FlyBase Gene Report: Dmel\veg

General Information

Symbol

Dmel\veg

Species

D. melanogaster

Name

vegetable

Annotation Symbol

Feature Type

gene

FlyBase ID

FBgn0265195

Gene Model Status

Withdrawn

Stock Availability

5 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Function

Gene Ontology (GO) Annotations (0 terms)

Molecular Function (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

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

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Transcript Data

Annotated Transcripts

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

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\veg using the Feature Mapper tool.

External Data

Crossreferences

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).

NA

Transcript Expression

Additional Descriptive Data

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

JBrowse - Visual display of RNA-Seq signals

View Dmel\veg in JBrowse

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

View exonic expression by developmental stage for Dmel\veg

View exonic expression by tissue for Dmel\veg

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

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

CG6657

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 8 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 0 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of veg

Transgenic constructs containing regulatory region of veg

Aberrations (Deficiencies and Duplications) ( 3 )

Inferred from experimentation ( 3 )

Gene not disrupted in

Df(2R)Jp1

(Kania et al., 1995)

Df(2R)Jp8

(Kania et al., 1995)

Df(2R)trix

(Kania et al., 1995, BDGP Project Members, 1994-1999)

Inferred from location ( 0 )

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

lethal | recessive

lethal - all die during embryonic stage | recessive

Other Phenotypes

Allele

some die during embryonic stage | recessive

Phenotype manifest in

Allele

chordotonal organ | lateral

veg^k07228

fascicle

presumptive embryonic/larval central nervous system

presumptive embryonic/larval peripheral nervous system

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) (0)

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:veg. 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

Interaction Browsers

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene

(Kania et al., 1995)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

Cytogenetic map

Sequence location

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (5)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

10660

y¹ w^67c23; P{lacW}veg^k07202/CyO

10493

y¹ w^67c23; P{lacW}k01206 veg^k01206/CyO

Kyoto

102272

y¹ w^67c23 ; P{lacW}veg^k03402 / CyO

103060

y¹ w^67c23 ; P{lacW}veg^k17010 / CyO

111211

y^d2 w¹¹¹⁸ P{ey-FLP.N}2 P{5xglBS-lacZ.38-1}TPN1; P{neoFRT}42D P{lacW}veg^k07202 /CyO y⁺

Genomic Clones (0)

cDNA Clones (0)

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.

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Relationship to Other Genes

Source for database merge of

Additional comments

The veg genetic complementation group was previously associated with the CG6657 annotation in FlyBase, based on flanking sequence of the "veg[k07202]" insertion allele. However, FBrf0218440 shows that alleles of the veg complementation group complement mutations that have been mapped to the CG6657 annotation and concludes that the phenotypes described for the veg complementation group are not due to an effect on CG6657 but are due to a defect in another locus. The CG6657 annotation has thus been split out int a separate gene from veg in release 5.49 of the genome annotation, and has been renamed "CG44239" to avoid confusion.

(FlyBase Genome Annotators, 2012)

The locus that is affected by the veg complementation group is not known. The location of the insertion is unmapped in many of the alleles. For those insertion alleles where the flanking sequence has been obtained, the flanking sequences map to different regions of the genome and in some cases, reversion of the veg mutant phenotype has not been obtained by excision of the insertion, suggesting that some of the chromosomes may contain secondary lethal hit(s) (which may or may not correspond to the lesion causing the veg phenotype).

(FlyBase Genome Annotators, 2012)

The embryonic peripheral nervous system phenotypes of the "veg" (vegetable) complementation group described in FBrf0131381 are not due to defects in CG6657, but rather due to defects in a neighbouring locus. Several of the original veg insertion alleles (veg^k03402, veg^k07202 and veg^Z322) complement alleles that have been molecularly mapped to the CG6657 transcription unit and more precise mapping of the insertions in the mutant veg alleles indicates that they are outside of the CG6657 transcription unit.

(Rosenbaum et al., 2012)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (5)

Reported As

Symbol Synonym

CG6657

l(2)k01206

veg

(Rosenbaum et al., 2012, Boyle et al., 2010, Prokopenko et al., 2000, Yang, 2000.8.19, Kania et al., 1995)

Name Synonyms

lethal (2) k01206

vegetable

(Boyle et al., 2010, Prokopenko et al., 2000, Kania et al., 1995)

Secondary FlyBase IDs

FBgn0015562

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 3 )

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.

44057

Other crossreferences

MARRVEL_MODEL - MARRVEL (model organism gene)

44057

Linkouts

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

CG6657

References (10)

NA

Report Sections