FlyBase Gene Report: Dmel\RpL13

General Information

Symbol

Dmel\RpL13

Species

D. melanogaster

Name

Ribosomal protein L13

Annotation Symbol

CG4651

Feature Type

protein_coding_gene

FlyBase ID

FBgn0011272

Gene Model Status

Current

Stock Availability

6 publicly available

Gene Summary

Ribosomal protein L13 (RpL13) encodes a ribosomal structural constituent. [Date last reviewed: 2019-07-11] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

Dmbbc1, L13

Key Links

Genomic Location

Cytogenetic map

30F3-30F3

Sequence location

2L:9,967,313..9,968,645 [+]

Recombination map

2-38

RefSeq locus

NT_033779 REGION:9967313..9968645

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 (6 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables structural constituent of ribosome

inferred from direct assay

(Anger et al., 2013)

inferred from high throughput direct assay

(Alonso and Santaren, 2006)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables structural constituent of ribosome

inferred from electronic annotation with InterPro:IPR001380, InterPro:IPR018256

(InterPro Project Members, 2004-)

traceable author statement

(Marygold et al., 2007)

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 cytoplasmic translation

inferred by curator from GO:0022626

(Anger et al., 2013, Alonso and Santaren, 2006)

traceable author statement

(Marygold et al., 2007)

involved_in translation

inferred from electronic annotation with InterPro:IPR001380, InterPro:IPR018256

(InterPro Project Members, 2004-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in cytosolic ribosome

inferred from high throughput direct assay

(Alonso and Santaren, 2006)

inferred from direct assay

(Anger et al., 2013)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

part_of cytosolic large ribosomal subunit

traceable author statement

(Marygold et al., 2007)

inferred from biological aspect of ancestor with PANTHER:PTN000197497

(GO Reference Genome Project, 2011-)

located_in ribosome

inferred from electronic annotation with InterPro:IPR001380, InterPro:IPR018256

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

CYTOPLASMIC LARGE RIBOSOMAL SUBUNIT

CYTOPLASMIC LARGE RIBOSOMAL SUBUNIT - TESTIS-SPECIFIC VARIANT

Protein Family (UniProt)

Belongs to the eukaryotic ribosomal protein eL13 family. (P41126)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Ribosomal protein L13 (RpL13) encodes a ribosomal structural constituent. [Date last reviewed: 2019-07-11]

Gene Group (FlyBase)

CYTOPLASMIC LARGE RIBOSOMAL SUBUNIT -: Cytoplasmic ribosomes are found on the endoplasmic reticulum and in the cytosol. They translate all mRNAs produced from nuclear genes and perform the majority of cellular protein synthesis. Ribosomes are formed by two ribonucleoprotein subunits, large and small. The principle function of the large subunit is to bind tRNA during the synthesis of polypeptides. (Adapted from FBrf0205398.)
CYTOPLASMIC LARGE RIBOSOMAL SUBUNIT - TESTIS-SPECIFIC VARIANT -: Cytoplasmic ribosomes are found on the endoplasmic reticulum and in the cytosol. They translate all mRNAs produced from nuclear genes and perform the majority of cellular protein synthesis. Ribosomes are formed by two ribonucleoprotein subunits, large and small. The principle function of the large subunit is to bind tRNA during the synthesis of polypeptides. Tissue expression data from modENCODE has been used to infer the composition of the cytosolic large ribosomal subunit testis-specific variant. (Adapted from FBrf0205398.)

Protein Function (UniProtKB)

Component of the ribosome, a large ribonucleoprotein complex responsible for the synthesis of proteins in the cell (PubMed:23636399). The small ribosomal subunit (SSU) binds messenger RNAs (mRNAs) and translates the encoded message by selecting cognate aminoacyl-transfer RNA (tRNA) molecules (Probable). The large subunit (LSU) contains the ribosomal catalytic site termed the peptidyl transferase center (PTC), which catalyzes the formation of peptide bonds, thereby polymerizing the amino acids delivered by tRNAs into a polypeptide chain (Probable). The nascent polypeptides leave the ribosome through a tunnel in the LSU and interact with protein factors that function in enzymatic processing, targeting, and the membrane insertion of nascent chains at the exit of the ribosomal tunnel (Probable). As part of the LSU, it is probably required for its formation and the maturation of rRNAs (Probable).

