ExoCarta: Gene summary

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Gene description for Rpl4
Gene name	ribosomal protein L4
Gene symbol	Rpl4
Other names/aliases	2010004J23Rik
Species	Mus musculus
Database cross references - Rpl4
ExoCarta	ExoCarta_67891
Vesiclepedia	VP_67891
Entrez Gene	67891
UniProt	Q9D8E6
Rpl4 identified in sEVs derived from the following tissue/cell type
Colon cancer cells	37309723
Mast cells	17486113
T-cell lymphoma cells	37309723

Gene ontology annotations for Rpl4

Molecular Function
	RNA binding	GO:0003723	IBA
	structural constituent of ribosome	GO:0003735	IBA
	structural constituent of ribosome	GO:0003735	IDA
	structural constituent of ribosome	GO:0003735	ISO
	protein binding	GO:0005515	IPI
	5S rRNA binding	GO:0008097	ISO
Biological Process
	cytoplasmic translation	GO:0002181	NAS
	positive regulation of axon extension	GO:0045773	ISO
	positive regulation of axonogenesis	GO:0050772	ISO
	translation at presynapse	GO:0140236	NAS
	translation at postsynapse	GO:0140242	NAS
Subcellular Localization
	nucleus	GO:0005634	IEA
	nucleus	GO:0005634	ISO
	cytoplasm	GO:0005737	IDA
	rough endoplasmic reticulum	GO:0005791	IEA
	rough endoplasmic reticulum	GO:0005791	ISO
	cytosol	GO:0005829	TAS
	ribosome	GO:0005840	NAS
	postsynaptic density	GO:0014069	ISO
	large ribosomal subunit	GO:0015934	ISO
	cytosolic large ribosomal subunit	GO:0022625	IBA
	cytosolic large ribosomal subunit	GO:0022625	IDA
	cytosolic large ribosomal subunit	GO:0022625	IPI
	cytosolic large ribosomal subunit	GO:0022625	ISO
	cytosolic ribosome	GO:0022626	ISO
	A band	GO:0031672	ISO
	presynapse	GO:0098793	NAS
	postsynapse	GO:0098794	NAS
	ribonucleoprotein complex	GO:1990904	ISO

Experiment description of studies that identified Rpl4 in sEVs

Experiment ID

907

MISEV standards
✔ EM	Biophysical techniques
✔ Tsg101\|Sdcbp\|Cd151\|Gapdh\|Lamp2\|Cd81\|Cd82\|Cd9\|Cd63\|Cd80\|Flot2\|Tfrc\|Rab35\|Rab5a	Enriched markers
✔ HSPA5	Negative markers
✔ NTA	Particle analysis

Identified molecule

Protein

Identification method

Mass spectrometry

PubMed ID

37309723

Organism

Mus musculus

Experiment description

Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells

Authors

"Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."

Journal name

Proteomics

Publication year

2023

Sample

Colon cancer cells

Sample name

C26

Isolation/purification methods

Differential centrifugation
Ultracentrifugation

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Western blotting
Mass spectrometry

Experiment ID

MISEV standards
✔ EM	Biophysical techniques
✔ CD63	Enriched markers
✘	Negative markers
✘	Particle analysis

Identified molecule

protein

Identification method

Mass spectrometry

PubMed ID

17486113

Organism

Mus musculus
Homo sapiens

Experiment description

Exosome-mediated transfer of mRNAs and microRNAs is a novel mechanism of genetic exchange between cells.

Authors

"Valadi H, Ekstrom K, Bossios A, Sjostrand M, Lee JJ, Lotvall JO"

Journal name

NCB

Publication year

2007

Sample

Mast cells

Sample name

MC9
Bone marrow-derived mast cells
HMC-1

Isolation/purification methods

Filtration
Ultracentrifugation
Sucrose density gradient

Flotation density

1.11-1.21 g/mL

Molecules identified in the study

Protein
mRNA
miRNA

Methods used in the study

Mass spectrometry [MALDI TOF]
Western blotting
Microarray
miRCURY LNA Array

Experiment ID

908

MISEV standards
✔ EM	Biophysical techniques
✔ Tsg101\|Sdcbp\|Cd151\|Gapdh\|Lamp2\|Cd81\|Cd82\|Cd9\|Cd63\|Cd80\|Flot2\|Tfrc\|Rab35\|Rab5a	Enriched markers
✔ HSPA5	Negative markers
✔ NTA	Particle analysis

Identified molecule

Protein

Identification method

Mass spectrometry

PubMed ID

37309723

Organism

Mus musculus

Experiment description

Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells

Authors

"Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."

