FlyBase Gene Report: Dmel\e(r)

General Information

Symbol

Dmel\e(r)

Species

D. melanogaster

Name

enhancer of rudimentary

Annotation Symbol

CG1871

Feature Type

protein_coding_gene

FlyBase ID

FBgn0011586

Gene Model Status

Current

Stock Availability

5 publicly available

Gene Summary

Acts as an enhancer of the rudimentary gene. Has a role in pyrimidine biosynthesis and the cell cycle. (UniProt, Q24337)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
UniProtKB
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

8B7-8B7

Sequence location

X:8,904,144..8,906,248 [-]

Recombination map

1-25

RefSeq locus

NC_004354 REGION:8904144..8906248

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 (1 term)

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 (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Tsubota et al., 2011)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Belongs to the E(R) family. (Q24337)

Protein Signatures (InterPro)

Summaries

Protein Function (UniProtKB)

Acts as an enhancer of the rudimentary gene. Has a role in pyrimidine biosynthesis and the cell cycle.

(UniProt, Q24337)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\e(r) 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 Q24337)

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 5.43

Gene model reviewed during 5.46

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

e(r)-RA

FBtr0071266

NM_079923

881

104

e(r)-RB

FBtr0071267

NM_167171

1381

104

e(r)-RC

FBtr0310067

NM_001272434

1199

104

e(r)-RD

FBtr0333604

NM_001272435

1191

104

e(r)-RE

FBtr0333605

NM_001272436

1332

104

Additional Transcript Data and Comments

Reported size (kB)

1.2, 1.0 (northern blot)

(Wojcik et al., 1994)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

e(r)-PA

FBpp0071209

12.2

104

5.69

FBpp0071210

12.2

104

5.69

FBpp0301768

12.2

104

5.69

FBpp0305781

12.2

104

5.69

FBpp0305782

12.2

104

5.69

Q24337

NP_001259365

AGB95208

Polypeptides with Identical Sequences

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

104 aa isoforms: e(r)-PA, e(r)-PB, e(r)-PC, e(r)-PD, e(r)-PE

Additional Polypeptide Data and Comments

Reported size (kDa)

104 (aa)

(Wojcik et al., 1994)

Comments

The melanogaster and virilis e(r) proteins show a very high degree of conservation (95%).

(Wojcik et al., 1994)

External Data

Post Translational Modification

Phosphorylated in vitro by casein kinase II (CK2).

(UniProt, Q24337)

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\e(r) 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).

-0.70

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 5

organism | ubiquitous | uniform

(Roykhman et al., 2007)

oogenesis

nurse cell

(Roykhman et al., 2007)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage | female

(Wojcik et al., 1994)

adult stage | male

(Wojcik et al., 1994)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Tsubota et al., 2011)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\e(r) in JBrowse

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

View exonic expression by developmental stage for Dmel\e(r)

View exonic expression by tissue for Dmel\e(r)

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

43951/tissue=All

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

FBgn0011586

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011586

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

FBgn0011586

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

CG1871

Flygut - An atlas of the Drosophila adult midgut

FBgn0011586

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 23 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 20 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of e(r)

Transgenic constructs containing regulatory region of e(r)

Aberrations (Deficiencies and Duplications) ( 11 )

Inferred from experimentation ( 11 )

Gene disrupted in

Df(1)e(r)35-A

(Roykhman et al., 2007)

Df(1)e(r)42-A

(Roykhman et al., 2007)

Df(1)KA14

(Wojcik et al., 1994)

Gene partially disrupted in

Df(1)e(r)27-1

(Roykhman et al., 2007)

Df(1)e(r)27-8

(Roykhman et al., 2007)

Df(1)e(r)35-5

(Roykhman et al., 2007)

Df(1)e(r)39-2

(Roykhman et al., 2007)

Df(1)e(r)41-2

(Roykhman et al., 2007)

Df(1)e(r)46-5

(Roykhman et al., 2007)

Df(1)e(r)49-6

(Roykhman et al., 2007)

Df(1)e(r)53-5

(Roykhman et al., 2007)

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

partially lethal - majority live

viable

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

e(r)^GD5043

viable, with Scer\GAL4^Mef2.PR

e(r)^GD5043

viable, with Scer\GAL4^pnr-MD237

e(r)^GD5043

viable, with Scer\GAL4^tin.CΔ4

e(r)^GD5043

Sterility

Allele

fertile

Other Phenotypes

Allele

visible, with Scer\GAL4^pnr-MD237

e(r)^GD5043

wild-type

e(r)^+t6.2

Phenotype manifest in

Allele

trichogen cell, with Scer\GAL4^pnr-MD237

e(r)^GD5043

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) (2)

Hsap\ERH

13 of 14

Yes

Hsap\CLEC2L

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) (2)

Rnor\Erh

13 of 14

Yes

Rnor\RGD1307595

9 of 14

Yes

Mus musculus (laboratory mouse) (3)

Mmus\Erh

12 of 14

Yes

Mmus\Gm10131

10 of 14

Yes

Mmus\Clec2l

1 of 14

Xenopus tropicalis (Western clawed frog) (1)

Xtro\erh

8 of 13

Yes

Danio rerio (Zebrafish) (1)

Drer\erh

13 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\erh-1

14 of 14

Yes

Cele\erh-2

8 of 14

Yes

Anopheles gambiae (African malaria mosquito) (2)

Agam\AgaP_AGAP000515

11 of 12

Yes

Agam\AgaP_AGAP000516

11 of 12

Yes

Arabidopsis thaliana (thale-cress) (1)

Atha\ER

13 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\new10

8 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:e(r). 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?

