Gene description for EXOSC4
Gene name exosome component 4
Gene symbol EXOSC4
Other names/aliases RRP41
RRP41A
Rrp41p
SKI6
Ski6p
hRrp41p
p12A
Species Homo sapiens
 Database cross references - EXOSC4
ExoCarta ExoCarta_54512
Vesiclepedia VP_54512
Entrez Gene 54512
HGNC 18189
MIM 606491
UniProt Q9NPD3  
 EXOSC4 identified in exosomes derived from the following tissue/cell type
Chondrocytes 35931686    
Chondrocytes 35931686    
Mesenchymal stem cells 36408942    
Thymus 23844026    
 Gene ontology annotations for EXOSC4
Molecular Function
    AU-rich element binding GO:0017091 IDA
    protein binding GO:0005515 IPI
    3'-5'-exoribonuclease activity GO:0000175 NAS
    exoribonuclease activity GO:0004532 IDA
Biological Process
    rRNA catabolic process GO:0016075 IBA
    DNA deamination GO:0045006 IDA
    gene expression GO:0010467 TAS
    nuclear mRNA surveillance GO:0071028 IMP
    positive regulation of cell growth GO:0030307 IMP
    histone mRNA catabolic process GO:0071044 IMP
    rRNA 3'-end processing GO:0031125 IBA
    nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' GO:0034427 IBA
    exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay GO:0043928 TAS
    nuclear-transcribed mRNA catabolic process GO:0000956 IMP
    maturation of 5.8S rRNA GO:0000460 IMP
    U4 snRNA 3'-end processing GO:0034475 IBA
    polyadenylation-dependent snoRNA 3'-end processing GO:0071051 IBA
    RNA phosphodiester bond hydrolysis, exonucleolytic GO:0090503 NAS
    nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay GO:0000288 TAS
    rRNA processing GO:0006364 NAS
    defense response to virus GO:0051607 IMP
Subcellular Localization
    cytoplasmic exosome (RNase complex) GO:0000177 IBA
    nucleolus GO:0005730 NAS
    nucleus GO:0005634 IDA
    cytoplasm GO:0005737 NAS
    exosome (RNase complex) GO:0000178 IDA
    transcriptionally active chromatin GO:0035327 IMP
    nuclear exosome (RNase complex) GO:0000176 IBA
    cytosol GO:0005829 TAS
 Experiment description of studies that identified EXOSC4 in exosomes
1
Experiment ID 497
MISEV standards
✘ EV Biophysical techniques
✔
CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1
EV Enriched markers
✘ EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35931686    
Organism Homo sapiens
Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression
Authors Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD.
Journal name Cell Death Dis
Publication year 2022
Sample Chondrocytes
Sample name T/C-28a2
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
2
Experiment ID 498
MISEV standards
✔
EM
EV Biophysical techniques
✔
CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1
EV Enriched markers
✘ EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35931686    
Organism Homo sapiens
Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression
Authors Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD.
Journal name Cell Death Dis
Publication year 2022
Sample Chondrocytes
Sample name T/C-28a2
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
3
Experiment ID 488
MISEV standards
✔
EM
EV Biophysical techniques
✔
CD9|CD81|CD63|GAPDH|SDCBP|LAMP1|TFRC|UCHL1|FLOT2|LAMP2|FLOT1|ICAM1|RAB5B|CD151|RAB35|TSG101|RAB5A|CD82
EV Enriched markers
✔
CANX
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Homo sapiens
Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells
Authors Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ.
Journal name Proteomics
Publication year 2023
Sample Mesenchymal stem cells
Sample name UCMSC
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
4
Experiment ID 217
MISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101|CD81|CD9|CD63
EV Enriched markers
✘ EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23844026    
Organism Homo sapiens
Experiment description Characterization of human thymic exosomes.
Authors Skogberg G, Gudmundsdottir J, van der Post S, Sandstrom K, Bruhn S, Benson M, Mincheva-Nilsson L, Baranov V, Telemo E, Ekwall O.
Journal name PLoS One
Publication year 2013
Sample Thymus
Sample name Normal-Thymus
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
 Protein-protein interactions for EXOSC4
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 UPF3A  
Affinity Capture-Western Homo sapiens
2 LRRC8D 55144
Affinity Capture-MS Homo sapiens
3 AKR1A1 10327
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
4 EXOSC7 23016
Affinity Capture-MS Homo sapiens
5 TSEN15 116461
Affinity Capture-MS Homo sapiens
6 UPF1 5976
Affinity Capture-Western Homo sapiens
7 EXOSC1 51013
Affinity Capture-MS Homo sapiens
8 EEF1A1 1915
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
9 DOM3Z  
Affinity Capture-MS Homo sapiens
10 EXOSC3 51010
Affinity Capture-MS Homo sapiens
11 EXOSC4 54512
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
12 SKIV2L  
Affinity Capture-MS Homo sapiens
13 MPZL1 9019
Affinity Capture-MS Homo sapiens
14 UPF2 26019
Affinity Capture-Western Homo sapiens
15 GTF2IRD1  
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
View the network image/svg+xml



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