FlyBase Gene Report: Dmel\RpL4

General Information

Symbol

Dmel\RpL4

Species

D. melanogaster

Name

Ribosomal protein L4

Annotation Symbol

CG5502

Feature Type

protein_coding_gene

FlyBase ID

FBgn0003279

Gene Model Status

Current

Stock Availability

5 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

RpL1, L4, Ribosomal protein L1

Key Links

Genomic Location

Cytogenetic map

98B6-98B6

Sequence location

3R:27,922,821..27,924,888 [+]

Recombination map

3-94

RefSeq locus

NT_033777 REGION:27922821..27924888

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 (7 terms)

Molecular Function (2 terms)

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 (2 terms)

CV Term

Evidence

References

enables RNA binding

inferred from biological aspect of ancestor with PANTHER:PTN000454620

(GO Reference Genome Project, 2011-)

enables structural constituent of ribosome

inferred from electronic annotation with InterPro:IPR002136, InterPro:IPR023574

(InterPro Project Members, 2004-)

traceable author statement

(Marygold et al., 2007)

inferred from biological aspect of ancestor with PANTHER:PTN000454620

(GO Reference Genome Project, 2011-)

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:IPR002136, InterPro:IPR023574

(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:PTN000454620

(GO Reference Genome Project, 2011-)

located_in ribosome

inferred from electronic annotation with InterPro:IPR002136, InterPro:IPR023574

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

CYTOPLASMIC LARGE RIBOSOMAL PROTEINS

Protein Family (UniProt)

Belongs to the universal ribosomal protein uL4 family. (P09180)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

CYTOPLASMIC LARGE RIBOSOMAL PROTEINS -: Cytoplasmic ribosomes are found on the endoplasmic reticulum and in the cytoplasm. 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).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\RpL4 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 P09180)

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 5.47

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

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

RpL4-RA

FBtr0085248

NM_079814

1400

401

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

RpL4-PA

FBpp0084617

45.0

401

12.02

P09180

NP_524538

AAG22173

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

PDB - An information portal to biological macromolecular structures

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

P09180

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\RpL4 using the Feature Mapper tool.

External Data

Crossreferences

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).

-1.04

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 13 -- 16

organism | ubiquitous

(Fisher et al., 2012)

Additional Descriptive Data

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 5 of adulthood & male -- day 7 of adulthood & male

spermatozoon

(Wasbrough et al., 2010)

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\RpL4 in JBrowse

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

View exonic expression by developmental stage for Dmel\RpL4

View exonic expression by tissue for Dmel\RpL4

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

FBgn0003279

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

43349/tissue=All

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

FBgn0003279

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0003279

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

FBgn0003279

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

CG5502

Flygut - An atlas of the Drosophila adult midgut

FBgn0003279

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of RpL4

Transgenic constructs containing regulatory region of RpL4

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3R)ED6276

(Marygold 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

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

RpL4^GD11675

lethal - all die during larval stage, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

RpL4^GD11675

partially lethal, with Scer\GAL4^tin.CΔ4

RpL4^GD11675

Other Phenotypes

Allele

abnormal neuroanatomy | larval stage, with Scer\GAL4⁴⁷⁷, Scer\GAL4^ppk.1.9

RpL4^KK108442

some die during larval stage, with Scer\GAL4^tin.CΔ4

RpL4^GD11675

Phenotype manifest in

Allele

dendrite | larval stage, with Scer\GAL4⁴⁷⁷, Scer\GAL4^ppk.1.9

RpL4^KK108442

filamentous actin | larval stage, with Scer\GAL4⁴⁷⁷

RpL4^KK108442

larval multidendritic class IV neuron, with Scer\GAL4⁴⁷⁷

RpL4^KK108442

larval multidendritic class IV neuron, with Scer\GAL4⁴⁷⁷, Scer\GAL4^ppk.1.9

RpL4^KK108442

microtubule | larval stage, with Scer\GAL4⁴⁷⁷

RpL4^KK108442

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (3)

Hsap\RPL4

14 of 14

Yes

Hsap\MRPL4

1 of 14

Hsap\RPS16

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) (3)

Rnor\Rpl4

14 of 14

Yes

Rnor\Mrpl4

1 of 14

Rnor\Rps16

1 of 14

Mus musculus (laboratory mouse) (3)

Mmus\Rpl4

13 of 14

Yes

Mmus\Mrpl4

1 of 14

Mmus\Rps16

1 of 14

Xenopus tropicalis (Western clawed frog) (2)

Xtro\rpl4

11 of 13

Yes

Xtro\itih3

1 of 13

Yes

Danio rerio (Zebrafish) (3)

Drer\rpl4

14 of 14

Yes

Drer\mrpl4

1 of 14

Drer\rps16

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (3)

Cele\rpl-4

14 of 14

Yes

Cele\mrpl-4

1 of 14

Cele\rps-16

1 of 14

Anopheles gambiae (African malaria mosquito) (3)

Agam\AgaP_AGAP002306

12 of 12

Yes

Agam\AgaP_AGAP007937

1 of 12

Agam\AgaP_AGAP011424

1 of 12

Arabidopsis thaliana (thale-cress) (7)

Atha\AT3G09630

13 of 13

Yes

Atha\AT5G02870

13 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (5)

Scer\RPL4A

13 of 13

Yes

Scer\RPL4B

13 of 13

Yes

Scer\RPS16A

1 of 13

Scer\RPS16B

1 of 13

Scer\YML6

1 of 13

Schizosaccharomyces pombe (Fission yeast) (5)

Spom\rpl401

12 of 12

Yes

Spom\rpl402

12 of 12

Yes

Spom\rps1601

1 of 12

Spom\rps1602

1 of 12

Spom\SPBC2D10.08c

1 of 12

Escherichia coli (enterobacterium) (1)

Ecol\rplD

1 of 11

Yes

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:RpL4. 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) (2)

mRpL4

1 of 13

RpS16

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?

