FlyBase Gene Report: Dmel\gdl

General Information

Symbol

Dmel\gdl

Species

D. melanogaster

Name

gonadal

Annotation Symbol

CG33756

Feature Type

protein_coding_gene

FlyBase ID

FBgn0001099

Gene Model Status

Current

Stock Availability

3 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Red Book
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

71D3-71D3

Sequence location

3L:15,509,445..15,511,047 [+]

Recombination map

3-43

RefSeq locus

NT_037436 REGION:15509445..15511047

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 (0 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Belongs to the gonadal family. (P22468)

Protein Signatures (InterPro)

Gonadal family

Summaries

Phenotypic Description (Red Book; Lindsley and Zimm 1992)

gdl: gonadal

Member of cluster of overlapping genes; gdl is proximally overlapped by Eip28/29 and distally by Z600. The function of the gdl gene in the germ lines of both males and females is unknown at present (Schultz and Butler, 1989).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\gdl 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 P22468)

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 5.44

Gene model reviewed during 5.46

Gene model reviewed during 5.56

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

gdl-RA

FBtr0091757

NM_001031956

965

194

gdl-RB

FBtr0334082

NM_001274948

1175

194

gdl-RC

FBtr0346516

NM_001300142

1022

194

Additional Transcript Data and Comments

Reported size (kB)

1.5, 1.2 (unknown); 1.3, 1.0 (northern blot)

(Schulz and Butler, 1989)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

gdl-PA

FBpp0075305

22.7

194

5.66

FBpp0306207

22.7

194

5.66

FBpp0312134

22.7

194

5.66

P22468

NP_001287071

AHN58096

Polypeptides with Identical Sequences

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

194 aa isoforms: gdl-PA, gdl-PB, gdl-PC

Additional Polypeptide Data and Comments

Reported size (kDa)

193, 39 (aa)

(Schulz and Butler, 1989)

Comments

All gdl transcripts contain the same 193 amino acid open reading frame (ORF). The male-specific 1.5 and 1.2 kb transcripts contain an additional 39 amino acid ORF upstream from the 193 amino acid ORF.

(Schulz and Butler, 1989)

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Gonadal family

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\gdl using the Feature Mapper tool.

External Data

Crossreferences

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

gdl_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).

3.95

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

spermatogenesis & adult stage | male

spermatocyte

(Lu et al., 2013)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage | male

testis

(Schulz and Butler, 1989)

adult stage | female

(Schulz and Butler, 1989)

nurse cell

(Schulz and Butler, 1989)

oocyte

(Schulz and Butler, 1989)

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\gdl in JBrowse

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

View exonic expression by developmental stage for Dmel\gdl

View exonic expression by tissue for Dmel\gdl

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

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

3772583/tissue=All

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

FBgn0001099

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

FBgn0001099

Flygut - An atlas of the Drosophila adult midgut

FBgn0001099

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 3 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of gdl

Transgenic constructs containing regulatory region of gdl

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 7 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Phenotype manifest in

Allele

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) (3)

Hsap\DGCR6

12 of 14

Yes

Hsap\DGCR6L

12 of 14

Yes

Hsap\LOC102724770

12 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (1)

Rnor\Dgcr6

13 of 14

Yes

Mus musculus (laboratory mouse) (1)

Mmus\Dgcr6

12 of 14

Yes

Xenopus tropicalis (Western clawed frog) (3)

Xtro\itln1

9 of 13

Yes

Xtro\dgcr6

8 of 13

Yes

Xtro\itln2

8 of 13

Yes

Danio rerio (Zebrafish) (1)

Drer\dgcr6

12 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP012393

11 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\SPCC16C4.04

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:gdl. 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?

DGCR6; DiGeorge syndrome critical region gene 6

12 of 14

601279

DGCR6L; DiGeorge syndrome critical region gene 6 like

12 of 14

609459

Hsap\LOC102724770

12 of 14

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

DroID - A comprehensive database of gene and protein interactions.

FBgn0001099

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene_with_dicistronic_mRNA

(FlyBase Genome Annotators, 2002-2003)

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-43

Cytogenetic map

71D3-71D3

Sequence location

3L:15,509,445..15,511,047 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

71D3-71D3

Limits computationally determined from genome sequence between P{lacW}cp309^s2172&P{lacW}l(3)j2A2^j2A2 and P{EP}Tfb2^EP572

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-43

(FlyBase, 2016)

3-37.2

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (3)

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

Bloomington

85952

w¹¹¹⁸; PBac{PB}gdl^c01587

85953

w¹¹¹⁸; PBac{PB}gdl^c01588

82623

y¹ sc^* v¹ sev²¹; P{TKO.GS03618}attP40

Genomic Clones (16)

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

cDNA Clones (21)

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.

FBgn0001099

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0001099

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

The "gdl^M" transcripts appears to be bicistronic, giving rise to two proteins; an open reading frame (ORF) of 39 amino acids (gdl-ORF39) and an ORF of 193 amino acids (gdl). Overall orientation not stated: Z600+ gdl-ORF39+ gdl+ Eip71CD+

(Schulz et al., 1990)

Alternative promoters are responsible for sex-specific expression of gdl transcripts. Overall orientation not stated: Z600+ gdl-ORF39+ gdl+ Eip71CD+

(Schulz and Butler, 1989)

The gdl gene overlaps the Eip71CD and Z600 genes.

(Schulz and Miksch, 1989)

Identification: Part of analysis of Eip71CD gene expression. The gdl transcribed region overlaps the Eip71CD transcribed region.

(Schulz et al., 1989)

Relationship to Other Genes

Source for database merge of

Additional comments

One or more of the processed transcripts for this gene contain(s) two non-overlapping open reading frames (ORFs). The non-overlapping ORFs are represented by gdl-ORF39 and gdl.

(FlyBase Genome Annotators, 2002-2003)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (5)

Reported As

Symbol Synonym

CG33088

CG33756

(Fedorka et al., 2011, Lebo et al., 2009)

CG7268

(Oliver, 2001.8.16)

gdl

(Ågren et al., 2020, Maurer et al., 2020, Transgenic RNAi Project members, 2017-, Lu and Fuller, 2015, Bischof and FlyORF project members, 2014.6.20, Stern et al., 2014, Lu et al., 2013, Korenjak et al., 2012, Cherbas et al., 2011)

Name Synonyms

gonadal

(Fedorka et al., 2011, Lebo et al., 2009)

Secondary FlyBase IDs

FBgn0053088
FBgn0053756

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 38 )

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.

3772583

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.

P22468

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

P22468

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

M9PFK4

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.

P22468

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

3772583/tissue=All

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

FBgn0001099

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

FBgn0001099

FlyMine - An integrated database for Drosophila genomics

FBgn0001099

InterPro - A database of protein families, domains and functional sites

Gonadal family

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

dme:Dmel_CG33756

MARRVEL_MODEL - MARRVEL (model organism gene)

3772583

Linkouts

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

FBgn0001099

DroID - A comprehensive database of gene and protein interactions.

FBgn0001099

DRSC - Results frm RNAi screens

FBgn0001099

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

gdl_1

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0001099

Flygut - An atlas of the Drosophila adult midgut

FBgn0001099

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

TC016309

References (34)

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

3.95

Report Sections