Gene description for XRN1
Gene name 5'-3' exoribonuclease 1
Gene symbol XRN1
Other names/aliases SEP1
Species Homo sapiens
 Database cross references - XRN1
ExoCarta ExoCarta_54464
Vesiclepedia VP_54464
Entrez Gene 54464
HGNC 30654
MIM 607994
UniProt Q8IZH2  
 XRN1 identified in sEVs derived from the following tissue/cell type
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Hepatocellular carcinoma cells 26054723    
Mesenchymal stem cells 36408942    
 Gene ontology annotations for XRN1
Molecular Function
    G-quadruplex RNA binding GO:0002151 ISS
    RNA binding GO:0003723 HDA
    RNA binding GO:0003723 IBA
    5'-3' RNA exonuclease activity GO:0004534 IBA
    5'-3' RNA exonuclease activity GO:0004534 IMP
    5'-3' RNA exonuclease activity GO:0004534 ISS
    protein binding GO:0005515 IPI
    G-quadruplex DNA binding GO:0051880 ISS
    telomerase RNA binding GO:0070034 IPI
Biological Process
    nuclear-transcribed mRNA catabolic process GO:0000956 IBA
    nuclear-transcribed mRNA catabolic process GO:0000956 IMP
    rRNA catabolic process GO:0016075 IBA
    rRNA catabolic process GO:0016075 IMP
    negative regulation of translation GO:0017148 IEA
    negative regulation of telomere maintenance via telomerase GO:0032211 IC
    response to testosterone GO:0033574 IEA
    nuclear mRNA surveillance GO:0071028 IMP
    histone mRNA catabolic process GO:0071044 IMP
    cellular response to cycloheximide GO:0071409 IEA
    cellular response to puromycin GO:1905795 IEA
Subcellular Localization
    P-body GO:0000932 IEA
    nucleus GO:0005634 IBA
    cytosol GO:0005829 IDA
    cytosol GO:0005829 TAS
    plasma membrane GO:0005886 IDA
    membrane GO:0016020 HDA
    dendrite GO:0030425 IEA
    neuronal cell body GO:0043025 IEA
 Experiment description of studies that identified XRN1 in sEVs
1
Experiment ID 489
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 6
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 490
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 7
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 491
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 8
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 492
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
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 Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 9
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
5
Experiment ID 235
MISEV standards
✔
EM
Biophysical techniques
✔
TSG101|Alix|HSC70|GAPDH
Enriched markers
✔
HSP90B1
Negative markers
✔
qNano
Particle analysis
Identified molecule mRNA
Identification method RNA Sequencing
PubMed ID 26054723    
Organism Homo sapiens
Experiment description Hepatocellular carcinoma-derived exosomes promote motility of immortalized hepatocyte through transfer of oncogenic proteins and RNAs
Authors "He M, Qin H, Poon TC, Sze SC, Ding X, Co NN, Ngai SM, Chan TF, Wong N"
Journal name Carcinogenesis
Publication year 2015
Sample Hepatocellular carcinoma cells
Sample name HKCI-8
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Sucrose density gradient
Flotation density 1.13-1.19 g/mL
Molecules identified in the study Protein
RNA
Methods used in the study Western blotting
Mass spectrometry
RT-PCR
RNA Sequencing
6
Experiment ID 488
MISEV standards
✔
EM
Biophysical techniques
✔
CD9|CD81|CD63|GAPDH|SDCBP|LAMP1|TFRC|UCHL1|FLOT2|LAMP2|FLOT1|ICAM1|RAB5B|CD151|RAB35|TSG101|RAB5A|CD82
Enriched markers
✔
CANX
Negative markers
✔
NTA
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
 Protein-protein interactions for XRN1
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 MAN2C1 4123