RPL4; ribosomal protein L4

14 of 14

180479

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

RpL4 - Mer

anti tag coimmunoprecipitation, peptide massfingerprinting

(Kwon et al., 2013)

RpL4 - Myc

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL4 - Rack1

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - RpL10

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL10Ab

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL11

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL12

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL13

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL13A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL14

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL15

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL17

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL18

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL18A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL19

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL21

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL22

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL23

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL23A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL24

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL26

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL27

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL27A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL28

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL29

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL3

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL30

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL31

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL32

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL34a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL35

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - RpL35A

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - RpL36

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL36A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL37-1

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL37A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL38

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL39

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - RpL40

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - RpL41

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - RpL5

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL6

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL7

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL7A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL8

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpL9

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpLP0

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpLP1

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpLP2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS10a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS11

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS12

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS13

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS14a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS14b

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS15

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS15Aa

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS16

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS17

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS18

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS19a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS20

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS21

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS23

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS24

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS25

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS26

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS27

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS27A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS28b

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS29

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS3

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS30

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - RpS3A

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS4

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS5a

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS6

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS7

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS8

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - RpS9

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - S6kII

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL4 - chico

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL4 - eEF2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - gig

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

RpL4 - sta

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RpL4 - vig2

cosedimentation, Identification by mass spectrometry, electron microscopy

(Anger et al., 2013)

RNA-protein

Physical Interaction

Assay

References

RpL4 - 18SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - 28SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - 2SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - 5.8SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

RpL4 - 5SrRNA

cosedimentation, electron microscopy

(Anger et al., 2013)

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.

68230

DroID - A comprehensive database of gene and protein interactions.

FBgn0003279

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

43349

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

3-94

Cytogenetic map

98B6-98B6

Sequence location

3R:27,922,821..27,924,888 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

98B6-98B6

Limits computationally determined from genome sequence between P{PZ}btz^rL203 and P{PZ}l(3)06487⁰⁶⁴⁸⁷

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

98B2-98B2

(determined by in situ hybridisation)

(Ranz et al., 2001)

98A-98B

(determined by in situ hybridisation)

(Rafti et al., 1988)

Experimentally Determined Recombination Data

Location

3-94

(FlyBase, 2016)

3-92.4

(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

FlyORF

F000966

M{UAS-RpL4.ORF.3xHA}ZH-86Fb

Kyoto

112035

w^*; P{GawB}RpL4^NP0086 / TM6, P{UAS-lacZ.UW23-1}UW23-1

5502R-3

v101346

v49441

w¹¹¹⁸; P{GD11675}v49441/TM3

Genomic Clones (18)

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

cDNA Clones (1236)

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

LD21756

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.

FBgn0003279

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0003279

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)

Likely Minute gene.

(Marygold et al., 2007)

Deletions removing RpL4 but no other cytoplasmic ribosomal protein-encoding genes show Minute phenotypes.

(Marygold et al., 2007)

Isolated from a cDNA library, using a X.laevis ribosomal protein L1 cDNA as a probe.

(Rafti et al., 1989)

An RpL4 cDNA has been cloned and sequenced.

(Rafti et al., 1989)

Relationship to Other Genes

Source for database merge of

Source for merge of: RpL4 anon-WO0172774.76

(FlyBase, 1996-)

Additional comments

"RpL4" likely corresponds to "M(3)98B".

(Marygold et al., 2007)

Source for merge of RpL4 anon-WO0172774.76 was sequence comparison ( date:051113 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (11)

Reported As

Symbol Synonym

CG5502

(Hamoudi et al., 2024, Kolkhof et al., 2017, Schertel et al., 2013, Jaspers et al., 2012, Cammarato et al., 2011, Müller et al., 2010, Blagden et al., 2009, Keleman et al., 2009.8.5, Worringer et al., 2009, Marygold et al., 2007, Cermelli et al., 2006, Huang et al., 2005, Fulton et al., 2001)

(Wang et al., 2014, Anger et al., 2013)

Rp L4

(Alonso and Santaren, 2006)

RpL1

(Orian et al., 2003, Anholt and Mackay, 2001, Ranz et al., 2001, Ranz et al., 2001, Rafti et al., 1989)

anon-WO0172774.76

chr3R:23749174..23749334

(Will et al., 2013)

rpL1

Name Synonyms

60S RIBOSOMAL PROTEIN L4

(Hull et al., 2015)

Ribosomal protein L1

(Cho et al., 2005)

Ribosomal protein L4

(Jaspers et al., 2012, Cammarato et al., 2011, Mack et al., 2006, Ashburner and Marygold, 2004.7.2)

Secondary FlyBase IDs

FBgn0046357

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.

43349

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.

P09180

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

P09180

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.

P09180

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0003279

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

43349/tissue=All

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

FBgn0003279

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

FBgn0003279

FlyMine - An integrated database for Drosophila genomics

FBgn0003279

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

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

dme:Dmel_CG5502

MARRVEL_MODEL - MARRVEL (model organism gene)

43349

PDB - An information portal to biological macromolecular structures

Linkouts

BioGRID - A database of protein and genetic interactions.

68230

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

FBgn0003279

DroID - A comprehensive database of gene and protein interactions.

FBgn0003279

DRSC - Results frm RNAi screens

FBgn0003279

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0003279

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0003279

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

CG5502

Flygut - An atlas of the Drosophila adult midgut

FBgn0003279

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

FBgn0003279

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

TC013168

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

43349

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

References (92)

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

-1.04

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