FlyBase Gene Report: Dmel\CG11700

General Information

Symbol

Dmel\CG11700

Species

D. melanogaster

Name

Annotation Symbol

CG11700

Feature Type

protein_coding_gene

FlyBase ID

FBgn0029856

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

ESTS:199A6T , ESTS:143G11T , Ub, Ubiquitin

Key Links

Genomic Location

Cytogenetic map

5E5-5E5

Sequence location

X:6,282,037..6,283,575 [-]

Recombination map

1-16

RefSeq locus

NC_004354 REGION:6282037..6283575

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 (9 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables protein tag activity

inferred from sequence or structural similarity with SGD:S000003962

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000071508

(GO Reference Genome Project, 2011-)

enables structural constituent of ribosome

inferred from biological aspect of ancestor with PANTHER:PTN008503435

(GO Reference Genome Project, 2011-)

enables ubiquitin protein ligase binding

inferred from biological aspect of ancestor with PANTHER:PTN000071508

(GO Reference Genome Project, 2011-)

Biological Process (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in determination of adult lifespan

inferred from mutant phenotype

(Zhan et al., 2012)

involved_in negative regulation of reproductive process

inferred from mutant phenotype

(Zhan et al., 2012)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in modification-dependent protein catabolic process

inferred from biological aspect of ancestor with PANTHER:PTN000071508

(GO Reference Genome Project, 2011-)

involved_in protein ubiquitination

inferred from biological aspect of ancestor with PANTHER:PTN000071508

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with SGD:S000003962

(Gene Ontology Curators, 2002-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN000071508

(GO Reference Genome Project, 2011-)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000071508

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

UBIQUITIN

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

UBIQUITIN -: Ubiquitin is a small (76 amino acid), highly conserved protein found in all eukaryotes. Through its covalent attachment to other proteins, ubiquitin can modify protein activity in numerous ways. The most well known is the targeting of proteins for proteasomal degradation. Ubiquitin is often expressed as a fusion protein, either as polyubiquitin or fused with the ribosomal proteins L40 and S27a. Ubiquitin monomers are generated by post-translational cleavage. (Adapted from PMID:12729753 and PMID:27012465)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CG11700 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 R9PY16)

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

Partial duplication of Ubi-p53 (CG32744); result of 4-kb tandem duplication. Appears to be functional (FBrf0218166).

Gene model reviewed during 5.46

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

Gene model reviewed during 5.50

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG11700-RB

FBtr0333520

NM_132078

1362

301

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

CG11700-PB

FBpp0305700

34.3

301

8.73

R9PY16

NP_572306

AAF46143

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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

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\CG11700 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

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).

3.41

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage | male & spermatogenesis

polar primary spermatocyte

(Lu et al., 2013)

RT-PCR

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage | male

organism

(Zhan et al., 2012)

testis

(Zhan et al., 2012)

Additional Descriptive Data

CG11700 transcript is expressed in early spermatocytes.

(Lu et al., 2013)

CG11700 expression is male-specific.

(Zhan et al., 2012)

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\CG11700 in JBrowse

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

View exonic expression by developmental stage for Dmel\CG11700

View exonic expression by tissue for Dmel\CG11700

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

31564/tissue=All

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

FBgn0029856

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0029856

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

FBgn0029856

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 6 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG11700

Transgenic constructs containing regulatory region of CG11700

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 21 )

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

CG11700^null

Other Phenotypes

Allele

short lived | male

CG11700^null

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) (22)

Hsap\UBB

6 of 14

Yes

Hsap\UBC

4 of 14

Hsap\RPS27A

3 of 14

Hsap\UBD

3 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

Yes

Hsap\OASL

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (34)

Rnor\Ubb

4 of 14

Yes

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

Yes

Rnor\Ubqln1

2 of 14

Rnor\Fau

1 of 14

Rnor\Isg15

1 of 14

Yes

Rnor\LOC679594

1 of 14

Yes

Rnor\LOC687780

1 of 14

Rnor\LOC100360645

1 of 14

Yes

Rnor\LOC100363494

1 of 14

Yes

Rnor\LOC100910768

1 of 14

Yes

Rnor\Oas1a

1 of 14

Yes

Rnor\Oas1b

1 of 14

Yes

Rnor\Oas1d

1 of 14

Yes

Rnor\Oas1e

1 of 14

Yes

Rnor\Oas1i

1 of 14

Yes

Rnor\Oasl2

1 of 14

Yes

Rnor\Oasl

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (34)

