FlyBase Gene Report: Dmel\Ubc87F

General Information

Symbol

Dmel\Ubc87F

Species

D. melanogaster

Name

Ubiquitin conjugating enzyme 87F

Annotation Symbol

CG9602

Feature Type

protein_coding_gene

FlyBase ID

FBgn0267383

Gene Model Status

Current

Stock Availability

5 publicly available

Enzyme Name (EC)

E2 ubiquitin-conjugating enzyme (2.3.2.23)

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

87F12-87F12

Sequence location

3R:13,717,454..13,718,176 [-]

Recombination map

3-54

RefSeq locus

NT_033777 REGION:13717454..13718176

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 (4 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables ubiquitin conjugating enzyme activity

inferred from biological aspect of ancestor with PANTHER:PTN000629793

(GO Reference Genome Project, 2011-)

enables ubiquitin-protein transferase activity

inferred from sequence or structural similarity with UniProtKB:P62253

(Gene Ontology Curators, 2002-)

Biological Process (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in proteasome-mediated ubiquitin-dependent protein catabolic process

inferred from biological aspect of ancestor with PANTHER:PTN000629795

(GO Reference Genome Project, 2011-)

involved_in protein polyubiquitination

inferred from sequence or structural similarity with UniProtKB:P62253

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000629793

(GO Reference Genome Project, 2011-)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

E2 UBIQUITIN CONJUGATING ENZYMES

Protein Family (UniProt)

Protein Signatures (InterPro)

Catalytic Activity (EC/Rhea)

ubiquitin conjugating enzyme activity

S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L- cysteine (2.3.2.23)

Summaries

Gene Group (FlyBase)

E2 UBIQUITIN CONJUGATING ENZYMES -: Ubiquitin-conjugating (E2) enzymes accept activated ubiquitin from ubiquitin-activating (E1) enzymes via thioester bond with a conserved catalytic cysteine. E2s then interact with ubiquitin ligases (E3) to directly or indirectly ubiquitinate target proteins. E2s are characterised by a 200 amino acid ubiquitin-conjugating (UBC) domain which interacts with E1 and E3s and acts catalytically. (Adapted from PMID:19940261.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Ubc87F 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 Q9VFR8)

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 5.55

Gene model reviewed during 5.40

Gene model reviewed during 5.47

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Ubc87F-RA

FBtr0082838

NM_142052

660

168

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

Ubc87F-PA

FBpp0082303

19.3

168

4.83

Q9VFR8

NP_650309

AAF54982

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

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\Ubc87F using the Feature Mapper tool.

External Data

Crossreferences

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

Ubc87F_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).

5.11

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\Ubc87F in JBrowse

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

View exonic expression by developmental stage for Dmel\Ubc87F

View exonic expression by tissue for Dmel\Ubc87F

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

FBgn0267383

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

41682/tissue=All

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

FBgn0267383

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0038175

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

FBgn0267383

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

CG9602

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 2 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 4 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Ubc87F

Transgenic constructs containing regulatory region of Ubc87F

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3R)Exel6170

(Ryder, 2004.4.26)

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

lethal | recessive

Ubc87F^AT76-83A

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

Ubc87F^GD14921

viable, with Scer\GAL4^Mef2.PR

Ubc87F^GD14921

viable, with Scer\GAL4^pnr-MD237

Ubc87F^GD14921

viable, with Scer\GAL4^tin.CΔ4

Ubc87F^GD14921

Other Phenotypes

Allele

abnormal flight | dominant

Ubc87F^AT76-83A

Phenotype manifest in

Allele

indirect flight muscle cell

Ubc87F^AT76-83A

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) (33)

Hsap\UBE2G1

11 of 14

Yes

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

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

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) (30)

Rnor\Ube2g1

11 of 14

Yes

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

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

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (31)

Mmus\Ube2g1

11 of 14

Yes

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

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

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (15)

Xtro\ube2g1

4 of 13

Yes

3 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

Yes

Danio rerio (Zebrafish) (32)

Drer\ube2g1a

12 of 14

Yes

Drer\ube2g1b

12 of 14

Yes

3 of 14

2 of 14

2 of 14

1 of 14

Drer\si:ch1073-205c8.3

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

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

Caenorhabditis elegans (Nematode, roundworm) (18)

Cele\ubc-7

14 of 14

Yes

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

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (19)

Agam\AgaP_AGAP002251

7 of 12

Yes

2 of 12

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (33)

Atha\UBC14

13 of 13

Yes

12 of 13

12 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

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

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (13)

Scer\CDC34

3 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

Schizosaccharomyces pombe (Fission yeast) (12)

Spom\ubc15

11 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 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:Ubc87F. 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) (30)

CG40045

12 of 13

CG7656

5 of 13

Ubc7

4 of 13

lwr

3 of 13

Ubc6

3 of 13

ben

2 of 13

CG3473

2 of 13

CG5823

2 of 13

CG16894

2 of 13

peo

2 of 13

Ubc4

2 of 13

UbcE2M

2 of 13

Uev1A

2 of 13

vih

2 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

eff

1 of 13

Kua

1 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 ( 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?