Two-hybrid Homo sapiens
2 ZNF668  
Affinity Capture-MS Homo sapiens
3 Cdk1 12534
Affinity Capture-MS Mus musculus
4 SKIV2L 6499
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
5 DCP1B  
Two-hybrid Homo sapiens
6 RPL30 6156
Affinity Capture-MS Homo sapiens
7 LDHA 3939
Two-hybrid Homo sapiens
8 TARDBP 23435
Affinity Capture-MS Homo sapiens
9 RPA2 6118
Affinity Capture-MS Homo sapiens
10 RPL13A 23521
Affinity Capture-MS Homo sapiens
11 KIF20A 10112
Affinity Capture-MS Homo sapiens
12 LSM4 25804
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
13 RPL14 9045
Affinity Capture-MS Homo sapiens
14 CALM1 801
Affinity Capture-MS Homo sapiens
15 FGF3  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
16 SNHG1 23642
Two-hybrid Homo sapiens
17 SMARCD2 6603
Two-hybrid Homo sapiens
18 SOX2  
Affinity Capture-MS Homo sapiens
19 LGALS3BP 3959
Two-hybrid Homo sapiens
20 CAPZB 832
Affinity Capture-MS Homo sapiens
21 PARK2  
Affinity Capture-MS Homo sapiens
22 RPL10A 4736
Affinity Capture-MS Homo sapiens
23 SKIV2L2 23517
Two-hybrid Homo sapiens
24 DYRK1A 1859
Affinity Capture-MS Homo sapiens
25 DDX24 57062
Co-fractionation Homo sapiens
26 SDHB 6390
Two-hybrid Homo sapiens
27 Naa50  
Affinity Capture-MS Mus musculus
28 GLMP 112770
Two-hybrid Homo sapiens
29 SRRM2 23524
Two-hybrid Homo sapiens
30 PRKRA 8575
Affinity Capture-MS Homo sapiens
31 KATNB1  
Two-hybrid Homo sapiens
32 NAGK 55577
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
33 EXOSC6 118460
Two-hybrid Homo sapiens
34 PABPC4 8761
Two-hybrid Homo sapiens
35 KIF14 9928
Affinity Capture-MS Homo sapiens
36 LIN28A  
Affinity Capture-MS Homo sapiens
37 CPEB1  
Proximity Label-MS Homo sapiens
38 EDC4 23644
Affinity Capture-MS Homo sapiens
39 CAMK2A 815
Affinity Capture-MS Homo sapiens
40 STAM2 10254
Two-hybrid Homo sapiens
41 MTCH2 23788
Two-hybrid Homo sapiens
42 MIB1 57534
Proximity Label-MS Homo sapiens
43 PLEKHG2 64857
Two-hybrid Homo sapiens
44 RPL4 6124
Affinity Capture-MS Homo sapiens
45 COPE 11316
Affinity Capture-MS Homo sapiens
46 RBM4B  
Affinity Capture-MS Homo sapiens
47 FADS1 3992
Two-hybrid Homo sapiens
48 PSMC1 5700
Affinity Capture-MS Homo sapiens
49 CCT5 22948
Two-hybrid Homo sapiens
50 BAG6 7917
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
51 SRSF6 6431
Affinity Capture-MS Homo sapiens
52 PURG  
Affinity Capture-MS Homo sapiens
53 RPL5 6125
Co-fractionation Homo sapiens
54 HIST1H2AM 8336
Affinity Capture-MS Homo sapiens
55 HERC2P4  
Two-hybrid Homo sapiens
56 CDH1 999
Proximity Label-MS Homo sapiens
57 SREBF2 6721
Positive Genetic Homo sapiens
58 NTRK1 4914
Affinity Capture-MS Homo sapiens
59 FGF8  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
60 CBX5 23468
Two-hybrid Homo sapiens
61 HIST1H1E 3008
Affinity Capture-MS Homo sapiens
62 DCP1A 55802
Co-localization Homo sapiens
Affinity Capture-Western Homo sapiens
Two-hybrid Homo sapiens
63 ZNF131  
Affinity Capture-MS Homo sapiens
64 PPP2CA 5515
Two-hybrid Homo sapiens
65 RNF187  
Two-hybrid Homo sapiens
66 HIST1H1C 3006
Affinity Capture-MS Homo sapiens
67 ATP5G2  
Two-hybrid Homo sapiens
68 HECTD1 25831
Affinity Capture-MS Homo sapiens
69 RPLP0 6175
Affinity Capture-MS Homo sapiens
70 MFSD5  
Two-hybrid Homo sapiens
71 MAGEB2 4113
Affinity Capture-MS Homo sapiens
72 NDUFB9 4715
Two-hybrid Homo sapiens
73 KDF1  
Affinity Capture-MS Homo sapiens
74 PHLPP1  
Proximity Label-MS Homo sapiens
75 ADPRH 141
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
76 NDUFB10 4716
Two-hybrid Homo sapiens
77 NDUFA13 51079
Two-hybrid Homo sapiens
78 XPO1 7514
Affinity Capture-MS Homo sapiens
