Gene description for SYNE1
Gene name spectrin repeat containing, nuclear envelope 1
Gene symbol SYNE1
Other names/aliases 8B
ARCA1
C6orf98
CPG2
EDMD4
MYNE1
Nesp1
SCAR8
dJ45H2.2
Species Homo sapiens
 Database cross references - SYNE1
ExoCarta ExoCarta_23345
Vesiclepedia VP_23345
Entrez Gene 23345
HGNC 17089
MIM 608441
UniProt Q8NF91  
 SYNE1 identified in sEVs derived from the following tissue/cell type
Mesenchymal stem cells 36408942    
Plasma 19028452    
Urine 22418980    
Urine 22418980    
 Gene ontology annotations for SYNE1
Molecular Function
    RNA binding GO:0003723 HDA
    actin binding GO:0003779 IDA
    signaling receptor binding GO:0005102 IEA
    protein binding GO:0005515 IPI
    lamin binding GO:0005521 IPI
    enzyme binding GO:0019899 IPI
    identical protein binding GO:0042802 IPI
    protein homodimerization activity GO:0042803 ISS
    actin filament binding GO:0051015 ISS
    cytoskeleton-nuclear membrane anchor activity GO:0140444 IDA
Biological Process
    positive regulation of mesenchymal cell proliferation GO:0002053 IEA
    nucleus organization GO:0006997 NAS
    Golgi organization GO:0007030 IDA
    spermatogenesis GO:0007283 IEA
    response to light stimulus GO:0009416 IEA
    muscle cell differentiation GO:0042692 IDA
    positive regulation of receptor-mediated endocytosis GO:0048260 IEA
    regulation of dendrite morphogenesis GO:0048814 IEA
    cardiac muscle cell differentiation GO:0055007 IEA
    negative regulation of mini excitatory postsynaptic potential GO:0061886 IEA
    nuclear matrix anchoring at nuclear membrane GO:0090292 IDA
    regulation of postsynaptic neurotransmitter receptor internalization GO:0099149 IEA
    regulation of nucleus organization GO:1903353 IEA
    negative regulation of mesenchymal cell apoptotic process GO:2001054 IEA
Subcellular Localization
    P-body GO:0000932 IDA
    nucleus GO:0005634 HDA
    nuclear envelope GO:0005635 IDA
    nuclear outer membrane GO:0005640 IEA
    nucleoplasm GO:0005654 IDA
    nucleolus GO:0005730 IDA
    cytoplasm GO:0005737 IDA
    Golgi apparatus GO:0005794 IDA
    membrane GO:0016020 IDA
    sarcomere GO:0030017 IDA
    midbody GO:0030496 IEA
    nuclear membrane GO:0031965 IDA
    meiotic nuclear membrane microtubule tethering complex GO:0034993 IDA
    dendritic spine head GO:0044327 IEA
    postsynaptic membrane GO:0045211 IDA
    perinuclear region of cytoplasm GO:0048471 IEA
    postsynaptic endocytic zone GO:0098843 IEA
    postsynaptic actin cytoskeleton GO:0098871 IEA
    glutamatergic synapse GO:0098978 IEA
 Experiment description of studies that identified SYNE1 in sEVs
1
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
2
Experiment ID 44
MISEV standards
✔
IEM
Biophysical techniques
✘ Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 19028452    
Organism Homo sapiens
Experiment description Proteomic profiling of human plasma exosomes identifies PPARgamma as an exosome-associated protein.
Authors "Looze C, Yui D, Leung L, Ingham M, Kaler M, Yao X, Wu WW, Shen RF, Daniels MP, Levine SJ"
Journal name BBRC
Publication year 2009
Sample Plasma
Sample name Plasma
Isolation/purification methods Filtration
Size exclusion
Sucrose density gradient
Flotation density 1.15-1.16 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry [LTQ]
Western blotting
Immunoelectron Microscopy
3
Experiment ID 196
MISEV standards
✔
EM
Biophysical techniques
✔
Alix|TSG101|HSP70|CD9
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 22418980    
Organism Homo sapiens
Experiment description A multiplex quantitative proteomics strategy for protein biomarker studies in urinary exosomes.
Authors "Raj DA, Fiume I, Capasso G, Pocsfalvi G."
Journal name Kidney Int
Publication year 2012
Sample Urine
Sample name Urine - Normal high density
Isolation/purification methods Differential centrifugation
Sucrose cushion
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
4
Experiment ID 197
MISEV standards
✔
EM
Biophysical techniques
✔
Alix|TSG101|HSP70|CD9
Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 22418980    
Organism Homo sapiens
Experiment description A multiplex quantitative proteomics strategy for protein biomarker studies in urinary exosomes.
Authors "Raj DA, Fiume I, Capasso G, Pocsfalvi G."
