ExoCarta: Gene summary

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Gene description for ZCCHC8
Gene name	zinc finger, CCHC domain containing 8
Gene symbol	ZCCHC8
Other names/aliases	-
Species	Homo sapiens
Database cross references - ZCCHC8
ExoCarta	ExoCarta_55596
Vesiclepedia	VP_55596
Entrez Gene	55596
HGNC	25265
UniProt	Q6NZY4
ZCCHC8 identified in exosomes derived from the following tissue/cell type
Mesenchymal stem cells	36408942

Gene ontology annotations for ZCCHC8

Molecular Function
	RNA binding	GO:0003723	HDA
	RNA binding	GO:0003723	IBA
	RNA binding	GO:0003723	IDA
	protein binding	GO:0005515	IPI
	zinc ion binding	GO:0008270	IEA
Biological Process
	mRNA splicing, via spliceosome	GO:0000398	IC
	RNA processing	GO:0006396	IBA
	snRNA catabolic process	GO:0016076	ISS
	mRNA 3'-end processing	GO:0031124	IMP
	co-transcriptional lncRNA 3' end processing, cleavage and polyadenylation pathway	GO:0180034	IMP
Subcellular Localization
	nucleus	GO:0005634	IDA
	nucleoplasm	GO:0005654	IDA
	nucleolus	GO:0005730	IDA
	nuclear body	GO:0016604	IDA
	TRAMP complex	GO:0031499	IDA
	catalytic step 2 spliceosome	GO:0071013	IBA
	catalytic step 2 spliceosome	GO:0071013	IDA