79 VWA5B2  
Two-hybrid Homo sapiens
80 SIRT7  
Affinity Capture-MS Homo sapiens
81 NPM3 10360
Affinity Capture-MS Homo sapiens
82 PHIP 55023
Affinity Capture-MS Homo sapiens
83 DXO  
Two-hybrid Homo sapiens
84 RPL3 6122
Affinity Capture-MS Homo sapiens
85 SYNCRIP 10492
Co-fractionation Homo sapiens
86 HNRNPA1 3178
Two-hybrid Homo sapiens
87 UPF3A  
Affinity Capture-Western Homo sapiens
88 WAPAL  
Two-hybrid Homo sapiens
89 HNRNPCL2 440563
Affinity Capture-MS Homo sapiens
90 ZC3H10  
Affinity Capture-MS Homo sapiens
91 AP1G2 8906
Two-hybrid Homo sapiens
92 LEPR 3953
Two-hybrid Homo sapiens
93 MYC  
Affinity Capture-MS Homo sapiens
94 RPA3 6119
Affinity Capture-MS Homo sapiens
Proximity Label-MS Homo sapiens
95 NIN 51199
Proximity Label-MS Homo sapiens
96 RPS13 6207
Affinity Capture-MS Homo sapiens
97 DPP7 29952
Two-hybrid Homo sapiens
98 BICD1 636
Proximity Label-MS Homo sapiens
99 PSMB5 5693
Two-hybrid Homo sapiens
100 ANGPTL6  
Two-hybrid Homo sapiens
101 BMI1  
Affinity Capture-MS Homo sapiens
102 SCRN2 90507
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
103 HEATR1 55127
Two-hybrid Homo sapiens
104 CTSB 1508
Two-hybrid Homo sapiens
105 UPF2 26019
Affinity Capture-Western Homo sapiens
106 RPS16 6217
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
107 ZNF574  
Affinity Capture-MS Homo sapiens
108 ZRANB1 54764
Affinity Capture-MS Homo sapiens
109 PRADC1  
Two-hybrid Homo sapiens
110 C1GALT1 56913
Two-hybrid Homo sapiens
111 RPL13 6137
Affinity Capture-MS Homo sapiens
112 EXOSC10 5394
Two-hybrid Homo sapiens
113 RNF43  
Proximity Label-MS Homo sapiens
114 PLEKHA4 57664
Affinity Capture-MS Homo sapiens
115 FASN 2194
Negative Genetic Homo sapiens
116 ZFP36  
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
117 HIST1H2BK 85236
Cross-Linking-MS (XL-MS) Homo sapiens
118 TUBG1 7283
Affinity Capture-MS Homo sapiens
119 B3GALT6 126792
Two-hybrid Homo sapiens
120 RPA1 6117
Affinity Capture-MS Homo sapiens
121 HNRNPA2B1 3181
Affinity Capture-MS Homo sapiens
122 HIST1H2BC 8347
Cross-Linking-MS (XL-MS) Homo sapiens
123 TMEM50A 23585
Two-hybrid Homo sapiens
124 RPS4X 6191
Co-fractionation Homo sapiens
125 SQSTM1 8878
Proximity Label-MS Homo sapiens
126 C1orf35  
Affinity Capture-MS Homo sapiens
127 ARHGAP18 93663
Affinity Capture-MS Homo sapiens
128 MLH1 4292
Affinity Capture-MS Homo sapiens
129 CHD4 1108
Two-hybrid Homo sapiens
130 NUP35 129401
Proximity Label-MS Homo sapiens
131 SPATA20  
Two-hybrid Homo sapiens
132 UBE3C 9690
Affinity Capture-MS Homo sapiens
133 TLR9  
Affinity Capture-MS Homo sapiens
134 QSOX2 169714
Affinity Capture-MS Homo sapiens
135 RBM4 5936
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
136 TRIM37  
Proximity Label-MS Homo sapiens
137 ALYREF 10189
Co-fractionation Homo sapiens
138 CTSH 1512
Two-hybrid Homo sapiens
139 UPF1 5976
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
140 CLTA 1211
Affinity Capture-MS Homo sapiens
141 RPS6 6194
Affinity Capture-MS Homo sapiens
142 RPL8 6132
Affinity Capture-MS Homo sapiens
143 EXOSC8  
Two-hybrid Homo sapiens
144 DNASE2 1777
Two-hybrid Homo sapiens
145 ADGRE5 976
Two-hybrid Homo sapiens
146 RPS7 6201
Co-fractionation Homo sapiens
147 POLR3H  
Affinity Capture-MS Homo sapiens
148 PSPC1 55269
Affinity Capture-MS Homo sapiens
149 HECW2  
Affinity Capture-MS Homo sapiens
150 EXOSC1 51013
Two-hybrid Homo sapiens
151 RBMX 27316
Two-hybrid Homo sapiens
152 POLD2 5425
Two-hybrid Homo sapiens
153 LINC01541  
Two-hybrid Homo sapiens
154 ALDOA 226
Two-hybrid Homo sapiens
155 PARN  
Co-fractionation Homo sapiens
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