Journal name Kidney Int
Publication year 2012
Sample Urine
Sample name Urine - Normal low density
Isolation/purification methods Differential centrifugation
Sucrose cushion
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
 Protein-protein interactions for SYNE1
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 UBE2H 7328
Affinity Capture-MS Homo sapiens
2 ANLN 54443
Affinity Capture-MS Homo sapiens
3 DISC1 27185
Affinity Capture-Western Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
4 GJD3  
Proximity Label-MS Homo sapiens
5 GAN 8139
Affinity Capture-MS Homo sapiens
6 MYCN  
Affinity Capture-MS Homo sapiens
7 GPS1 2873
Cross-Linking-MS (XL-MS) Homo sapiens
8 MMP19 4327
Affinity Capture-MS Homo sapiens
9 TERF2  
Affinity Capture-MS Homo sapiens
10 HIST1H3A 8350
Cross-Linking-MS (XL-MS) Homo sapiens
11 RPN2 6185
Proximity Label-MS Homo sapiens
12 TRIM29 23650
Affinity Capture-MS Homo sapiens
13 DVL2 1856
Affinity Capture-MS Homo sapiens
14 CEP63  
Two-hybrid Homo sapiens
15 METTL7A 25840
Proximity Label-MS Homo sapiens
16 MAP1B 4131
Cross-Linking-MS (XL-MS) Homo sapiens
17 LRRC59 55379
Proximity Label-MS Homo sapiens
18 LINC00839  
Protein-RNA Homo sapiens
19 PDIA4 9601
Cross-Linking-MS (XL-MS) Homo sapiens
20 KIAA1715 80856
Proximity Label-MS Homo sapiens
21 APC  
Two-hybrid Homo sapiens
22 S100A2 6273
Affinity Capture-MS Homo sapiens
23 MTCH2 23788
Proximity Label-MS Homo sapiens
24 IFT57 55081
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
25 CUL3 8452
Affinity Capture-MS Homo sapiens
26 KIF20A 10112
Affinity Capture-MS Homo sapiens
27 STIM1 6786
Proximity Label-MS Homo sapiens
28 HSD17B11 51170
Proximity Label-MS Homo sapiens
29 EMD 2010
Proximity Label-MS Homo sapiens
Reconstituted Complex Homo sapiens
30 USP21  
Two-hybrid Homo sapiens
31 SUN1 23353
Affinity Capture-Western Homo sapiens
32 DNAJC25 548645
Proximity Label-MS Homo sapiens
33 STX4 6810
Proximity Label-MS Homo sapiens
34 DDX58 23586
Affinity Capture-RNA Homo sapiens
35 TNFSF18 8995
Affinity Capture-MS Homo sapiens
36 SUZ12  
Affinity Capture-MS Homo sapiens
37 Nde1  
Affinity Capture-MS Mus musculus
38 CDC42 998
Two-hybrid Homo sapiens
39 SF3A1 10291
Cross-Linking-MS (XL-MS) Homo sapiens
40 PANK4 55229
Cross-Linking-MS (XL-MS) Homo sapiens
41 NLN 57486
Co-fractionation Homo sapiens
42 DTNBP1  
Two-hybrid Homo sapiens
43 MUSK  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
44 SH3BP5 9467
Two-hybrid Homo sapiens
45 EZH2  
Affinity Capture-MS Homo sapiens
46 NEFM 4741
Cross-Linking-MS (XL-MS) Homo sapiens
47 SEC62 7095
Proximity Label-MS Homo sapiens
48 NTRK1 4914
Affinity Capture-MS Homo sapiens
49 MCM2 4171
Affinity Capture-MS Homo sapiens
50 WHAMMP3  
Affinity Capture-MS Homo sapiens
51 SYNE1 23345
Two-hybrid Homo sapiens
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Reconstituted Complex Homo sapiens
52 NDEL1 81565
Two-hybrid Homo sapiens
53 PRC1 9055
Affinity Capture-MS Homo sapiens
54 CCT8 10694
Cross-Linking-MS (XL-MS) Homo sapiens
55 DNAJC1 64215
Proximity Label-MS Homo sapiens
56 TNIK 23043
Two-hybrid Homo sapiens
57 RNF2  
Affinity Capture-MS Homo sapiens
58 BMI1  
Affinity Capture-MS Homo sapiens
59 KIAA0368 23392
Two-hybrid Homo sapiens
60 SSR1 6745
Proximity Label-MS Homo sapiens
61 OBSL1 23363
Affinity Capture-MS Homo sapiens
62 PPEF1  
Affinity Capture-MS Homo sapiens
63 LMNA 4000
Affinity Capture-Western Homo sapiens
Reconstituted Complex Homo sapiens
64 RHOT2 89941
Proximity Label-MS Homo sapiens
65 BDKRB2  
Two-hybrid Homo sapiens
66 SEC61B 10952
Proximity Label-MS Homo sapiens
67 SUN2 25777
Co-crystal Structure Homo sapiens
Affinity Capture-Western Homo sapiens
68 MECP2 4204
Affinity Capture-MS Homo sapiens
69 PPME1 51400
Affinity Capture-MS Homo sapiens
70 CDC5L 988
Two-hybrid Homo sapiens
71 SARNP 84324
Cross-Linking-MS (XL-MS) Homo sapiens
View the network image/svg+xml
 Pathways in which SYNE1 is involved
PathwayEvidenceSource
Cell Cycle IEA Reactome
Meiosis IEA Reactome
Meiotic synapsis IEA Reactome
Reproduction IEA Reactome





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