UBE2G1; ubiquitin conjugating enzyme E2 G1

11 of 14

601569

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

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

Ubc87F - hale

two hybrid

(Hu et al., 2017.6.13)

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.

FBgn0267383

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel

protein ubiquitination

External Data

Linkouts

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

Class of Gene

(dos Santos, 2014, Bai et al., 2007, Langille and Clark, 2007)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-54

Cytogenetic map

87F12-87F12

Sequence location

3R:13,717,454..13,718,176 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

87F12-87F12

Limits computationally determined from genome sequence between P{PZ}flfl⁰¹⁹⁴⁹ and P{lacW}trx^j14A6&P{PZ}trx⁰⁰³⁴⁷

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

87F12-87F12

(Runk, 1999.9.23)

Experimentally Determined Recombination Data

Location

3-54

(FlyBase, 2016)

3-51.1

(Comeron et al., 2012)

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

22889

w^67c23; Mi{ET1}Ubc87F^MB00748/TM6C, cu¹ Sb¹

FlyORF

F002478

M{UAS-Ubc87F.ORF.3xHA.GW}ZH-86Fb

9602R-3

v102641

v29498

w¹¹¹⁸; P{GD14921}v29498

Genomic Clones (22)

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

cDNA Clones (7)

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

GH25305

Other clones

DPiM_GH25305

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.

FBgn0267383

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

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

(Kiger et al., 2003)

Relationship to Other Genes

Source for database merge of

Source for merge of: CG9602 BcDNA:GH25305

(FlyBase, 1996-)

Source for merge of: Ubc87F Ubc87Fb CG9602

(FlyBase, 1992-)

Additional comments

The CG9602 gene may have been derived from the crl gene by retroposition.

(Bai et al., 2007)

The Ubc87F gene may have been derived from the CG40045 gene by retroposition.

(Langille and Clark, 2007)

Complementation data suggests that "Ubc87F" and "AT76-2A" are different genes, but this conflicts with Northern blot data.

(Runk, 1999.9.23)

Source for merge of CG9602 BcDNA:GH25305 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Comparison of molecular map in Fig 2A of FBrf0125124 and GBrowse (R5.57) shows that 'UBC'/'Ubc87Fb' corresponds to 'CG9602'. The 'Ubc87F' gene mentioned in FBrf0110697/FBrf0111604 also corresponds to 'CG9602' based on cytological location, stated orthology, and stated molecular function.

(FlyBase, 1992-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (10)

Reported As

Symbol Synonym

83A

(Runk, 1999.9.23)

AT76

(Runk, 1999.9.23)

BcDNA:GH25305

CG9602

(Park et al., 2016, Hosono et al., 2015, Japanese National Institute of Genetics, 2012.5.21, Du et al., 2011, Keleman et al., 2009.8.5, Michelle et al., 2009, Bai et al., 2007, Bai et al., 2007, Langille and Clark, 2007, Jones et al., 2002)

UBC

(Miller et al., 2000)

Ubc87F

(Zheng et al., 2023, Hu et al., 2017.6.13, dos Santos, 2014)

Ubc87Fb

Ube2G1

(Park et al., 2016)

Name Synonyms

Ubc87F

Ubiquitin conjugating enzyme 87F

Ubiquitin conjugating enzyme 87Fb

(Miller et al., 2000)

Secondary FlyBase IDs

FBgn0028395
FBgn0040263
FBgn0038175
FBgn0064955

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 35 )

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.

41682

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.

Q9VFR8

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.

Q9VFR8

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0267383

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

41682/tissue=All

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

FBgn0267383

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

FBgn0267383

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

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

dme:Dmel_CG9602

MARRVEL_MODEL - MARRVEL (model organism gene)

41682

Linkouts

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

FBgn0267383

DroID - A comprehensive database of gene and protein interactions.

FBgn0267383

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

Ubc87F_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0038175

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0267383

FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel

protein ubiquitination

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

CG9602

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

TC014980

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

References (43)

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

5.11

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