Experiment description of studies that identified ZCCHC8 in exosomes

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

Protein-protein interactions for ZCCHC8

Protein Interactor

ExoCarta ID

Identification method

PubMed

Species

HNRNPH1

3187

Affinity Capture-MS

Homo sapiens

RIT1

6016

Negative Genetic

Homo sapiens

SLIRP

81892

Proximity Label-MS

Homo sapiens

EXOSC7

23016

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

KPNA1

3836

Affinity Capture-MS

Homo sapiens

HIST1H4A

8359

Affinity Capture-MS

Homo sapiens

RPA2

6118

Affinity Capture-MS

Homo sapiens

ACTC1

Proximity Label-MS

Homo sapiens

BRCA1

672

Affinity Capture-Western

Homo sapiens

LOC100132735

Protein-RNA

Homo sapiens

RET

5979

Affinity Capture-MS

Homo sapiens

PRPF40A

55660

Two-hybrid

Homo sapiens

EIF4E2

Affinity Capture-MS

Homo sapiens

APP

351

Reconstituted Complex

Homo sapiens

HNRNPUL2

221092

Affinity Capture-MS

Homo sapiens

DROSHA

Affinity Capture-MS

Homo sapiens

TRIM28

10155

Affinity Capture-MS

Homo sapiens

EXOSC2

23404

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

SKIV2L2

23517

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

SSRP1

6749

Affinity Capture-MS

Homo sapiens

SNRPC

6631

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

PSMB6

5694

Co-fractionation

Homo sapiens

POLR1E

Proximity Label-MS

Homo sapiens

PSMC2

5701

Co-fractionation

Homo sapiens

EXOSC4

54512

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

U2AF1

7307

Co-fractionation

Homo sapiens

ATG16L1

55054

Affinity Capture-MS

Homo sapiens

POLR2C

5432

Proximity Label-MS

Homo sapiens

EXOSC6

118460

Affinity Capture-MS

Homo sapiens

MECP2

4204

Affinity Capture-MS

Homo sapiens

MYCN

Affinity Capture-MS

Homo sapiens

MPHOSPH6

10200

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

USP7

7874

Co-fractionation

Homo sapiens

THOC1

9984

Co-fractionation

Homo sapiens

MAD2L1

4085

Affinity Capture-MS

Homo sapiens

KCTD6

Affinity Capture-MS

Homo sapiens

EXOSC9

5393

Affinity Capture-MS

Homo sapiens

YWHAB

7529

Affinity Capture-MS

Homo sapiens

Tbck

Affinity Capture-MS

Mus musculus

CLK2

1196

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

DIS3L

Affinity Capture-MS

Homo sapiens

MIB1

57534

Proximity Label-MS

Homo sapiens

NCBP2

22916

Affinity Capture-MS

Homo sapiens

DDX21

9188

Affinity Capture-MS

Homo sapiens

PARK2

Affinity Capture-MS

Homo sapiens

RBM4B

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

RBM7

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

PSMD13

5719

Co-fractionation

Homo sapiens

TRIM24

Affinity Capture-MS

Homo sapiens

NTRK1

4914

Affinity Capture-MS

Homo sapiens

U2AF2

11338

Co-fractionation

Homo sapiens

EXOSC5

56915

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

ARRDC3

57561

Affinity Capture-MS

Homo sapiens

DHX9

1660

Affinity Capture-MS

Homo sapiens

ZC3H15

55854

Co-fractionation

Homo sapiens

USP28

57646

Co-fractionation

Homo sapiens

Ncbp2

Affinity Capture-MS

Mus musculus

COX4I1

1327

Proximity Label-MS

Homo sapiens

CD3EAP

Proximity Label-MS

Homo sapiens

ASH2L

9070

Proximity Label-MS

Homo sapiens

HNRNPD

3184

Affinity Capture-MS

Homo sapiens

PPP2R2B

5521

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

HBS1L

10767

Affinity Capture-MS

Homo sapiens

XPO1

7514

Affinity Capture-MS

Homo sapiens

RC3H2

Affinity Capture-MS

Homo sapiens

SIRT7

Affinity Capture-MS

Homo sapiens

SNRPB

6628

Affinity Capture-MS

Homo sapiens

CUL3

8452

Affinity Capture-MS

Homo sapiens

TXNDC9

10190

Co-fractionation

Homo sapiens

PLEKHA4

57664

Affinity Capture-MS

Homo sapiens

MICB

Co-fractionation

Homo sapiens

PPP2R1A

5518

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Proximity Label-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

RPA3

6119

Affinity Capture-MS		Homo sapiens
Proximity Label-MS		Homo sapiens

ZC3H18

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

EXOSC3

51010

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

PABPC5

140886

Affinity Capture-MS

Homo sapiens

TOP1

7150

Affinity Capture-MS

Homo sapiens

PSMC5

5705

Co-fractionation

Homo sapiens

C1D

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

RNF2

Affinity Capture-MS

Homo sapiens

BMI1

Affinity Capture-MS

Homo sapiens

CYP2C9

Proximity Label-MS

Homo sapiens

RBM11

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

EXOSC10

5394

Affinity Capture-MS

Homo sapiens

SNCA

6622

Affinity Capture-MS

Homo sapiens

CPSF6

11052

Affinity Capture-MS

Homo sapiens

GIGYF2

26058

Affinity Capture-MS

Homo sapiens

Osgep

Affinity Capture-MS

Mus musculus

INPPL1

3636

Co-fractionation

Homo sapiens

PSMC4

5704

Co-fractionation		Homo sapiens
Co-fractionation		Homo sapiens

RPA1

6117

Affinity Capture-MS

Homo sapiens

MEN1

4221

Affinity Capture-MS

Homo sapiens

SNRPA

6626

Affinity Capture-MS

Homo sapiens

PPP2R2D

55844

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Proximity Label-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

PPP2R2C

5522

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

GBA

2629

Affinity Capture-MS

Homo sapiens

CHD4

1108

Affinity Capture-MS

Homo sapiens

LUC7L

55692

Affinity Capture-MS

Homo sapiens

THOC6

79228

Co-fractionation

Homo sapiens

100

MKI67

Affinity Capture-MS

Homo sapiens

101

PSMA1

5682

Co-fractionation

Homo sapiens

102

DHX40

Proximity Label-MS

Homo sapiens

103

HNRNPL

3191

Affinity Capture-MS

Homo sapiens

104

SRSF7

6432

Affinity Capture-MS

Homo sapiens

105

HNRNPF

3185

Affinity Capture-MS

Homo sapiens

106

367

Proximity Label-MS

Homo sapiens

107

MYC

Affinity Capture-MS

Homo sapiens

108

PPP2R2A

5520

Affinity Capture-MS		Homo sapiens
Proximity Label-MS		Homo sapiens

109

EXOSC1

51013

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

110

EXOSC8

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

View the network

Pathways in which ZCCHC8 is involved

Pathway	Evidence	Source
Epigenetic regulation of gene expression	IEA	Reactome
Gene expression (Transcription)	IEA	Reactome
Regulation of endogenous retroelements	IEA	Reactome
Regulation of endogenous retroelements by the Human Silencing Hub (HUSH) complex	IEA	Reactome

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