Gene description for Ddx39b
Gene name DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
Gene symbol Ddx39b
Other names/aliases 0610030D10Rik
AI428441
Bat-1
Bat1
Bat1a
D17H6S81E
D17H6S81E-1
D6S81Eh
Species Mus musculus
 Database cross references - Ddx39b
ExoCarta ExoCarta_53817
Vesiclepedia VP_53817
Entrez Gene 53817
UniProt Q9Z1N5  
 Ddx39b identified in sEVs derived from the following tissue/cell type
Colon cancer cells 37309723    
T-cell lymphoma cells 37309723    
 Gene ontology annotations for Ddx39b
Molecular Function
    DNA clamp loader activity GO:0003689 IEA
    RNA helicase activity GO:0003724 IBA
    RNA helicase activity GO:0003724 IEA
    RNA helicase activity GO:0003724 ISO
    mRNA binding GO:0003729 IBA
    ATP binding GO:0005524 IEA
    ATP-dependent activity, acting on RNA GO:0008186 ISO
    ATP hydrolysis activity GO:0016887 IEA
    ATP hydrolysis activity GO:0016887 ISO
    U6 snRNA binding GO:0017070 IEA
    U6 snRNA binding GO:0017070 ISO
    U4 snRNA binding GO:0030621 IEA
    U4 snRNA binding GO:0030621 ISO
    identical protein binding GO:0042802 IEA
    identical protein binding GO:0042802 ISO
    ATP-dependent protein binding GO:0043008 IEA
    ATP-dependent protein binding GO:0043008 ISO
    protein-containing complex binding GO:0044877 ISO
    cohesin loader activity GO:0061775 IEA
    chromatin extrusion motor activity GO:0140584 IEA
    ATP-dependent H3-H4 histone complex chaperone activity GO:0140665 IEA
    ATP-dependent H2AZ histone chaperone activity GO:0140849 IEA
Biological Process
    spliceosomal complex assembly GO:0000245 IEA
    spliceosomal complex assembly GO:0000245 ISO
    mRNA splicing, via spliceosome GO:0000398 IBA
    mRNA splicing, via spliceosome GO:0000398 ISO
    chromatin remodeling GO:0006338 IEA
    mRNA export from nucleus GO:0006406 IBA
    mRNA export from nucleus GO:0006406 IEA
    mRNA export from nucleus GO:0006406 ISO
    RNA splicing GO:0008380 ISO
    RNA secondary structure unwinding GO:0010501 IEA
    RNA secondary structure unwinding GO:0010501 ISO
    positive regulation of translation GO:0045727 ISO
    positive regulation of cell growth involved in cardiac muscle cell development GO:0061051 ISO
    chromatin looping GO:0140588 IEA
    positive regulation of vascular associated smooth muscle cell proliferation GO:1904707 ISO
    positive regulation of DNA biosynthetic process GO:2000573 ISO
Subcellular Localization
    transcription export complex GO:0000346 IEA
    transcription export complex GO:0000346 ISO
    nucleus GO:0005634 ISO
    spliceosomal complex GO:0005681 IEA
    spliceosomal complex GO:0005681 ISO
    U4 snRNP GO:0005687 IEA
    U4 snRNP GO:0005687 ISO
    U6 snRNP GO:0005688 IEA
    U6 snRNP GO:0005688 ISO
    cytoplasm GO:0005737 IEA
    cytoplasm GO:0005737 ISO
    nuclear matrix GO:0016363 ISO
    nuclear speck GO:0016607 IDA
    nuclear speck GO:0016607 ISO
    protein-containing complex GO:0032991 ISO
 Experiment description of studies that identified Ddx39b 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 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 Ddx39b
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 Alyref  
Co-fractionation Mus musculus
2 Sf1 22668
Co-fractionation Mus musculus
3 Rbm39 170791
Co-fractionation Mus musculus
4 Eed  
Affinity Capture-MS Mus musculus
5 Lmna 16905
Affinity Capture-MS Mus musculus
6 Snrnp200 320632
Co-fractionation Mus musculus
7 Atg16l1  
Affinity Capture-MS Mus musculus
8 Prpf31  
Co-fractionation Mus musculus
9 Plk1  
Two-hybrid Mus musculus
Affinity Capture-Western Mus musculus
Biochemical Activity Mus musculus
Reconstituted Complex Mus musculus
10 Srrm1 51796
Co-fractionation Mus musculus
11 Kctd13  
Affinity Capture-MS Mus musculus
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