ERH; ERH mRNA splicing and mitosis factor

13 of 14

601191

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

e(r) - CG4707

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

e(r) - CG6769

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

e(r) - Glut4EF

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

e(r) - RpL19

two hybrid

(Tsubota and Phillips, 2016)

e(r) - RpS3

two hybrid, anti tag coimmunoprecipitation, anti tag western blot

(Tsubota and Phillips, 2016)

Summary of Genetic Interactions

esyN Network Diagram

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

esyN Network Key:

Suppression

Enhancement

Other Interaction Browsers

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

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

e(r)|N

suppressible

(Tsubota et al., 2011)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Eogt|Dcr-2

suppressible

e(r)

(Müller et al., 2013)

enhanceable

e(r)

(Tsubota et al., 2011)

enhanceable

e(r)

(Roykhman et al., 2007, Gelsthorpe et al., 2006, Close and Tsubota, 2004, Wojcik et al., 1994)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

68740

DroID - A comprehensive database of gene and protein interactions.

FBgn0011586

MIST (genetic) - An integrated Molecular Interaction Database

43951

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

43951

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-25

Cytogenetic map

8B7-8B7

Sequence location

X:8,904,144..8,906,248 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

8B7-8B7

Limits computationally determined from genome sequence between P{EP}Moe^EP1652 and P{EP}CG10962^EP1565&P{EP}EP1030

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

8B-8B

(Wojcik, 1995.8.23)

Experimentally Determined Recombination Data

Location

1-25

(FlyBase, 2016)

1-26.5

(Comeron et al., 2012)

(Wojcik, 1995.8.23)

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

33462

w^* P{EP}e(r)^G926

91816

y¹ sc^* v¹ sev²¹; P{TOE.GS02158}attP40

53301

y¹ sc^* v¹ sev²¹; P{TRiP.HMC03528}attP40

VDRC

v110753

P{KK108931}VIE-260B

v13360

w¹¹¹⁸; P{GD5043}v13360

Genomic Clones (4)

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

cDNA Clones (52)

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

LD03564

Other clones

DPiM_LD03564

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.

FBgn0011586

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0011586

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 either the complete 3'UTR, or the coding sequence plus 296 nucleotides of 3' UTR, or the proximal portion of the 3'UTR results in embryonic lethality. Embryos progress to stage 14 and show proper segmentation.

(Gawande et al., 2006)

The e(r) gene is expressed as a non-sex-specific and a female-specific transcript; different polyadenylation sites are used to generate these transcripts. Sxl function in the female germline is required for the generation of the female-specific transcript.

(Gawande et al., 2006)

High conservation exists between e(r) and its vertebrate homologue indicates the function of the e(r) protein has been highly conserved.

(Tsubota et al., 1994)

An initial characterisation of e(r), its effects on r expression and the cloning and sequencing of the wild type gene.

(Wojcik et al., 1994)

Relationship to Other Genes

Source for database merge of

Source for merge of: e(r) CG1871

(Bayraktaroglu, 2000.4.12)

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (5)

Reported As

Symbol Synonym

Name Synonyms

enhancer of rudimentary

(Tsubota and Phillips, 2016, Roykhman et al., 2007, Gawande et al., 2006, Gelsthorpe et al., 2006, Close and Tsubota, 2004)

Secondary FlyBase IDs

FBgn0030068

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 47 )

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.

43951

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.

Q24337

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

Q24337

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

M9PJE8

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.

Q24337

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

43951/tissue=All

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

FBgn0011586

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

FBgn0011586

FlyMine - An integrated database for Drosophila genomics

FBgn0011586

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

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

dme:Dmel_CG1871

MARRVEL_MODEL - MARRVEL (model organism gene)

43951

Linkouts

BioGRID - A database of protein and genetic interactions.

68740

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

FBgn0011586

DroID - A comprehensive database of gene and protein interactions.

FBgn0011586

DRSC - Results frm RNAi screens

FBgn0011586

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011586

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0011586

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

CG1871

Flygut - An atlas of the Drosophila adult midgut

FBgn0011586

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

TC015538

MIST (genetic) - An integrated Molecular Interaction Database

43951

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

43951

References (55)

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

-0.70

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