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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 8082

FusionGeneSummary for COPG2_CSGALNACT1

check button Fusion gene summary
Fusion gene informationFusion gene name: COPG2_CSGALNACT1
Fusion gene ID: 8082
HgeneTgene
Gene symbol

COPG2

CSGALNACT1

Gene ID

26958

55790

Gene namecoatomer protein complex subunit gamma 2chondroitin sulfate N-acetylgalactosaminyltransferase 1
Synonyms2-COP|gamma-2-COPCSGalNAcT-1|ChGn|ChGn-1|beta4GalNAcT
Cytomap

7q32.2

8p21.3

Type of geneprotein-codingprotein-coding
Descriptioncoatomer subunit gamma-2coat protein, nonclathrin, gamma-2-copgamma-2-coat proteintesticular secretory protein Li 12chondroitin sulfate N-acetylgalactosaminyltransferase 1beta4GalNAcT-1chondroitin beta-1,4-N-acetylgalactosaminyltransferase 1chondroitin beta1,4 N-acetylgalactosaminyltransferaseglucuronylgalactosylproteoglycan 4-beta-N- acetylgalactosaminyltransferas
Modification date2018052320180519
UniProtAcc

Q9UBF2

Q8TDX6

Ensembl transtripts involved in fusion geneENST00000445977, ENST00000454498, 
ENST00000332246, ENST00000311540, 
ENST00000522854, ENST00000544602, 
ENST00000518542, 
Fusion gene scores* DoF score3 X 2 X 3=185 X 4 X 4=80
# samples 35
** MAII scorelog2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(5/80*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: COPG2 [Title/Abstract] AND CSGALNACT1 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneCOPG2

GO:0006891

intra-Golgi vesicle-mediated transport

11056392

TgeneCSGALNACT1

GO:0019276

UDP-N-acetylgalactosamine metabolic process

11514575

TgeneCSGALNACT1

GO:0030206

chondroitin sulfate biosynthetic process

11514575|12163485

TgeneCSGALNACT1

GO:0046398

UDP-glucuronate metabolic process

11514575

TgeneCSGALNACT1

GO:0050653

chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process

12163485


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS3.1DB148679COPG2chr7

130301920

-CSGALNACT1chr8

19316044

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
intron-3CDSENST00000445977ENST00000454498COPG2chr7

130301920

-CSGALNACT1chr8

19316044

-
intron-3CDSENST00000445977ENST00000332246COPG2chr7

130301920

-CSGALNACT1chr8

19316044

-
intron-3CDSENST00000445977ENST00000311540COPG2chr7

130301920

-CSGALNACT1chr8

19316044

-
intron-3CDSENST00000445977ENST00000522854COPG2chr7

130301920

-CSGALNACT1chr8

19316044

-
intron-3CDSENST00000445977ENST00000544602COPG2chr7

130301920

-CSGALNACT1chr8

19316044

-
intron-5UTRENST00000445977ENST00000518542COPG2chr7

130301920

-CSGALNACT1chr8

19316044

-

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FusionProtFeatures for COPG2_CSGALNACT1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
COPG2

Q9UBF2

CSGALNACT1

Q8TDX6

The coatomer is a cytosolic protein complex that bindsto dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosyntheticprotein transport from the ER, via the Golgi up to the trans Golginetwork. Coatomer complex is required for budding from Golgimembranes, and is essential for the retrograde Golgi-to-ERtransport of dilysine-tagged proteins. In mammals, the coatomercan only be recruited by membranes associated to ADP-ribosylationfactors (ARFs), which are small GTP-binding proteins; the complexalso influences the Golgi structural integrity, as well as theprocessing, activity, and endocytic recycling of LDL receptors (Bysimilarity). {ECO:0000250}. Transfers 1,4-N-acetylgalactosamine (GalNAc) from UDP-GalNAc to the non-reducing end of glucuronic acid (GlcUA).Required for addition of the first GalNAc to the coretetrasaccharide linker and for elongation of chondroitin chains.Important role in chondroitin chain biosynthesis in cartilageformation and subsequent endochondral ossification(PubMed:11788602, PubMed:12163485, PubMed:12446672,PubMed:17145758). Moreover, is involved in the metabolism ofaggrecan (By similarity). {ECO:0000250|UniProtKB:Q8BJQ9,ECO:0000269|PubMed:11788602, ECO:0000269|PubMed:12163485,ECO:0000269|PubMed:12446672, ECO:0000269|PubMed:17145758,ECO:0000269|PubMed:21160489, ECO:0000269|PubMed:27599773}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

.

* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for COPG2_CSGALNACT1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for COPG2_CSGALNACT1


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for COPG2_CSGALNACT1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for COPG2_CSGALNACT1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCOPG2C0043094Weight Gain1CTD_human
TgeneCSGALNACT1C0023893Liver Cirrhosis, Experimental1CTD_human