Gene description for UPF3B
Gene name UPF3 regulator of nonsense transcripts homolog B (yeast)
Gene symbol UPF3B
Other names/aliases HUPF3B
MRX62
MRXS14
RENT3B
UPF3X
Species Homo sapiens
 Database cross references - UPF3B
ExoCarta ExoCarta_65109
Vesiclepedia VP_65109
Entrez Gene 65109
HGNC 20439
MIM 300298
UniProt Q9BZI7  
 UPF3B identified in exosomes derived from the following tissue/cell type
Retinal pigment epithelial cells 35333565    
Retinal pigment epithelial cells 35333565    
 Gene ontology annotations for UPF3B
Molecular Function
    RNA binding GO:0003723 HDA
    mRNA binding GO:0003729 IBA
    mRNA binding GO:0003729 IDA
    protein binding GO:0005515 IPI
Biological Process
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000184 IBA
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000184 IDA
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000184 IMP
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000184 NAS
    brain development GO:0007420 IEA
    neuron projection development GO:0031175 IEA
    positive regulation of neuron differentiation GO:0045666 IEA
    positive regulation of translation GO:0045727 IBA
    positive regulation of translation GO:0045727 IDA
    mRNA transport GO:0051028 IEA
    positive regulation of mRNA cis splicing, via spliceosome GO:1905746 IEA
Subcellular Localization
    nucleus GO:0005634 NAS
    nucleoplasm GO:0005654 IDA
    nucleoplasm GO:0005654 TAS
    nucleolus GO:0005730 IBA
    nucleolus GO:0005730 IDA
    cytoplasm GO:0005737 IBA
    cytoplasm GO:0005737 NAS
    cytosol GO:0005829 IDA
    cytosol GO:0005829 TAS
    centriolar satellite GO:0034451 IDA
    exon-exon junction complex GO:0035145 IDA
    neuronal cell body GO:0043025 IEA
 Experiment description of studies that identified UPF3B in exosomes
1
Experiment ID 834
MISEV standards
✔
EM
Biophysical techniques
✔
LAMP2|CD63|FLOT1|ITGA2B|ICAM1|CD9|CD151|TFRC|RAB5A|GAPDH|AQP1|TSG101
Enriched markers
✔
CANX
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35333565    
Organism Homo sapiens
Experiment description LAMP2A regulates the loading of proteins into exosomes
Authors "Ferreira JV, da Rosa Soares A, Ramalho J, Máximo Carvalho C, Cardoso MH, Pintado P, Carvalho AS, Beck HC, Matthiesen R, Zuzarte M, Girão H, van Niel G, Pereira P"
Journal name Sci Adv
Publication year 2022
Sample Retinal pigment epithelial cells
Sample name ARPE-19
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
2
Experiment ID 835
MISEV standards
✔
EM
Biophysical techniques
✔
CD63|FLOT1|ITGA2B|ICAM1|CD9|CD151|TFRC|RAB5A|GAPDH|AQP1|TSG101
Enriched markers
✔
CANX
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35333565    
Organism Homo sapiens
Experiment description LAMP2A regulates the loading of proteins into exosomes
Authors "Ferreira JV, da Rosa Soares A, Ramalho J, Máximo Carvalho C, Cardoso MH, Pintado P, Carvalho AS, Beck HC, Matthiesen R, Zuzarte M, Girão H, van Niel G, Pereira P"
Journal name Sci Adv
Publication year 2022
Sample Retinal pigment epithelial cells
Sample name ARPE-19
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
 Protein-protein interactions for UPF3B
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 MCRS1  
Two-hybrid Homo sapiens
2 HBB 3043
Protein-RNA Homo sapiens
3 NCBP1 4686
Affinity Capture-Western Homo sapiens
4 EEF1G 1937
Cross-Linking-MS (XL-MS) Homo sapiens
5 SMG6  
Affinity Capture-Western Homo sapiens
6 LAMP3  
Proximity Label-MS Homo sapiens
7 CSNK2A1 1457
Affinity Capture-MS Homo sapiens
8 CAND1 55832
Affinity Capture-MS Homo sapiens
9 SOX2  
Affinity Capture-MS Homo sapiens
10 USP36  
Affinity Capture-MS Homo sapiens
11 TOP2A 7153
Co-fractionation Homo sapiens
12 RNPS1 10921
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
13 DEFA5  
Affinity Capture-MS Homo sapiens
14 COPS5 10987
Affinity Capture-MS Homo sapiens
