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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: 7190

FusionGeneSummary for CHST2_CLN6

check button Fusion gene summary
Fusion gene informationFusion gene name: CHST2_CLN6
Fusion gene ID: 7190
HgeneTgene
Gene symbol

CHST2

CLN6

Gene ID

9435

54982

Gene namecarbohydrate sulfotransferase 2CLN6, transmembrane ER protein
SynonymsC6ST|GST-2|GST2|Gn6ST-1|HEL-S-75|glcNAc6ST-1CLN4A|HsT18960|nclf
Cytomap

3q24

15q23

Type of geneprotein-codingprotein-coding
Descriptioncarbohydrate sulfotransferase 2N-acetylglucosamine 6-O-sulfotransferase 1carbohydrate (N-acetylglucosamine-6-O) sulfotransferase 2carbohydrate (chondroitin 6/keratan) sulfotransferase 2epididymis secretory protein Li 75galactose/N-acetylglucosamine/Nceroid-lipofuscinosis neuronal protein 6ceroid-lipofuscinosis neuronal 6 late infantileceroid-lipofuscinosis, neuronal 6, late infantile
Modification date2018052320180523
UniProtAcc

Q9Y4C5

Q9NWW5

Ensembl transtripts involved in fusion geneENST00000309575, ENST00000249806, 
ENST00000565471, ENST00000418702, 
ENST00000566347, ENST00000538696, 
ENST00000564752, ENST00000569336, 
Fusion gene scores* DoF score1 X 1 X 1=12 X 2 X 1=4
# samples 12
** MAII scorelog2(1/1*10)=3.32192809488736log2(2/4*10)=2.32192809488736
Context

PubMed: CHST2 [Title/Abstract] AND CLN6 [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
HgeneCHST2

GO:0006044

N-acetylglucosamine metabolic process

9722682

HgeneCHST2

GO:0006790

sulfur compound metabolic process

9722682


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
ChiTaRS3.1BQ185214CHST2chr3

142841558

-CLN6chr15

68499350

+
* 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
3UTR-3UTRENST00000309575ENST00000249806CHST2chr3

142841558

-CLN6chr15

68499350

+
3UTR-intronENST00000309575ENST00000565471CHST2chr3

142841558

-CLN6chr15

68499350

+
3UTR-intronENST00000309575ENST00000418702CHST2chr3

142841558

-CLN6chr15

68499350

+
3UTR-intronENST00000309575ENST00000566347CHST2chr3

142841558

-CLN6chr15

68499350

+
3UTR-intronENST00000309575ENST00000538696CHST2chr3

142841558

-CLN6chr15

68499350

+
3UTR-intronENST00000309575ENST00000564752CHST2chr3

142841558

-CLN6chr15

68499350

+
3UTR-intronENST00000309575ENST00000569336CHST2chr3

142841558

-CLN6chr15

68499350

+

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FusionProtFeatures for CHST2_CLN6


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CHST2

Q9Y4C5

CLN6

Q9NWW5

Sulfotransferase that utilizes 3'-phospho-5'-adenylylsulfate (PAPS) as sulfonate donor to catalyze the transfer ofsulfate to position 6 of non-reducing N-acetylglucosamine (GlcNAc)residues within keratan-like structures on N-linked glycans andwithin mucin-associated glycans that can ultimately serve as SELLligands. SELL ligands are present in high endothelial cells (HEVs)and play a central role in lymphocyte homing at sites ofinflammation. Participates in biosynthesis of the SELL ligandsialyl 6-sulfo Lewis X and in lymphocyte homing to Peyer patches.Has no activity toward O-linked sugars. Its substrate specificitymay be influenced by its subcellular location. Sulfates GlcNAcresidues at terminal, non-reducing ends of oligosaccharide chains.{ECO:0000269|PubMed:11042394}.

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 CHST2_CLN6


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 CHST2_CLN6


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 CHST2_CLN6


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 CHST2_CLN6


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneCLN6C1866282CEROID LIPOFUSCINOSIS, NEURONAL, 66CTD_human;ORPHANET;UNIPROT
TgeneCLN6C0021368Inflammation1CTD_human
TgeneCLN6C0022797Adult Neuronal Ceroid Lipofuscinosis1ORPHANET;UNIPROT
TgeneCLN6C0026613Motor Skills Disorders1CTD_human
TgeneCLN6C0027877Neuronal Ceroid-Lipofuscinoses1CTD_human
TgeneCLN6C0042790Vision Disorders1CTD_human
TgeneCLN6C0333641Atrophic1CTD_human
TgeneCLN6C0751778Myoclonic Epilepsies, Progressive1CTD_human
TgeneCLN6C1262477Weight decreased1CTD_human