ExoCarta: Gene summary

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Gene description for PRPF38A
Gene name	pre-mRNA processing factor 38A
Gene symbol	PRPF38A
Other names/aliases	Prp38
Species	Homo sapiens
Database cross references - PRPF38A
ExoCarta	ExoCarta_84950
Vesiclepedia	VP_84950
Entrez Gene	84950
HGNC	25930
UniProt	Q8NAV1
PRPF38A 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 PRPF38A

Molecular Function
	RNA binding	GO:0003723	HDA
	protein binding	GO:0005515	IPI
Biological Process
	mRNA splicing, via spliceosome	GO:0000398	IDA
	mRNA splicing, via spliceosome	GO:0000398	IMP
Subcellular Localization
	nucleus	GO:0005634	IDA
	nucleoplasm	GO:0005654	IDA
	nucleoplasm	GO:0005654	TAS
	U2-type precatalytic spliceosome	GO:0071005	IDA
	precatalytic spliceosome	GO:0071011	IBA
	precatalytic spliceosome	GO:0071011	IDA

Experiment description of studies that identified PRPF38A in exosomes

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

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

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

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 PRPF38A

Protein Interactor

ExoCarta ID

Identification method

PubMed

Species

CFAP20

29105

Affinity Capture-MS

Homo sapiens

UBE2H

7328

Affinity Capture-MS

Homo sapiens

CDC14B

8555

Proximity Label-MS

Homo sapiens

RIT1

6016

Negative Genetic

Homo sapiens

H2AFJ

55766

Affinity Capture-MS

Homo sapiens

MIB1

57534

Proximity Label-MS

Homo sapiens

SRPK2

6733

Two-hybrid		Homo sapiens
Biochemical Activity		Homo sapiens
Two-hybrid		Homo sapiens
Affinity Capture-MS		Homo sapiens
Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

PPIL4

Affinity Capture-MS

Homo sapiens

RPA2

6118

Proximity Label-MS

Homo sapiens

PRPF38A

84950

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

ANAPC15

Affinity Capture-MS

Homo sapiens

DHX8

1659

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

C1orf35

Affinity Capture-MS

Homo sapiens

KIF20A

10112

Affinity Capture-MS

Homo sapiens

CSNK2A1

1457

Biochemical Activity		Homo sapiens
Co-fractionation		Homo sapiens

HNRNPCL1

343069

Affinity Capture-MS

Homo sapiens

DVL3

1857

Two-hybrid

Homo sapiens

PPP1R10

Affinity Capture-MS

Homo sapiens

SRSF8

10929

Two-hybrid

Homo sapiens

APP

351

Reconstituted Complex

Homo sapiens

ANKRD50

57182

Affinity Capture-MS

Homo sapiens

TMA16

Affinity Capture-MS

Homo sapiens

GPATCH4

54865

Affinity Capture-MS

Homo sapiens

RNPS1

10921

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

KIF23

9493

Affinity Capture-MS

Homo sapiens

PRC1

9055

Affinity Capture-MS

Homo sapiens

CPSF7

79869

Affinity Capture-MS

Homo sapiens

SNRPC

6631

Affinity Capture-MS

Homo sapiens

ACER3

Affinity Capture-MS

Homo sapiens

Tagap

Affinity Capture-MS

Mus musculus

PEA15

8682

Affinity Capture-MS

Homo sapiens

GAGE2E

26749

Affinity Capture-MS

Homo sapiens

EED

Affinity Capture-MS

Homo sapiens

SDHAP2

Affinity Capture-MS

Homo sapiens

MECP2

4204

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

TACO1

Affinity Capture-MS

Homo sapiens

SDCBP

6386

Two-hybrid

Homo sapiens

CSNK2B

1460

Co-fractionation

Homo sapiens

CHERP

10523

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

KIF14

9928

Affinity Capture-MS

Homo sapiens

POLA2

Two-hybrid

Homo sapiens

E2F4

Affinity Capture-MS

Homo sapiens

CLK2

1196

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

JMJD6

23210

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Two-hybrid		Homo sapiens

PIP4K2C

79837

Affinity Capture-MS

Homo sapiens

TMEM14B

Affinity Capture-MS

Homo sapiens

HIST1H4A

8359

Affinity Capture-MS

Homo sapiens

RBX1

9978

Affinity Capture-MS

Homo sapiens

WDR70

55100

Affinity Capture-MS

Homo sapiens

ECT2

1894

Affinity Capture-MS

Homo sapiens

MEPCE

56257

Affinity Capture-MS

Homo sapiens

SRSF3

6428

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens
Affinity Capture-MS		Homo sapiens

KIAA1161

57462

Affinity Capture-MS

Homo sapiens

SRSF6

6431

Affinity Capture-MS

Homo sapiens

IFI27L1

Affinity Capture-MS

Homo sapiens

PTP4A3

Affinity Capture-MS

Homo sapiens

SRSF4

6429

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

CHMP4B

128866

Affinity Capture-MS

Homo sapiens

CCNL1

Affinity Capture-MS

Homo sapiens

ARHGAP11A

Affinity Capture-MS

Homo sapiens

RAD18

Affinity Capture-MS

Homo sapiens

TOX4

Affinity Capture-MS

Homo sapiens

NSRP1

Affinity Capture-MS

Homo sapiens

AP3B1

8546

Affinity Capture-MS

Homo sapiens

ELOVL5

60481

Affinity Capture-MS

Homo sapiens

SRPK1

6732

Two-hybrid		Homo sapiens
Biochemical Activity		Homo sapiens
Two-hybrid		Homo sapiens

