Gene description for Rbm39
Gene name RNA binding motif protein 39
Gene symbol Rbm39
Other names/aliases 1500012C14Rik
2310040E03Rik
B330012G18Rik
C79248
R75070
Rnpc2
caper
Species Mus musculus
 Database cross references - Rbm39
ExoCarta ExoCarta_170791
Vesiclepedia VP_170791
Entrez Gene 170791
UniProt Q8VH51  
 Rbm39 identified in sEVs derived from the following tissue/cell type
Colon cancer cells 37309723    
Pancreatic cells 19351151    
T-cell lymphoma cells 37309723    
 Gene ontology annotations for Rbm39
Molecular Function
    RNA binding GO:0003723 IEA
    protein binding GO:0005515 IPI
    RS domain binding GO:0050733 IPI
    U1 snRNP binding GO:1990446 IBA
Biological Process
    mRNA processing GO:0006397 IEA
    RNA splicing GO:0008380 IEA
    positive regulation of DNA-templated transcription GO:0045893 IEA
    regulation of mRNA splicing, via spliceosome GO:0048024 ISO
    regulation of mRNA splicing, via spliceosome GO:0048024 ISS
Subcellular Localization
    nucleoplasm GO:0005654 ISO
    microtubule cytoskeleton GO:0015630 ISO
    nuclear speck GO:0016607 IEA
    nuclear speck GO:0016607 ISO
    protein-containing complex GO:0032991 IEA
    protein-containing complex GO:0032991 ISO
    centriolar satellite GO:0034451 IEA
    centriolar satellite GO:0034451 ISO
 Experiment description of studies that identified Rbm39 in sEVs
1
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
2
Experiment ID 188
MISEV standards
✔
EM
Biophysical techniques
✔
GAPDH|UCHL1|HSP90
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 19351151    
Organism Mus musculus
Experiment description Characterization of vesicles secreted from insulinoma NIT-1 cells.
Authors "Lee HS, Jeong J, Lee KJ."
Journal name J Proteome Res
Publication year 2009
Sample Pancreatic cells
Sample name Pancreatic beta cell (NIT-1)
Isolation/purification methods Differential centrifugation
Sucrose density gradient
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
3
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 Rbm39
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 Ddx5 13207
Co-fractionation Mus musculus
2 Kctd13  
Affinity Capture-MS Mus musculus
3 NCOA6  
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
4 Snrpd1 20641
Co-fractionation Mus musculus
5 Prpf8 192159
Co-fractionation Mus musculus
6 Cdc5l 71702
Co-fractionation Mus musculus
7 Rps2 16898
Co-fractionation Mus musculus
8 Snrnp200 320632
Co-fractionation Mus musculus
9 Atxn1  
Affinity Capture-MS Mus musculus
10 Cebpa  
Affinity Capture-MS Mus musculus
11 Sertad1  
Two-hybrid Mus musculus
12 Hnrnpu 51810
Co-fractionation Mus musculus
13 Hoxa2  
Two-hybrid Mus musculus
14 Pcbp1 23983
Co-fractionation Mus musculus
15 Ddx39b 53817
Co-fractionation Mus musculus
16 Prpf3 70767
Co-fractionation Mus musculus
17 Cited4  
Two-hybrid Mus musculus
18 Rsrc1  
Affinity Capture-Western Mus musculus
19 Tardbp 230908
Co-fractionation Mus musculus
20 Ctnnbl1  
Co-fractionation Mus musculus
21 Srpk2 20817
Co-fractionation Mus musculus
22 Srrm2  
Co-fractionation Mus musculus
23 Khdrbs1 20218
Two-hybrid Mus musculus
24 Rnf2  
Affinity Capture-MS Mus musculus
25 Rps13 68052
Co-fractionation Mus musculus
26 Eed  
Affinity Capture-MS Mus musculus
27 Esr2  
Two-hybrid Mus musculus
28 U2af2 22185
Co-fractionation Mus musculus
29 Atg12  
Positive Genetic Mus musculus
30 Fancd2  
Affinity Capture-MS Mus musculus
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