Gene description for CLNS1A
Gene name chloride channel, nucleotide-sensitive, 1A
Gene symbol CLNS1A
Other names/aliases CLCI
CLNS1B
ICln
Species Homo sapiens
 Database cross references - CLNS1A
ExoCarta ExoCarta_1207
Vesiclepedia VP_1207
Entrez Gene 1207
HGNC 2080
MIM 602158
UniProt P54105  
 CLNS1A identified in exosomes derived from the following tissue/cell type
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
Mesenchymal stem cells 36408942    
Ovarian cancer cells 23333927    
Ovarian cancer cells 23333927    
Thymus 23844026    
 Gene ontology annotations for CLNS1A
Molecular Function
    RNA binding GO:0003723 HDA
    protein binding GO:0005515 IPI
Biological Process
    spliceosomal snRNP assembly GO:0000387 IBA
    spliceosomal snRNP assembly GO:0000387 IDA
    spliceosomal snRNP assembly GO:0000387 NAS
    chloride transport GO:0006821 IEA
    cell volume homeostasis GO:0006884 IEA
    mRNA cis splicing, via spliceosome GO:0045292 IBA
    positive regulation of mRNA splicing, via spliceosome GO:0048026 NAS
Subcellular Localization
    nucleus GO:0005634 IDA
    nucleoplasm GO:0005654 IDA
    spliceosomal complex GO:0005681 IBA
    cytosol GO:0005829 IBA
    cytosol GO:0005829 IDA
    cytosol GO:0005829 TAS
    cytoskeleton GO:0005856 IEA
    plasma membrane GO:0005886 IEA
    methylosome GO:0034709 IDA
    pICln-Sm protein complex GO:0034715 IBA
    pICln-Sm protein complex GO:0034715 IDA
 Experiment description of studies that identified CLNS1A in exosomes
1
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
2
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
3
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
4
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
5
Experiment ID 211
MISEV standards
✔
EM
Biophysical techniques
✔
TSG101|Alix|EpCAM|TFRC
Enriched markers
✔
cytochrome c|GOLGA2
Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23333927    
Organism Homo sapiens
Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes.
Authors "Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K."
Journal name J Proteomics
Publication year 2013
Sample Ovarian cancer cells
Sample name IGROV1
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Sucrose density gradient
Flotation density 1.09-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
6
Experiment ID 212
MISEV standards
✔
CEM
Biophysical techniques
✔
TSG101|Alix|EpCAM|TFRC
Enriched markers
✔
Cytochrome C|GOLGA2
Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23333927    
Organism Homo sapiens
Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes.
Authors "Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K."
Journal name J Proteomics
Publication year 2013
Sample Ovarian cancer cells
Sample name OVCAR-3
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Sucrose density gradient
Flotation density 1.09-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
7
Experiment ID 217
MISEV standards
✔
EM
Biophysical techniques
✔
TSG101|CD81|CD9|CD63
Enriched markers
✘ Negative markers
✔
NTA
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 CLNS1A
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 CRBN  
Affinity Capture-MS Homo sapiens
2 PTPRG 5793
Proximity Label-MS Homo sapiens
3 RIT1 6016
Negative Genetic Homo sapiens
4 EIF1AD 84285
Affinity Capture-MS Homo sapiens
5 UBE2H 7328
Affinity Capture-MS Homo sapiens
6 APPL2 55198
Affinity Capture-MS Homo sapiens
7 RIOK1 83732
Affinity Capture-MS Homo sapiens
8 SNRPG 6637
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
9 PTMS 5763
Co-fractionation Homo sapiens
10 SNRPE 6635
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
11 WDR3  
Affinity Capture-MS Homo sapiens
12 TPD52L2 7165
Co-fractionation Homo sapiens