Mmus\Ubb

7 of 14

Yes

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

Yes

2 of 14

2 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mmus\Oas1a

1 of 14

Yes

Mmus\Oas1c

1 of 14

Yes

Mmus\Oas1d

1 of 14

Yes

Mmus\Oas1e

1 of 14

Yes

Mmus\Oas1f

1 of 14

Yes

Mmus\Oas1g

1 of 14

Yes

Mmus\Oas1h

1 of 14

Yes

Mmus\Oasl1

1 of 14

Yes

Mmus\Oasl2

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (12)

Xtro\ubc

3 of 13

Yes

Xtro\clta

2 of 13

Xtro\ubb

2 of 13

Xtro\ccno

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (19)

Drer\ubc

4 of 14

Yes

Drer\si:ch211-202a12.4

3 of 14

Drer\ubb

3 of 14

Drer\isg15

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (19)

Cele\F52C6.2

3 of 14

Yes

Cele\F52C6.3

3 of 14

Yes

Cele\ubl-1

3 of 14

Yes

Cele\ubq-1

3 of 14

Yes

Cele\C16C8.4

2 of 14

Yes

Cele\C16C8.11

2 of 14

Yes

Cele\F14D2.11

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

Yes

Cele\C16C8.13

1 of 14

Yes

Cele\C16C8.14

1 of 14

Yes

Cele\C16C8.25

1 of 14

Yes

Cele\F52C6.4

1 of 14

Cele\K10C2.12

1 of 14

Yes

Cele\rad-23

1 of 14

Cele\rps-30

1 of 14

Anopheles gambiae (African malaria mosquito) (12)

Agam\AgaP_AGAP002599

6 of 12

Yes

Agam\AgaP_AGAP001970

5 of 12

Yes

Agam\AgaP_AGAP001971

5 of 12

Agam\AgaP_AGAP001969

4 of 12

Yes

3 of 12

2 of 12

2 of 12

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (53)

Atha\UBQ3

6 of 13

Yes

5 of 13

5 of 13

4 of 13

4 of 13

4 of 13

4 of 13

3 of 13

3 of 13

2 of 13

2 of 13

2 of 13

Yes

Atha\AT1G53980

2 of 13

Yes

Atha\AT2G17190

2 of 13

Atha\AT2G32350

2 of 13

Yes

2 of 13

2 of 13

2 of 13

2 of 13

Yes

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT1G53400

1 of 13

Atha\AT1G53945

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (8)

Scer\UBI4

5 of 13

Yes

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

Schizosaccharomyces pombe (Fission yeast) (10)

Spom\ubi4

4 of 12

Yes

3 of 12

3 of 12

2 of 12

2 of 12

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:CG11700. 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) (12)

6 of 13

5 of 13

5 of 13

5 of 13

4 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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 ( 1 )

Allele

Disease

Interaction

References

CG11700^EP1384

ameliorates Machado-Joseph disease

modeled by Hsap\ATXN3^{tr.Q78.UAS.Tag:HA}

(Bilen and Bonini, 2007)

ameliorates tauopathy

modeled by Hsap\MAPT^R406W.UAS

(Bilen and Bonini, 2007)

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?

6 of 14

4 of 14

RPS27A; ribosomal protein S27a

3 of 14

191343

UBD; ubiquitin D

3 of 14

606050

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

CG11700 - CG5958

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - Dronc

anti tag coimmunoprecipitation, western blot, anti tag western blot

(Kamber Kaya et al., 2017)

CG11700 - Gpat4

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - Graf

pull down, western blot

(Kim et al., 2017)

CG11700 - His2A

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - His2Av

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - His2B

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - Lsd-1

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - Lsd-2

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - Ufl1

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

CG11700 - bam

anti tag coimmunoprecipitation, Identification by mass spectrometry, western blot, anti bait coimmunoprecipitation

(Ji et al., 2017)

CG11700 - sturkopf

split luciferase complementation, luminiscence technology

(Kolkhof et al., 2017)

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.