(UniProt, P41126)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\RpL13 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 P41126)

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

PDB - An information portal to biological macromolecular structures

Comments on Gene Model

Gene model reviewed during 5.43

Gene model reviewed during 5.52

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

RpL13-RA

FBtr0079888

NM_078806

791

218

RpL13-RB

FBtr0100164

NM_001038802

774

218

RpL13-RC

FBtr0310482

NM_001273383

1186

218

Additional Transcript Data and Comments

Reported size (kB)

0.95 (northern blot)

(Helps et al., 1995)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

RpL13-PA

FBpp0079484

25.0

218

11.64

FBpp0099517

25.0

218

11.64

FBpp0302626

25.0

218

11.64

P41126

NP_001260312

AGB92847

Polypeptides with Identical Sequences

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

218 aa isoforms: RpL13-PA, RpL13-PB, RpL13-PC

Additional Polypeptide Data and Comments

Reported size (kDa)

218 (aa)

(Helps et al., 1995)

Comments

External Data

Subunit Structure (UniProtKB)

Component of the 60S large ribosomal subunit (LSU).

(UniProt, P41126)

Crossreferences

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

PDB - An information portal to biological macromolecular structures

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\RpL13 using the Feature Mapper tool.

External Data

Crossreferences

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

RpL13_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).

-1.18

Transcript Expression

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

(Helps et al., 1995)

Additional Descriptive Data

RpL13 transcripts are detected at all stages of development on northern blots with the highest levels in 4-24hr embryos.

(Helps et al., 1995)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

day 7 of adulthood -- day 49 of adulthood

adult heart

(Cammarato et al., 2011)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cytosolic ribosome

inferred from high throughput direct assay

(Alonso and Santaren, 2006)

inferred from direct assay

(Anger et al., 2013)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\RpL13 in JBrowse

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

View exonic expression by developmental stage for Dmel\RpL13

View exonic expression by tissue for Dmel\RpL13

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

34329/tissue=All

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

FBgn0011272

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011272

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

FBgn0011272

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

CG4651

Flygut - An atlas of the Drosophila adult midgut

FBgn0011272

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 ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of RpL13

Transgenic constructs containing regulatory region of RpL13

Aberrations (Deficiencies and Duplications) ( 2 )

Inferred from experimentation ( 2 )

Gene disrupted in

Df(2L)ED714

(Marygold et al., 2007)

Df(2L)ED716

(Marygold et al., 2007)

Inferred from location ( 2 )

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) (1)

Hsap\RPL13

14 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) (3)

Rnor\Rpl13

14 of 14

Yes

Rnor\LOC100360491

11 of 14

Yes

Rnor\LOC100361259

11 of 14

Yes

Mus musculus (laboratory mouse) (2)

Mmus\Rpl13

13 of 14

Yes

Mmus\Rpl13-ps6

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (2)

Xtro\rpl13

11 of 13

Yes

Xtro\sdf2l1

1 of 13

Danio rerio (Zebrafish) (1)

Drer\rpl13

13 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\rpl-13

13 of 14

Yes

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP001805

12 of 12

Yes

Arabidopsis thaliana (thale-cress) (3)

Atha\AT5G23900

13 of 13

Yes

Atha\BBC1

13 of 13

Yes

Atha\AT3G48960

12 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (2)

Scer\RPL13A

13 of 13

Yes

Scer\RPL13B

13 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\rpl13

12 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:RpL13. 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) (1)

Agpat2

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

congenital heart defect (postulated), RPL13-related

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 1 )

Allele

Disease

Evidence

References

RpL13^KK108033

model of congenital heart disease

CEA

(Schroeder et al., 2019)

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?

RPL13; ribosomal protein L13

14 of 14

RIBOSOMAL PROTEIN L13; RPL13

SPONDYLOEPIMETAPHYSEAL DYSPLASIA, ISIDOR-TOUTAIN TYPE; SEMDIST

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

RpL13 - Lkb1

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL13 - Rack1

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - Rheb

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL13 - RpL10

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL10Ab

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL11

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL12

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL13A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL14

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL15

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL17

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL18

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL18A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL19

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL21

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL22

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL23

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL23A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL24

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL26

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL27

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL27A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL28

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL29

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL3

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL30

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL31

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL32

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL34a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL35

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - RpL35A

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - RpL36

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL36A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL37-1

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL37A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL38

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL39

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - RpL4

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL40

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - RpL41

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - RpL5

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL6

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL7

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL7A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL8

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpL9

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpLP0

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpLP1

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpLP2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS10a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS11

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS12

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS13

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS14a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS14b

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS15

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS15Aa

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS16

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS17

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS18

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS19a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS20

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS21

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS23

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS24

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS25

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS26

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS27

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS27A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS28b

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS29

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS3

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS30

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - RpS3A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS4

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS5a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS6

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS7

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS8

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - RpS9

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - S6kII

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL13 - Thor

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL13 - eEF2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - rictor

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL13 - sima

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL13 - sta

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL13 - vig2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RNA-protein

Physical Interaction

Assay

References

RpL13 - 18SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - 28SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - 2SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - 5.8SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL13 - 5SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

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

Subunit Structure (UniProtKB)

Component of the 60S large ribosomal subunit (LSU).

