Gene description for Upf1
Gene name UPF1 regulator of nonsense transcripts homolog (yeast)
Gene symbol Upf1
Other names/aliases B430202H16Rik
NORF1
PNORF-1
Rent1
Upflp
Species Mus musculus
 Database cross references - Upf1
ExoCarta ExoCarta_19704
Vesiclepedia VP_19704
Entrez Gene 19704
UniProt Q9EPU0  
 Upf1 identified in sEVs derived from the following tissue/cell type
Colon cancer cells 37309723    
T-cell lymphoma cells 37309723    
 Gene ontology annotations for Upf1
Molecular Function
    chromatin binding GO:0003682 ISO
    chromatin binding GO:0003682 ISS
    DNA clamp loader activity GO:0003689 IEA
    RNA binding GO:0003723 IBA
    RNA binding GO:0003723 ISO
    RNA binding GO:0003723 ISS
    RNA helicase activity GO:0003724 IBA
    RNA helicase activity GO:0003724 ISO
    RNA helicase activity GO:0003724 ISS
    protein binding GO:0005515 IPI
    ATP binding GO:0005524 IEA
    zinc ion binding GO:0008270 IEA
    ATP hydrolysis activity GO:0016887 ISO
    ATP hydrolysis activity GO:0016887 ISS
    double-stranded DNA helicase activity GO:0036121 ISO
    double-stranded DNA helicase activity GO:0036121 ISS
    telomeric DNA binding GO:0042162 IEA
    telomeric DNA binding GO:0042162 ISO
    protein-containing complex binding GO:0044877 IEA
    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
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000184 IBA
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000184 ISO
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000184 ISS
    nuclear-transcribed mRNA catabolic process GO:0000956 ISO
    DNA replication GO:0006260 ISO
    DNA replication GO:0006260 ISS
    DNA repair GO:0006281 ISO
    DNA repair GO:0006281 ISS
    chromatin remodeling GO:0006338 IEA
    regulation of translational termination GO:0006449 ISO
    regulation of translational termination GO:0006449 ISS
    telomere maintenance via semi-conservative replication GO:0032201 IEA
    telomere maintenance via semi-conservative replication GO:0032201 ISO
    regulation of telomere maintenance GO:0032204 IEA
    regulation of telomere maintenance GO:0032204 ISO
    DNA duplex unwinding GO:0032508 ISO
    DNA duplex unwinding GO:0032508 ISS
    cell cycle phase transition GO:0044770 ISO
    cell cycle phase transition GO:0044770 ISS
    positive regulation of mRNA catabolic process GO:0061014 ISO
    3'-UTR-mediated mRNA destabilization GO:0061158 ISO
    3'-UTR-mediated mRNA destabilization GO:0061158 ISS
    histone mRNA catabolic process GO:0071044 ISO
    histone mRNA catabolic process GO:0071044 ISS
    cellular response to lipopolysaccharide GO:0071222 ISS
    cellular response to interleukin-1 GO:0071347 ISS
    chromatin looping GO:0140588 IEA
    positive regulation of mRNA cis splicing, via spliceosome GO:1905746 IMP
Subcellular Localization
    chromosome, telomeric region GO:0000781 IEA
    chromosome, telomeric region GO:0000781 ISO
    chromatin GO:0000785 ISO
    chromatin GO:0000785 ISS
    P-body GO:0000932 IEA
    nucleus GO:0005634 ISO
    nucleoplasm GO:0005654 IEA
    nucleoplasm GO:0005654 ISO
    cytoplasm GO:0005737 IBA
    cytosol GO:0005829 ISO
    cytosol GO:0005829 TAS
    exon-exon junction complex GO:0035145 IEA
    exon-exon junction complex GO:0035145 ISO
    supraspliceosomal complex GO:0044530 IEA
    supraspliceosomal complex GO:0044530 ISO
    perinuclear region of cytoplasm GO:0048471 IEA
 Experiment description of studies that identified Upf1 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 Upf1
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 Rpl11 67025
Co-fractionation Mus musculus
2 Kctd13  
Affinity Capture-MS Mus musculus
3 Fxr1 14359
Affinity Capture-MS Mus musculus
4 Lcn2  
Co-fractionation Mus musculus
5 Ruvbl2 20174
Co-fractionation Mus musculus
6 MKRN1 23608
Affinity Capture-MS Homo sapiens
7 Smg5  
Co-fractionation Mus musculus
8 Csnk2b 13001
Co-fractionation Mus musculus
9 Pou5f1  
Affinity Capture-MS Mus musculus
10 Eif3b 27979
Co-fractionation Mus musculus
11 Lsm8  
Co-fractionation Mus musculus
12 Rpl7a 27176
Co-fractionation Mus musculus
13 Rbm8a  
Co-fractionation Mus musculus
14 Atxn1  
Affinity Capture-MS Mus musculus
15 Fzr1  
Affinity Capture-MS Mus musculus
16 Eif4e  
Co-fractionation Mus musculus
17 Smg1  
Co-fractionation Mus musculus
18 Tardbp 230908
Co-fractionation Mus musculus
19 Ndrg1 17988
Co-fractionation Mus musculus
20 Eef2 13629
Co-fractionation Mus musculus
21 Yars2  
Co-fractionation Mus musculus
22 Herc2  
Affinity Capture-MS Mus musculus
23 Eif2s2 67204
Co-fractionation Mus musculus
24 Smg7  
Co-fractionation Mus musculus
25 Mycbp2 105689
Affinity Capture-MS Mus musculus
26 Pabpc1 18458
Co-fractionation Mus musculus
27 Casc3  
Co-fractionation Mus musculus
28 Gnptg  
Co-fractionation Mus musculus
29 Elavl1 15568
Co-fractionation Mus musculus
30 Zbtb7b  
Affinity Capture-MS Mus musculus
31 Cul5 75717
Co-fractionation Mus musculus
32 Eci1  
Cross-Linking-MS (XL-MS) Mus musculus
33 Eif2s1 13665
Co-fractionation Mus musculus
34 Eed  
Affinity Capture-MS Mus musculus
35 Atg12  
Negative Genetic Mus musculus
36 Fancd2  
Affinity Capture-MS Mus musculus
View the network image/svg+xml



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