Journal name

Proteomics

Publication year

2023

Sample

T-cell lymphoma cells

Sample name

EL4

Isolation/purification methods

Differential centrifugation
Ultracentrifugation

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Western blotting
Mass spectrometry

Protein-protein interactions for Rpl4

Protein Interactor

ExoCarta ID

Identification method

PubMed

Species

Rps27a

78294

Co-fractionation

Mus musculus

Rps3

27050

Co-fractionation

Mus musculus

Rpl11

67025

Co-fractionation

Mus musculus

Rpl35

66489

Co-fractionation

Mus musculus

Foxl2

Two-hybrid

Mus musculus

Elf5

Affinity Capture-MS

Mus musculus

Rpl31

114641

Co-fractionation

Mus musculus

Hsp90ab1

15516

Co-fractionation

Mus musculus

Rpl38

Co-fractionation

Mus musculus

Rps19

20085

Co-fractionation

Mus musculus

Rps15a

267019

Co-fractionation

Mus musculus

Rps10

67097

Co-fractionation

Mus musculus

Rpl13a

22121

Co-fractionation

Mus musculus

Eif5a

276770

Co-fractionation

Mus musculus

Dhx29

Co-fractionation

Mus musculus

Rpl15

66480

Co-fractionation

Mus musculus

Rplp2

67186

Co-fractionation

Mus musculus

CCNB1

891

Two-hybrid

Homo sapiens

Snd1

56463

Co-fractionation

Mus musculus

Rpl14

67115

Co-fractionation

Mus musculus

Rps2

16898

Co-fractionation

Mus musculus

Rpl10a

19896

Co-fractionation

Mus musculus

Rps8

20116

Co-fractionation

Mus musculus

Pkm

18746

Co-fractionation

Mus musculus

Rps23

66475

Co-fractionation

Mus musculus

Rpl7a

27176

Co-fractionation

Mus musculus

Rps18

20084

Co-fractionation

Mus musculus

Rpl27

19942

Co-fractionation

Mus musculus

Rpl6

19988

Co-fractionation

Mus musculus

Kctd13

Affinity Capture-MS

Mus musculus

Rpl29

19944

Co-fractionation

Mus musculus

Tfe3

Affinity Capture-MS

Mus musculus

Rpl24

68193

Co-fractionation

Mus musculus

Rplp0

11837

Co-fractionation

Mus musculus

Tpt1

22070

Co-fractionation

Mus musculus

Rps11

27207

Co-fractionation

Mus musculus

Eef2

13629

Co-fractionation

Mus musculus

Rpl17

319195

Co-fractionation

Mus musculus

Rpl22

19934

Co-fractionation

Mus musculus

Rps16

20055

Co-fractionation

Mus musculus

Tmem173

Proximity Label-MS

Mus musculus

Fzr1

Affinity Capture-MS

Mus musculus

Pabpc1

18458

Co-fractionation

Mus musculus

Rps20

67427

Co-fractionation

Mus musculus

Raver1

Co-fractionation

Mus musculus

Pa2g4

18813

Co-fractionation

Mus musculus

Rpl12

269261

Co-fractionation

Mus musculus

Rpl18

19899

Co-fractionation

Mus musculus

Rps9

76846

Co-fractionation

Mus musculus

Rps21

66481

Co-fractionation

Mus musculus

Rpl7

19989

Co-fractionation

Mus musculus

Cdc37

12539

Co-fractionation

Mus musculus

Rpl39

67248

Co-fractionation

Mus musculus

Rps28

54127

Co-fractionation

Mus musculus

Gnb2l1

14694

Co-fractionation

Mus musculus

Dnajc1

Co-fractionation

Mus musculus

Eef1a1

13627

Co-fractionation

Mus musculus

Rps3a1

20091

Co-fractionation

Mus musculus

Pde12

Co-fractionation

Mus musculus

Rpl36a

19982

Co-fractionation

Mus musculus

Npm1

18148

Affinity Capture-MS

Mus musculus

Rps13

68052

Co-fractionation

Mus musculus

Fancd2

Affinity Capture-MS

Mus musculus

Rpl23

65019

Co-fractionation

Mus musculus

Rpl23a

268449

Co-fractionation

Mus musculus

Rps14

20044

Co-fractionation

Mus musculus

Rps6

20104

Co-fractionation

Mus musculus

Rpl30

19946

Co-fractionation

Mus musculus

Eed

Affinity Capture-MS

Mus musculus

Rpsa

16785

Co-fractionation

Mus musculus

Rpl26

19941

Co-fractionation

Mus musculus

Eef1b2

55949

Co-fractionation

Mus musculus

Rpl5

100503670

Co-fractionation

Mus musculus

Otx2

Affinity Capture-MS

Mus musculus

Rpl13

270106

Co-fractionation

Mus musculus

Rpl8

26961

Co-fractionation

Mus musculus

Tcf3

Affinity Capture-MS

Mus musculus

View the network

Pathways in which Rpl4 is involved

Pathway	Evidence	Source
Cap-dependent Translation Initiation	IEA	Reactome
Eukaryotic Translation Initiation	IEA	Reactome
Formation of a pool of free 40S subunits	IEA	Reactome
GTP hydrolysis and joining of the 60S ribosomal subunit	IEA	Reactome
L13a-mediated translational silencing of Ceruloplasmin expression	IEA	Reactome
Major pathway of rRNA processing in the nucleolus and cytosol	IEA	Reactome
Metabolism of proteins	IEA	Reactome
Metabolism of RNA	IEA	Reactome
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)	IEA	Reactome
Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)	IEA	Reactome
Nonsense-Mediated Decay (NMD)	IEA	Reactome
rRNA processing	IEA	Reactome
rRNA processing in the nucleus and cytosol	IEA	Reactome
SRP-dependent cotranslational protein targeting to membrane	IEA	Reactome
Translation	IEA	Reactome

Perform bioinformatics analysis of your extracellular vesicle data set using FunRich, a open access standalone tool. NEW UPDATED VERSION OF FunRich available for download (12/09/2016) from here