of the protein in neuroblasts.

(Bulgheresi et al., 2001)

Synonyms and Secondary IDs (8)

Reported As

Symbol Synonym

CG32386

(Keleman et al., 2009.8.5, Krejcí et al., 2009, Norga et al., 2003, Levis, 2002.9.6)

CG32390

(Kong et al., 2010)

CG42278

(FlyBase Genome Annotators, 2008)

CG8621

Corn

(Luo et al., 2019)

corn

(Kockel et al., 2019, Pézeron et al., 2014, Webber et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Finan et al., 2011, Lott et al., 2011, Krejcí et al., 2009)

Name Synonyms

CG32390

CG42278

(FlyBase Genome Annotators, 2008)

Cornetto

(Kwon et al., 2008, Cho et al., 2005)

cornetto

(Finan et al., 2011, Krejcí et al., 2009, Teleman et al., 2005, Schober et al., 1999)

Secondary FlyBase IDs

FBgn0028383
FBgn0035745
FBgn0052386
FBgn0052390

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 54 )

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.

38786

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/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

Q8IQ73

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

Q8IQ73

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0259173

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

38786/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0259173

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0259173

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG42278

MARRVEL_MODEL - MARRVEL (model organism gene)

38786

Linkouts

BioGRID - A database of protein and genetic interactions.

64231

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0259173

DroID - A comprehensive database of gene and protein interactions.

FBgn0259173

DRSC - Results frm RNAi screens

FBgn0259173

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

corn_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0259173

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0259173

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG32386

Flygut - An atlas of the Drosophila adult midgut

FBgn0259173

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC012383

MIST (protein-protein) - An integrated Molecular Interaction Database

38786

References (50)

The following external sites may use different assemblies or annotations than FlyBase.

-0.83

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