15 FBL 2091
Proximity Label-MS Homo sapiens
16 UTP20 27340
Co-fractionation Homo sapiens
17 MYCN  
Affinity Capture-MS Homo sapiens
18 RBM8A 9939
Reconstituted Complex Homo sapiens
19 FADS3 3995
Affinity Capture-MS Homo sapiens
20 PFN1 5216
Proximity Label-MS Homo sapiens
21 POLD1 5424
Affinity Capture-MS Homo sapiens
22 RC3H2  
Affinity Capture-MS Homo sapiens
23 USP21  
Affinity Capture-MS Homo sapiens
24 MEPCE 56257
Co-fractionation Homo sapiens
25 LYN 4067
Proximity Label-MS Homo sapiens
26 STAU1 6780
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
27 AKR7L 246181
Affinity Capture-MS Homo sapiens
28 TTC19  
Two-hybrid Homo sapiens
29 OGT 8473
Reconstituted Complex Homo sapiens
30 RPL31 6160
Proximity Label-MS Homo sapiens
31 IFI16 3428
Affinity Capture-MS Homo sapiens
32 SLC4A8 9498
Affinity Capture-MS Homo sapiens
33 NR2E1  
Affinity Capture-MS Homo sapiens
34 DCTN1 1639
Proximity Label-MS Homo sapiens
35 RPS6 6194
Proximity Label-MS Homo sapiens
36 HECTD1 25831
Affinity Capture-MS Homo sapiens
37 MAGOH 4116
Reconstituted Complex Homo sapiens
38 HIST1H2BK 85236
Cross-Linking-MS (XL-MS) Homo sapiens
39 CEBPA  
Protein-peptide Homo sapiens
40 RMDN3 55177
Proximity Label-MS Homo sapiens
41 YEATS4  
Affinity Capture-MS Homo sapiens
42 NASP 4678
Co-fractionation Homo sapiens
43 UPF1 5976
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
44 CIAO1 9391
Affinity Capture-MS Homo sapiens
45 XPO1 7514
Affinity Capture-MS Homo sapiens
46 EIF6 3692
Two-hybrid Homo sapiens
Proximity Label-MS Homo sapiens
47 TPR 7175
Cross-Linking-MS (XL-MS) Homo sapiens
48 RLIM 51132
Affinity Capture-MS Homo sapiens
49 RPS7 6201
Cross-Linking-MS (XL-MS) Homo sapiens
50 ARF6 382
Proximity Label-MS Homo sapiens
51 UPF3A  
Affinity Capture-Western Homo sapiens
Negative Genetic Homo sapiens
52 WIBG 84305
Co-fractionation Homo sapiens
53 SART1 9092
Co-fractionation Homo sapiens
54 NXF1 10482
Affinity Capture-Western Homo sapiens
55 SLC25A11 8402
Affinity Capture-MS Homo sapiens
56 PCBP1 5093
Affinity Capture-MS Homo sapiens
57 NEFM 4741
Cross-Linking-MS (XL-MS) Homo sapiens
58 HECW2  
Affinity Capture-MS Homo sapiens
59 DDRGK1 65992
Affinity Capture-MS Homo sapiens
60 RHOB 388
Proximity Label-MS Homo sapiens
61 UPF2 26019
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Two-hybrid Homo sapiens
Co-fractionation Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
62 NKAP 79576
Affinity Capture-MS Homo sapiens
63 PLEKHA4 57664
Affinity Capture-MS Homo sapiens
64 PRKCSH 5589
Co-fractionation Homo sapiens
65 RC3H1 149041
Affinity Capture-MS Homo sapiens
66 RBM25 58517
Co-fractionation Homo sapiens
67 WBP11  
Co-fractionation Homo sapiens
68 SAP18 10284
Co-fractionation Homo sapiens
69 CUL5 8065
Affinity Capture-MS Homo sapiens
70 HIST1H2BC 8347
Cross-Linking-MS (XL-MS) Homo sapiens
71 EIF4A3 9775
Co-fractionation Homo sapiens
Co-fractionation Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
72 UFL1 23376
Affinity Capture-MS Homo sapiens
73 RPS24 6229
Proximity Label-MS Homo sapiens
74 RAB2A 5862
Proximity Label-MS Homo sapiens
75 RPL7A 6130
Cross-Linking-MS (XL-MS) Homo sapiens
76 CIT 11113
Affinity Capture-MS Homo sapiens
77 SMG1 23049
Affinity Capture-Western Homo sapiens
78 SERBP1 26135
Proximity Label-MS Homo sapiens
79 KRAS 3845
Proximity Label-MS Homo sapiens
80 MYC  
Affinity Capture-MS Homo sapiens
81 SEC61A1 29927
Affinity Capture-MS Homo sapiens
82 SNRPA1 6627
Co-fractionation Homo sapiens
83 CCDC60  
Affinity Capture-MS Homo sapiens
84 WDHD1  
Co-fractionation Homo sapiens
85 NSUN5  
Cross-Linking-MS (XL-MS) Homo sapiens
86 CASC3  
Co-fractionation Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
87 ZNF280A  
Affinity Capture-MS Homo sapiens
88 PARN  
Co-fractionation Homo sapiens
View the network image/svg+xml



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