FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact
Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:CLSTN3-C1S (FusionGDB2 ID:17357)

Fusion Gene Summary for CLSTN3-C1S

check button Fusion gene summary
Fusion gene informationFusion gene name: CLSTN3-C1S
Fusion gene ID: 17357
HgeneTgene
Gene symbol

CLSTN3

C1S

Gene ID

9746

716

Gene namecalsyntenin 3complement C1s
SynonymsCDHR14|CSTN3|alcbetaEDSPD2
Cytomap

12p13.31

12p13.31

Type of geneprotein-codingprotein-coding
Descriptioncalsyntenin-3alc-betaalcadein betacadherin-related family member 14complement C1s subcomponentC1 esterasebasic proline-rich peptide IB-1complement component 1 subcomponent scomplement component 1, s subcomponent
Modification date2020032020200313
UniProtAcc

Q9BQT9

P09871

Ensembl transtripts involved in fusion geneENST00000266546, ENST00000537408, 
ENST00000331148, 		ENST00000328916, 
ENST00000360817, ENST00000402681, 
ENST00000406697, ENST00000495061, 
Fusion gene scores* DoF score7 X 5 X 5=17510 X 11 X 3=330
# samples 810
** MAII scorelog2(8/175*10)=-1.12928301694497
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/330*10)=-1.72246602447109
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CLSTN3 [Title/Abstract] AND C1S [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCLSTN3(7288987)-C1S(7169056), # samples:3
Anticipated loss of major functional domain due to fusion event.
* 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

check buttonFusion gene breakpoints across CLSTN3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across C1S (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4LIHCTCGA-ZP-A9CZ-01ACLSTN3chr12

7288987

-C1Schr12

7169056

+
ChimerDB4LIHCTCGA-ZP-A9CZ-01ACLSTN3chr12

7288987

+C1Schr12

7169056

+
ChimerDB4LIHCTCGA-ZP-A9CZ-01ACLSTN3chr12

7288987

+C1Schr12

7169143

+


Top

Fusion Gene ORF analysis for CLSTN3-C1S

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
5CDS-5UTRENST00000266546ENST00000328916CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-5UTRENST00000266546ENST00000328916CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-5UTRENST00000266546ENST00000360817CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-5UTRENST00000266546ENST00000402681CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-5UTRENST00000266546ENST00000402681CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-5UTRENST00000266546ENST00000406697CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-5UTRENST00000537408ENST00000328916CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-5UTRENST00000537408ENST00000328916CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-5UTRENST00000537408ENST00000360817CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-5UTRENST00000537408ENST00000402681CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-5UTRENST00000537408ENST00000402681CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-5UTRENST00000537408ENST00000406697CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-intronENST00000266546ENST00000360817CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-intronENST00000266546ENST00000406697CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-intronENST00000266546ENST00000495061CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-intronENST00000266546ENST00000495061CLSTN3chr12

7288987

+C1Schr12

7169143

+
5CDS-intronENST00000537408ENST00000360817CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-intronENST00000537408ENST00000406697CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-intronENST00000537408ENST00000495061CLSTN3chr12

7288987

+C1Schr12

7169056

+
5CDS-intronENST00000537408ENST00000495061CLSTN3chr12

7288987

+C1Schr12

7169143

+
intron-5UTRENST00000331148ENST00000328916CLSTN3chr12

7288987

+C1Schr12

7169056

+
intron-5UTRENST00000331148ENST00000328916CLSTN3chr12

7288987

+C1Schr12

7169143

+
intron-5UTRENST00000331148ENST00000360817CLSTN3chr12

7288987

+C1Schr12

7169143

+
intron-5UTRENST00000331148ENST00000402681CLSTN3chr12

7288987

+C1Schr12

7169056

+
intron-5UTRENST00000331148ENST00000402681CLSTN3chr12

7288987

+C1Schr12

7169143

+
intron-5UTRENST00000331148ENST00000406697CLSTN3chr12

7288987

+C1Schr12

7169143

+
intron-intronENST00000331148ENST00000360817CLSTN3chr12

7288987

+C1Schr12

7169056

+
intron-intronENST00000331148ENST00000406697CLSTN3chr12

7288987

+C1Schr12

7169056

+
intron-intronENST00000331148ENST00000495061CLSTN3chr12

7288987

+C1Schr12

7169056

+
intron-intronENST00000331148ENST00000495061CLSTN3chr12

7288987

+C1Schr12

7169143

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

Top

Fusion Genomic Features for CLSTN3-C1S


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
CLSTN3chr127288987+C1Schr127169142+0.397359430.60264057
CLSTN3chr127288987+C1Schr127169055+0.0135310670.9864689
CLSTN3chr127288987+C1Schr127169142+0.397359430.60264057
CLSTN3chr127288987+C1Schr127169055+0.0135310670.9864689

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.
genomic feature of top 1%

Top

Fusion Protein Features for CLSTN3-C1S


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:7288987/:7169056)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CLSTN3

Q9BQT9

C1S

P09871

FUNCTION: May modulate calcium-mediated postsynaptic signals. Complex formation with APBA2 and APP, stabilizes APP metabolism and enhances APBA2-mediated suppression of beta-APP40 secretion, due to the retardation of intracellular APP maturation. {ECO:0000250}.FUNCTION: C1s B chain is a serine protease that combines with C1q and C1r to form C1, the first component of the classical pathway of the complement system. C1r activates C1s so that it can, in turn, activate C2 and C4.

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


Top

Fusion Gene Sequence for CLSTN3-C1S


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

Top

Fusion Gene PPI Analysis for CLSTN3-C1S


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


Top

Related Drugs for CLSTN3-C1S


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

Related Diseases for CLSTN3-C1S


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource