Gene description for LSM4
Gene name LSM4 homolog, U6 small nuclear RNA associated (S. cerevisiae)
Gene symbol LSM4
Other names/aliases GRP
YER112W
Species Homo sapiens
 Database cross references - LSM4
ExoCarta ExoCarta_25804
Vesiclepedia VP_25804
Entrez Gene 25804
HGNC 17259
MIM 607284
UniProt Q9Y4Z0  
 LSM4 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    
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
 Gene ontology annotations for LSM4
Molecular Function
    RNA binding GO:0003723 HDA
    protein binding GO:0005515 IPI
    U6 snRNA binding GO:0017070 IBA
    PH domain binding GO:0042731 IDA
Biological Process
    spliceosomal snRNP assembly GO:0000387 IBA
    mRNA splicing, via spliceosome GO:0000398 IDA
    mRNA splicing, via spliceosome GO:0000398 NAS
    nuclear-transcribed mRNA catabolic process GO:0000956 IEA
    RNA splicing GO:0008380 TAS
    P-body assembly GO:0033962 IBA
Subcellular Localization
    P-body GO:0000932 IBA
    nucleus GO:0005634 IDA
    nucleus GO:0005634 NAS
    nucleoplasm GO:0005654 TAS
    U6 snRNP GO:0005688 IBA
    cytosol GO:0005829 IDA
    cytosol GO:0005829 TAS
    membrane GO:0016020 IDA
    protein-containing complex GO:0032991 IDA
    U4/U6 x U5 tri-snRNP complex GO:0046540 IDA
    U4/U6 x U5 tri-snRNP complex GO:0046540 IPI
    U2-type precatalytic spliceosome GO:0071005 IDA
    spliceosomal tri-snRNP complex GO:0097526 IBA
    Lsm2-8 complex GO:0120115 IDA
 Experiment description of studies that identified LSM4 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 363
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
6
Experiment ID 364
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
7
Experiment ID 365
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
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 LSM4
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 SNRPA 6626
Affinity Capture-MS Homo sapiens
2 RIT1 6016
Negative Genetic Homo sapiens
3 RPL26L1 51121
Affinity Capture-MS Homo sapiens
4 KLC2 64837
Co-fractionation Homo sapiens
5 SNRPE 6635
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
6 Prpf8 192159
Affinity Capture-MS Mus musculus
7 ZNF511  
Affinity Capture-MS Homo sapiens
8 ARHGAP26 23092
Affinity Capture-MS Homo sapiens
9 COPRS  
Affinity Capture-MS Homo sapiens
10 PRPF3  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
11 HNRNPR 10236
Co-fractionation Homo sapiens
12 RHOXF2  
Two-hybrid Homo sapiens
13 CLTB 1212
Affinity Capture-MS Homo sapiens
14 SNRPF 6636
Affinity Capture-MS Homo sapiens
15 SNRPD2 6633
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
16 RIOK1 83732
Affinity Capture-MS Homo sapiens
17 ZMAT2  
Co-fractionation Homo sapiens
18 LRPPRC 10128
Co-fractionation Homo sapiens
19 WTAP 9589
Affinity Capture-MS Homo sapiens
20 COX5B 1329
Two-hybrid Homo sapiens
21 SF3B1 23451
Affinity Capture-MS Homo sapiens
22 SMIM14  
Two-hybrid Homo sapiens
23 SNRPC 6631
Affinity Capture-MS Homo sapiens
24 CALCOCO2  
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
25 PRPF4B 8899
Affinity Capture-MS Homo sapiens
26 SF3A2 8175
Affinity Capture-MS Homo sapiens
27 TCEA2  
Co-fractionation Homo sapiens
28 TUT1  
Affinity Capture-MS Homo sapiens
29 RNU4ATAC  
Affinity Capture-Western Homo sapiens
30 RMI2  
Co-fractionation Homo sapiens
31 PKN2 5586
Co-fractionation Homo sapiens
32 MYCN  
Affinity Capture-MS Homo sapiens
33 RBM42  
Affinity Capture-MS Homo sapiens
34 LSM1 27257
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
35 RAD23A 5886
Co-fractionation Homo sapiens
36 LSM2 57819
Co-fractionation Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
37 NAA38  
Co-fractionation Homo sapiens
38 PRPF6 24148
Affinity Capture-MS Homo sapiens
39 HMGA1 3159
Cross-Linking-MS (XL-MS) Homo sapiens
40 WBP4  
Affinity Capture-MS Homo sapiens
41 PPIB 5479
Co-fractionation Homo sapiens
42 FOXA1  
Affinity Capture-MS Homo sapiens
43 HIST1H4A 8359
Affinity Capture-MS Homo sapiens
44 MEPCE 56257
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
45 SMU1 55234
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
46 XRN1 54464
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
47 PPIH 10465
Affinity Capture-MS Homo sapiens
48 SYNCRIP 10492
Co-fractionation Homo sapiens
49 PATL1 219988
Affinity Capture-MS Homo sapiens
50 SNRPN 6638
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
51 AKAP7 9465
Affinity Capture-MS Homo sapiens
52 PRPF18  
Co-fractionation Homo sapiens
53 HOMEZ  
Two-hybrid Homo sapiens
54 SNRPD3 6634
Affinity Capture-MS Homo sapiens
55 DDX39B 7919
Co-fractionation Homo sapiens
56 PRPF31 26121
Affinity Capture-MS Homo sapiens
57 SF3A3 10946
Co-fractionation Homo sapiens
58 SNRPB2 6629
Affinity Capture-MS Homo sapiens
59 MTR 4548
Co-fractionation Homo sapiens
60 RPL32 6161
Affinity Capture-MS Homo sapiens
61 OLA1 29789
Affinity Capture-MS Homo sapiens
62 RBM39 9584
Affinity Capture-MS Homo sapiens
63 LSM8 51691
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
64 USP4 7375
Affinity Capture-MS Homo sapiens
65 METTL14  
Affinity Capture-MS Homo sapiens
66 PYROXD1 79912
Co-fractionation Homo sapiens
67 XPO1 7514
Affinity Capture-MS Homo sapiens
68 USP15 9958
Affinity Capture-MS Homo sapiens
69 ECT2 1894
Affinity Capture-MS Homo sapiens
70 SNRPB 6628
Affinity Capture-MS Homo sapiens
71 TMCO6  
Affinity Capture-MS Homo sapiens
72 FUS 2521
Affinity Capture-MS Homo sapiens
73 RABGAP1 23637
Affinity Capture-MS Homo sapiens
74 IKZF1  
Two-hybrid Homo sapiens
75 SIN3B  
Affinity Capture-MS Homo sapiens
76 SART1 9092
Affinity Capture-MS Homo sapiens
77 PLEKHA5 54477
Two-hybrid Homo sapiens
78 SF3A1 10291
Affinity Capture-MS Homo sapiens
79 PSTPIP1 9051
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
80 L3MBTL3  
Two-hybrid Homo sapiens
81 MYC  
Affinity Capture-MS Homo sapiens
82 RPA3 6119
Proximity Label-MS Homo sapiens
83 LSM3 27258
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
84 DNAJC9 23234
Proximity Label-MS Homo sapiens
85 SLC22A2 6582
Two-hybrid Homo sapiens
86 TOP1 7150
Protein-peptide Homo sapiens
Affinity Capture-MS Homo sapiens
87 HP1BP3 50809
Cross-Linking-MS (XL-MS) Homo sapiens
88 SART3 9733
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
89 RABGAP1L 9910
Affinity Capture-MS Homo sapiens
90 SGTA 6449
Co-fractionation Homo sapiens
91 SF3B3 23450
Co-fractionation Homo sapiens
92 WDR44 54521
Co-fractionation Homo sapiens
93 FARP1 10160
Affinity Capture-MS Homo sapiens
94 HUWE1 10075
Co-fractionation Homo sapiens
95 TOE1 114034
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
96 SMN1 6606
Reconstituted Complex Homo sapiens
97 WDR77 79084
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
98 CPSF6 11052
Affinity Capture-MS Homo sapiens
99 RNU6ATAC  
Affinity Capture-Western Homo sapiens
100 PPIP5K1 9677
Co-fractionation Homo sapiens
101 NMI  
Two-hybrid Homo sapiens
102 WWOX 51741
Affinity Capture-MS Homo sapiens
103 VAC14 55697
Co-fractionation Homo sapiens
104 HIST1H2BC 8347
Cross-Linking-MS (XL-MS) Homo sapiens
105 CLNS1A 1207
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
106 ARHGAP18 93663
Affinity Capture-MS Homo sapiens
107 PRMT5 10419
Affinity Capture-MS Homo sapiens
108 ZBTB10 65986
Two-hybrid Homo sapiens
109 LSM5  
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
110 DDX58 23586
Affinity Capture-RNA Homo sapiens
111 GTF2B 2959
Co-fractionation Homo sapiens
112 LSM7  
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
113 ALYREF 10189
Affinity Capture-MS Homo sapiens
114 CLTA 1211
Affinity Capture-MS Homo sapiens
115 CIT 11113
Affinity Capture-MS Homo sapiens
116 METTL3  
Affinity Capture-MS Homo sapiens
117 LSM6 11157
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Co-fractionation Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
118 PRPF4 9128
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
119 KRAS 3845
Negative Genetic Homo sapiens
120 C9orf72  
Affinity Capture-MS Homo sapiens
121 SSRP1 6749
Affinity Capture-MS Homo sapiens
122 EXOSC8  
Two-hybrid Homo sapiens
View the network image/svg+xml



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