624876

DroID - A comprehensive database of gene and protein interactions.

FBgn0029856

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

31564

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.

Regulation of pyruvate metabolism

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Class of Gene

nuclear_gene

protein_coding_gene

(Zhan et al., 2012)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-16

Cytogenetic map

5E5-5E5

Sequence location

X:6,282,037..6,283,575 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

5E5-5E5

Limits computationally determined from genome sequence between P{EP}EP1311&P{EP}EP1384 and P{EP}EP1402&P{EP}CG15893^EP1634

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

1-16

(FlyBase, 2016)

1-16.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

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

Bloomington

32933

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00726}attP2

Kyoto

125751

w¹¹¹⁸ P{RS5}CG11700^5-HA-2933

105131

y^* w^* P{GawB}CG11700^NP6110 / FM7c

NIG-Fly

HMS00726

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00726}attP2

Genomic Clones (9)

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

cDNA Clones (3)

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.

FBgn0029856

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0029856

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Annotation CR11700 renamed CG11700 in release 5.46 of the genome annotation.

(FlyBase Genome Annotators, 2012)

Ubi-p5E and CG11700 were derived from a single event of segmental tandem duplication. Both encode putative Ubiquitins. Ubi-p5E is conserved, ubiquitously expressed, and likely retains the function of the ancestral gene, whereas CG11700 has accumulated many nonsynonymous substitutions, has a male-specific pattern, and has likely undergone neofunctionalization.

(Zhan et al., 2012)

Annotation CG11700 renamed CR11700 in release 5.2 of the genome annotation.

(FlyBase Genome Annotators, 2007)

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

(Boutros et al., 2004)

RNAi screen using dsRNA made from templates generated with primers directed against this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R⁺ cells.

(Boutros et al., 2004)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: CR11700 CG11700

(FlyBase Genome Annotators, 2007)

Source for identity of: CG11700 CR11700

(Zhan et al., 2012)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (10)

Reported As

Symbol Synonym

CG11700

(Lee et al., 2023, Zhang and Zhang, 2019, Brewer-Jensen et al., 2016, Lu et al., 2013, Aoki et al., 2012, FlyBase Genome Annotators, 2012, Zhan et al., 2012, Ni et al., 2010.12.1, FlyBase Genome Annotators, 2009, Hughes et al., 2008, Pflieger et al., 2008, Zhou et al., 2008, Baeg et al., 2007, FlyBase Genome Annotators, 2007, Isogai et al., 2007, Marygold, 2007.1.12, Nybakken et al., 2005)

CR11700

(FlyBase Genome Annotators, 2009, Bilen and Bonini, 2007, FlyBase Genome Annotators, 2007)

ESTS:143G11T

(Madueno et al., 1995, EDGP Project Members, 1994-)

ESTS:199A6T

(Madueno et al., 1995, EDGP Project Members, 1994-)

(Ji et al., 2017, Kim et al., 2017)

Ubi-p5E5

(Lu et al., 2013)

Ubiquitin

(Foley and O'Farrell, 2004)

anon-sts41

poly-ub

(Warrick et al., 2005)

Name Synonyms

Ubiquitin

(Kolkhof et al., 2017)

ubiquitin

(Murphey and Godenschwege, 2002)

Secondary FlyBase IDs

FBgn0052744

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 129 )

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.

31564

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.

AAF46143

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.

R9PY16

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

R9PY16

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.

R9PY16

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

31564/tissue=All

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

FBgn0029856

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

FBgn0029856

FlyMine - An integrated database for Drosophila genomics

FBgn0029856

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

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

dme:Dmel_CG11700

MARRVEL_MODEL - MARRVEL (model organism gene)

31564

Linkouts

BioGRID - A database of protein and genetic interactions.

624876

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

FBgn0029856

DroID - A comprehensive database of gene and protein interactions.

FBgn0029856

DRSC - Results frm RNAi screens

FBgn0029856

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0029856

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0029856

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

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

31564

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.

Regulation of pyruvate metabolism

References (40)

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

3.41

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