13 CIRBP 1153
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
14 S100A6 6277
Co-fractionation Homo sapiens
15 YWHAE 7531
Affinity Capture-MS Homo sapiens
16 USP5 8078
Co-fractionation Homo sapiens
17 COPRS  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
18 RPL15 6138
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
19 LSM4 25804
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
20 CSNK2A1 1457
Biochemical Activity Homo sapiens
21 PIR 8544
Co-fractionation Homo sapiens
22 RPS6KB2  
Affinity Capture-MS Homo sapiens
23 SNRPD2 6633
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
24 LSM10  
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
25 HSPA5 3309
Co-fractionation Homo sapiens
26 KIAA1429 25962
Affinity Capture-MS Homo sapiens
27 PDCD10 11235
Co-fractionation Homo sapiens
28 TGFB1 7040
Affinity Capture-MS Homo sapiens
29 NDRG1 10397
Co-fractionation Homo sapiens
30 ITGA2B 3674
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
31 SEC24C 9632
Co-fractionation Homo sapiens
32 PLK4  
Affinity Capture-MS Homo sapiens
33 AGO3  
Affinity Capture-MS Homo sapiens
34 UBL4A 8266
Affinity Capture-MS Homo sapiens
35 ADCYAP1  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
36 RHOA 387
Co-fractionation Homo sapiens
37 UBQLN1 29979
Co-fractionation Homo sapiens
38 LPP 4026
Co-fractionation Homo sapiens
39 FAM135A  
Affinity Capture-MS Homo sapiens
40 SNRPD3 6634
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Co-purification Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
41 WDR45  
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
42 GEMIN4 50628
Affinity Capture-MS Homo sapiens
43 WIZ 58525
Affinity Capture-MS Homo sapiens
44 CTPS1 1503
Co-fractionation Homo sapiens
45 WDR6 11180
Affinity Capture-MS Homo sapiens
46 PLS3 5358
Co-fractionation Homo sapiens
47 PDLIM1 9124
Co-fractionation Homo sapiens
48 RAD23A 5886
Co-fractionation Homo sapiens
49 GAR1 54433
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
50 EPB41 2035
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
51 TRNT1 51095
Co-fractionation Homo sapiens
52 LSM2 57819
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
53 MDH2 4191
Co-fractionation Homo sapiens
54 AGAP1  
Affinity Capture-MS Homo sapiens
55 Wiz  
Affinity Capture-MS Mus musculus
56 EPB41L3 23136
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
57 GEMIN5 25929
Affinity Capture-MS Homo sapiens
58 VRK3 51231
Affinity Capture-MS Homo sapiens
59 NFE4  
Affinity Capture-MS Homo sapiens
60 VRK1 7443
Affinity Capture-MS Homo sapiens
61 DDX20 11218
Affinity Capture-MS Homo sapiens
62 PFDN2 5202
Co-fractionation Homo sapiens
63 SNRPD1 6632
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
64 NTRK1 4914
Affinity Capture-MS Homo sapiens
65 ZNHIT2 741
Affinity Capture-MS Homo sapiens
66 ALKBH3  
Affinity Capture-MS Homo sapiens
67 SYNCRIP 10492
Affinity Capture-MS Homo sapiens
68 PPP2CA 5515
Co-fractionation Homo sapiens
69 PEX14 5195
Affinity Capture-MS Homo sapiens
70 NOS2  
Affinity Capture-MS Homo sapiens
71 SNRPN 6638
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
72 P4HB 5034
Co-fractionation Homo sapiens
73 NOB1  
Affinity Capture-MS Homo sapiens
74 DDX1 1653
Affinity Capture-MS Homo sapiens
75 C1orf115  
Affinity Capture-MS Homo sapiens
76 PDIA6 10130
Co-fractionation Homo sapiens
77 CYLD  
Affinity Capture-MS Homo sapiens
78 DDAH2 23564
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
79 NUMA1 4926
Affinity Capture-MS Homo sapiens
80 EPB41L1 2036
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
81 PPP4R2  
Co-fractionation Homo sapiens
82 UFC1 51506
Co-fractionation Homo sapiens
83 FAM98A 25940
Affinity Capture-MS Homo sapiens
84 RPS2 6187