(UniProt, P41126 )

Linkouts

BioGRID - A database of protein and genetic interactions.

60423

DroID - A comprehensive database of gene and protein interactions.

FBgn0011272

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

34329

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

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

Ribosome

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

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-38

Cytogenetic map

30F3-30F3

Sequence location

2L:9,967,313..9,968,645 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

30F3-30F3

Limits computationally determined from genome sequence between P{EP}CG5899^EP701 and P{EP}CG4747^EP594&P{lacW}l(2)k13305^k13305

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

29E-29F

(Helps, 1994.2.28)

Experimentally Determined Recombination Data

Location

2-38

(FlyBase, 2016)

2-32.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (6)

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

Bloomington

43402

w^*; P{GSV1}Dref^EP-108 RpL13^EP-108

FlyORF

F001350

M{UAS-RpL13.ORF}ZH-86Fb

F000794

M{UAS-RpL13.ORF.3xHA}ZH-86Fb

NIG-Fly

4651R-2

P{NIG.4651R}2

2LG-1038

y² VhaAC39-1^cho-1 v¹; P{U6-RpL13.NIG.sgRNA}attP40/CyO

VDRC

v109503

P{KK108033}VIE-260B

Genomic Clones (15)

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

cDNA Clones (765)

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

LD24350

Other clones

MIP11288

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.

FBgn0011272

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0011272

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Haploinsufficient locus.

(Cook et al., 2012)

RNAi screen using dsRNA made from templates generated with primers directed against this gene results in aberrantly short, monopolar spindles when assayed in S2 cells. This phenotype can be observed when the screen is performed with or without Cdc27 dsRNA.

(Goshima et al., 2007)

Minute gene.

(Marygold et al., 2007)

Deletions removing RpL13 but no other cytoplasmic ribosomal protein-encoding genes show Minute phenotypes. The interval between flanking non-Minute deletions contains only RpL13.

(Marygold et al., 2007)

dsRNA made from templates generated with primers directed against RpL13 that is transfected into S2 treated with Listeria monocytogenes reveals RpL13 to be involved in Listeria monocytogenes vacuolar escape.

(Cheng et al., 2005)

The level of identity between RpL13 and the human BBC1 gene demonstrates the gene has been highly conserved throughout eukaryotic evolution. RpL13 is highly expressed during embryonic development and may have a role in the cell, possible nuclear and growth related.

(Helps et al., 1995)

Relationship to Other Genes

Source for database merge of

Source for merge of: RpL13 anon- EST:fe1D1

(Bayraktaroglu, 2000.11.2)

Additional comments

The genetically defined "M(2)31A" locus (characterized by previous aneuploidy analyses) likely comprises two separable, closely linked Minute genes ("RpL7" and "RpL13").

(Marygold et al., 2007)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (15)

Reported As

Symbol Synonym

Bbc1

CG4651

(National Institute of Genetics Fly Stocks, 2022-, Kolkhof et al., 2017, Fukuoh et al., 2014, Schertel et al., 2013, Cammarato et al., 2011, Müller et al., 2010, Keleman et al., 2009.8.5, Goshima et al., 2007, Marygold et al., 2007, Cermelli et al., 2006, Molnar et al., 2006)

Dmbbc1

(Kwon et al., 2003, Helps et al., 1995)

L13

(Wang et al., 2014, Carpenter et al., 2009)

L13e

(Anger et al., 2013)

RPL13

(Loganathan et al., 2022)

Rp L13

(Alonso and Santaren, 2006)

Rpl13

(Baig et al., 2010, Leemans et al., 2000)

anon-EST:fe1D1

bbc1

(Helps, 1994.2.28)

rpL13

(Helps et al., 1995)

Name Synonyms

Ribosomal protein L13

(Cammarato et al., 2011)

anon-fast-evolving-1D1

r-protein L13

(Helps et al., 1995)

Secondary FlyBase IDs

FBgn0014460
FBgn0025260

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 50 )

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.

34329

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.

P41126

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

P41126

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

M9PFF0

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.

P41126

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

34329/tissue=All

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

FBgn0011272

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

FBgn0011272

FlyMine - An integrated database for Drosophila genomics

FBgn0011272

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

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

dme:Dmel_CG4651

MARRVEL_MODEL - MARRVEL (model organism gene)

34329

PDB - An information portal to biological macromolecular structures

Linkouts

BioGRID - A database of protein and genetic interactions.

60423

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

FBgn0011272

DroID - A comprehensive database of gene and protein interactions.

FBgn0011272

DRSC - Results frm RNAi screens

FBgn0011272

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

RpL13_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011272

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0011272

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

CG4651

Flygut - An atlas of the Drosophila adult midgut

FBgn0011272

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0011272

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

TC031495

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

Ribosome

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

34329

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

References (82)

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

-1.18

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