Gene description for PDE6D
Gene name phosphodiesterase 6D, cGMP-specific, rod, delta
Gene symbol PDE6D
Other names/aliases JBTS22
PDED
Species Homo sapiens
 Database cross references - PDE6D
ExoCarta ExoCarta_5147
Vesiclepedia VP_5147
Entrez Gene 5147
HGNC 8788
MIM 602676
UniProt O43924  
 PDE6D identified in exosomes 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    
 Gene ontology annotations for PDE6D
Molecular Function
    GTPase inhibitor activity GO:0005095 ISS
    protein binding GO:0005515 IPI
    small GTPase binding GO:0031267 IPI
Biological Process
    visual perception GO:0007601 IEA
Subcellular Localization
    cytoplasm GO:0005737 IBA
    cytosol GO:0005829 IDA
    cytosol GO:0005829 TAS
    cytoskeleton GO:0005856 IEA
    cilium GO:0005929 TAS
    cytoplasmic vesicle membrane GO:0030659 IEA
    cytoplasmic vesicle GO:0031410 IDA
 Experiment description of studies that identified PDE6D in exosomes
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
 Protein-protein interactions for PDE6D
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 RAB18 22931
Two-hybrid Homo sapiens
2 PTGIR  
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
3 Arl3 56350
Two-hybrid Mus musculus
Two-hybrid Mus musculus
4 RAP2B 5912
Two-hybrid Homo sapiens
5 SERPINA1 5265
Affinity Capture-MS Homo sapiens
6 NCOA6  
Co-fractionation Homo sapiens
7 CUL1 8454
Affinity Capture-MS Homo sapiens
8 Arl2 56327
Two-hybrid Mus musculus
9 DNAJC11 55735
Affinity Capture-MS Homo sapiens
10 FGB 2244
Affinity Capture-MS Homo sapiens
11 RAD23A 5886
Two-hybrid Homo sapiens
12 RND1  
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
13 LMNB1 4001
Affinity Capture-MS Homo sapiens
14 YWHAB 7529
Affinity Capture-MS Homo sapiens
15 LMNB2 84823
Affinity Capture-MS Homo sapiens
16 TALDO1 6888
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
17 C3 718
Affinity Capture-MS Homo sapiens
18 OTP  
Two-hybrid Homo sapiens
19 ARL15 54622
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
20 ALB 213
Affinity Capture-MS Homo sapiens
21 INPP5E 56623
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
22 IGKC 3514
Affinity Capture-MS Homo sapiens
23 FBXL20 84961
Affinity Capture-MS Homo sapiens
24 HRAS 3265
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
25 CETN3  
Two-hybrid Homo sapiens
26 SMAD4  
Co-fractionation Homo sapiens
27 SYNE2 23224
Affinity Capture-MS Homo sapiens
28 IGHG2 3501
Affinity Capture-MS Homo sapiens
29 SUN1 23353
Affinity Capture-MS Homo sapiens
30 UBL3 5412
Affinity Capture-MS Homo sapiens
31 ORM1 5004
Affinity Capture-MS Homo sapiens
32 ARL2 402
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Co-crystal Structure Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
33 A2M 2
Affinity Capture-MS Homo sapiens
34 TF 7018
Affinity Capture-MS Homo sapiens
35 CDC42 998
Two-hybrid Homo sapiens
36 HPX 3263
Affinity Capture-MS Homo sapiens
37 ARL16  
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
38 C6orf141  
Affinity Capture-MS Homo sapiens
39 FAM219A 203259
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
40 RPGR  
Two-hybrid Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
41 RHEB 6009
Two-hybrid Homo sapiens
42 HP 3240
Affinity Capture-MS Homo sapiens
43 ARL3 403
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
44 FGG 2266
Affinity Capture-MS Homo sapiens
45 IGHG1 3500
Affinity Capture-MS Homo sapiens
46 RAB13 5872
Two-hybrid Homo sapiens
47 TBC1D10A 83874
Affinity Capture-MS Homo sapiens
48 RAP1A 5906
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
49 IRF2BP1 26145
Affinity Capture-MS Homo sapiens
50 COPS5 10987
Affinity Capture-MS Homo sapiens
51 RHOB 388
Two-hybrid Homo sapiens
52 RAB28 9364
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
53 RHOA 387
Two-hybrid Homo sapiens
54 LMNA 4000
Affinity Capture-MS Homo sapiens
55 TXNL4A 10907
Affinity Capture-MS Homo sapiens
56 SERPINA3 12
Affinity Capture-MS Homo sapiens
57 FBXO10  
Affinity Capture-MS Homo sapiens
58 APOA1 335
Affinity Capture-MS Homo sapiens
View the network image/svg+xml



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