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
85 LGALS1 3956
Co-fractionation Homo sapiens
86 RC3H2  
Affinity Capture-MS Homo sapiens
87 SNRPB 6628
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
88 PPA1 5464
Co-fractionation Homo sapiens
89 LAMP1 3916
Proximity Label-MS Homo sapiens
90 CUL3 8452
Affinity Capture-MS Homo sapiens
91 LRRC47 57470
Affinity Capture-MS Homo sapiens
92 RBFOX1 54715
Affinity Capture-MS Homo sapiens
93 FBXO6 26270
Affinity Capture-MS Homo sapiens
94 FN1 2335
Affinity Capture-MS Homo sapiens
95 SEC24A 10802
Co-fractionation Homo sapiens
96 KDM3B  
Affinity Capture-MS Homo sapiens
97 PRMT5 10419
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Protein-peptide Homo sapiens
Affinity Capture-MS Homo sapiens
98 CDYL 9425
Affinity Capture-MS Homo sapiens
99 FARP2 9855
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
100 UBA2 10054
Co-fractionation Homo sapiens
101 LSM3 27258
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
102 HNRNPH2 3188
Affinity Capture-MS Homo sapiens
103 LSM11  
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
104 PLIN3 10226
Co-fractionation Homo sapiens
105 FAU 2197
Affinity Capture-MS Homo sapiens
106 PGAM1 5223
Co-fractionation Homo sapiens
107 SNRPF 6636
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
108 TSR1 55720
Affinity Capture-MS Homo sapiens
109 HNRNPH1 3187
Affinity Capture-MS Homo sapiens
110 UBXN1 51035
Co-fractionation Homo sapiens
111 ATIC 471
Co-fractionation Homo sapiens
112 TRIP6 7205
Co-fractionation Homo sapiens
113 Prmt5 27374
Affinity Capture-MS Mus musculus
114 MTCL1 23255
Affinity Capture-MS Homo sapiens
115 ARRB2 409
Affinity Capture-MS Homo sapiens
116 FGF11  
Affinity Capture-MS Homo sapiens
117 VBP1 7411
Co-fractionation Homo sapiens
118 MAGOH 4116
Affinity Capture-MS Homo sapiens
119 SMN1 6606
Affinity Capture-MS Homo sapiens
120 BKRF1  
Affinity Capture-MS
121 WDR77 79084
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
122 RPS21 6227
Co-fractionation Homo sapiens
123 FAS 355
Proximity Label-MS Homo sapiens
124 LGALS3 3958
Co-fractionation Homo sapiens
125 UBA52 7311
Co-fractionation Homo sapiens
126 SMURF1 57154
Affinity Capture-MS Homo sapiens
127 G3BP1 10146
Affinity Capture-MS Homo sapiens
128 EIF4A3 9775
Affinity Capture-MS Homo sapiens
129 EPB41L2 2037
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
130 DDX58 23586
Affinity Capture-RNA Homo sapiens
131 COPS6 10980
Affinity Capture-MS Homo sapiens
132 ESR1  
Affinity Capture-MS Homo sapiens
133 UFL1 23376
Affinity Capture-MS Homo sapiens
134 MIF 4282
Co-fractionation Homo sapiens
135 RBFOX2 23543
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
136 FBLN7  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
137 ALYREF 10189
Affinity Capture-MS Homo sapiens
138 PSMA5 5686
Co-fractionation Homo sapiens
139 PUM1 9698
Co-fractionation Homo sapiens
140 OSTF1 26578
Co-fractionation Homo sapiens
141 C14orf166 51637
Affinity Capture-MS Homo sapiens
142 LSM6 11157
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
143 SNX12 29934
Co-fractionation Homo sapiens
144 KRAS 3845
Synthetic Lethality Homo sapiens
Negative Genetic Homo sapiens
145 RAC1 5879
Co-fractionation Homo sapiens
146 RC3H1 149041
Affinity Capture-MS Homo sapiens
147 HSPA12A 259217
Proximity Label-MS Homo sapiens
148 PRMT1 3276
Affinity Capture-MS Homo sapiens
149 Smn1 20595
Affinity Capture-MS Mus musculus
150 NEDD8 4738
Co-fractionation Homo sapiens
151 EP300 2033
Affinity Capture-MS Homo sapiens
View the network image/svg+xml
 Pathways in which CLNS1A is involved
PathwayEvidenceSource
Metabolism of non-coding RNA TAS Reactome
Metabolism of RNA TAS Reactome
snRNP Assembly TAS Reactome





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