U2AF1

7307

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

SP100

6672

Affinity Capture-MS

Homo sapiens

ANLN

54443

Affinity Capture-MS

Homo sapiens

TPX2

Affinity Capture-MS

Homo sapiens

DNAAF2

Affinity Capture-MS

Homo sapiens

RPL29

6159

Affinity Capture-MS

Homo sapiens

FAM76B

Affinity Capture-MS

Homo sapiens

ZBTB2

57621

Affinity Capture-MS

Homo sapiens

RBM39

9584

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

PRPF4B

8899

Affinity Capture-MS

Homo sapiens

C11orf57

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

TP53BP1

7158

Affinity Capture-MS

Homo sapiens

JPH3

57338

Affinity Capture-MS

Homo sapiens

XPO1

7514

Affinity Capture-MS

Homo sapiens

PSENEN

Affinity Capture-MS

Homo sapiens

SEC13

6396

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

E2F5

Affinity Capture-MS

Homo sapiens

GTF3C1

Two-hybrid

Homo sapiens

CTTN

2017

Affinity Capture-MS

Homo sapiens

SRRM4

Two-hybrid

Homo sapiens

SRSF5

6430

Affinity Capture-MS

Homo sapiens

USP54

159195

Affinity Capture-MS

Homo sapiens

YY1

7528

Affinity Capture-MS

Homo sapiens

C12orf45

Affinity Capture-MS

Homo sapiens

TSSC4

Affinity Capture-MS

Homo sapiens

HNRNPCL2

440563

Affinity Capture-MS

Homo sapiens

HIST1H2BO

8348

Affinity Capture-MS

Homo sapiens

AP2M1

1173

Two-hybrid

Homo sapiens

PRMT5

10419

Two-hybrid

Homo sapiens

MAPK6

Two-hybrid

Homo sapiens

LUC7L2

51631

Two-hybrid

Homo sapiens

CSNK1D

1453

Affinity Capture-MS

Homo sapiens

MFAP1

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Co-fractionation		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

100

PSPC1

55269

Affinity Capture-MS

Homo sapiens

101

RPA3

6119

Proximity Label-MS

Homo sapiens

102

RPS13

6207

Affinity Capture-MS

Homo sapiens

103

DLST

1743

Affinity Capture-MS

Homo sapiens

104

FIP1L1

81608

Affinity Capture-MS

Homo sapiens

105

PRPF40A

55660

Affinity Capture-MS

Homo sapiens

106

TMSB4Y

Affinity Capture-MS

Homo sapiens

107

CYCS

54205

Affinity Capture-MS

Homo sapiens

108

MALL

Affinity Capture-MS

Homo sapiens

109

SUMO1

7341

Affinity Capture-MS

Homo sapiens

110

FDCSP

Affinity Capture-MS

Homo sapiens

111

NUDT21

11051

Affinity Capture-MS

Homo sapiens

112

CLK1

Two-hybrid

Homo sapiens

113

Srsf5

20384

Two-hybrid

Mus musculus

114

FOLR1

2348

Affinity Capture-MS

Homo sapiens

115

SDCBP2

27111

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

116

RBM25

58517

Affinity Capture-MS

Homo sapiens

117

PPIG

9360

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

118

SAA1

6288

Affinity Capture-MS

Homo sapiens

119

NUFIP2

57532

Affinity Capture-MS

Homo sapiens

120

PDHA1

5160

Affinity Capture-MS

Homo sapiens

121

IFI6

Affinity Capture-MS

Homo sapiens

122

TAF2

Affinity Capture-MS

Homo sapiens

123

EZH1

Affinity Capture-MS

Homo sapiens

124

PIP4K2A

5305

Affinity Capture-MS

Homo sapiens

125

C20orf197

Affinity Capture-MS

Homo sapiens

126

LRPAP1

4043

Affinity Capture-MS

Homo sapiens

127

TMEM257

Affinity Capture-MS

Homo sapiens

128

SPCS1

28972

Affinity Capture-MS

Homo sapiens

129

SPAG1

6674

Affinity Capture-MS

Homo sapiens

130

SRSF7

6432

Two-hybrid

Homo sapiens

131

ZCCHC10

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

132

RDX

5962

Two-hybrid

Homo sapiens

133

DDX42

11325

Affinity Capture-MS

Homo sapiens

134

FAM76A

Affinity Capture-MS

Homo sapiens

135

KRAS

3845

Negative Genetic

Homo sapiens

136

Brca1

Affinity Capture-MS

Mus musculus

137

UQCR11

Affinity Capture-MS

Homo sapiens

138

UBE2V2

7336

Affinity Capture-MS

Homo sapiens

139

Srrm3

58212

Two-hybrid

Mus musculus

140

Sept6

Affinity Capture-MS

Mus musculus

View the network

Pathways in which PRPF38A is involved

Pathway	Evidence	Source
Metabolism of RNA	TAS	Reactome
mRNA Splicing	TAS	Reactome
mRNA Splicing - Major Pathway	TAS	Reactome
Processing of Capped Intron-Containing Pre-mRNA	TAS	Reactome

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