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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:CKAP5-IQCJ-SCHIP1 (FusionGDB2 ID:16894)

Fusion Gene Summary for CKAP5-IQCJ-SCHIP1

check button Fusion gene summary
Fusion gene informationFusion gene name: CKAP5-IQCJ-SCHIP1
Fusion gene ID: 16894
HgeneTgene
Gene symbol

CKAP5

IQCJ-SCHIP1

Gene ID

9793

100505385

Gene namecytoskeleton associated protein 5IQCJ-SCHIP1 readthrough
SynonymsCHTOG|MSPS|TOG|TOGp|ch-TOG-
Cytomap

11p11.2

3q25.32-q25.33

Type of geneprotein-codingprotein-coding
Descriptioncytoskeleton-associated protein 5colonic and hepatic tumor over-expressed gene proteincolonic and hepatic tumor overexpressed gene proteinIQCJ-SCHIP1 readthrough transcript proteinIQ motif containing J-schwannomin interacting protein 1 fusion proteinIQ motif containing J-schwannomin interacting protein 1 read-through transcript
Modification date2020031320200313
UniProtAcc

Q14008

B3KU38

Ensembl transtripts involved in fusion geneENST00000354558, ENST00000312055, 
ENST00000415402, ENST00000529230, 
ENST00000532321, 		ENST00000337808, 
ENST00000412423, ENST00000460298, 
ENST00000467442, ENST00000476809, 
ENST00000485419, ENST00000527095, 
Fusion gene scores* DoF score9 X 9 X 5=4056 X 5 X 3=90
# samples 96
** MAII scorelog2(9/405*10)=-2.16992500144231
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(6/90*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CKAP5 [Title/Abstract] AND IQCJ-SCHIP1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCKAP5(46765092)-IQCJ-SCHIP1(158827310), # samples:5
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
HgeneCKAP5

GO:0090063

positive regulation of microtubule nucleation

26414402


check buttonFusion gene breakpoints across CKAP5 (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 IQCJ-SCHIP1 (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
ChiTaRS5.0N/AAW020133CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
ChiTaRS5.0N/AAW020622CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
ChiTaRS5.0N/AAW021019CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
ChiTaRS5.0N/AAW021210CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
ChiTaRS5.0N/ABI494764CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+


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Fusion Gene ORF analysis for CKAP5-IQCJ-SCHIP1

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-intronENST00000354558ENST00000337808CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
5CDS-intronENST00000354558ENST00000412423CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
5CDS-intronENST00000354558ENST00000460298CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
5CDS-intronENST00000354558ENST00000467442CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
5CDS-intronENST00000354558ENST00000476809CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
5CDS-intronENST00000354558ENST00000485419CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
5CDS-intronENST00000354558ENST00000527095CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000312055ENST00000337808CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000312055ENST00000412423CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000312055ENST00000460298CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000312055ENST00000467442CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000312055ENST00000476809CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000312055ENST00000485419CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000312055ENST00000527095CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000415402ENST00000337808CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000415402ENST00000412423CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000415402ENST00000460298CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000415402ENST00000467442CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000415402ENST00000476809CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000415402ENST00000485419CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000415402ENST00000527095CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000529230ENST00000337808CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000529230ENST00000412423CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000529230ENST00000460298CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000529230ENST00000467442CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000529230ENST00000476809CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000529230ENST00000485419CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000529230ENST00000527095CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000532321ENST00000337808CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000532321ENST00000412423CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000532321ENST00000460298CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000532321ENST00000467442CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000532321ENST00000476809CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000532321ENST00000485419CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+
intron-intronENST00000532321ENST00000527095CKAP5chr11

46765092

-IQCJ-SCHIP1chr3

158827310

+

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

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Fusion Genomic Features for CKAP5-IQCJ-SCHIP1


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)

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.

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Fusion Protein Features for CKAP5-IQCJ-SCHIP1


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/:46765092/:158827310)
- 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
CKAP5

Q14008

IQCJ-SCHIP1

B3KU38

FUNCTION: Binds to the plus end of microtubules and regulates microtubule dynamics and microtubule organization. Acts as processive microtubule polymerase. Promotes cytoplasmic microtubule nucleation and elongation. Plays a major role in organizing spindle poles. In spindle formation protects kinetochore microtubules from depolymerization by KIF2C and has an essential role in centrosomal microtubule assembly independently of KIF2C activity. Contributes to centrosome integrity. Acts as component of the TACC3/ch-TOG/clathrin complex proposed to contribute to stabilization of kinetochore fibers of the mitotic spindle by acting as inter-microtubule bridge. The TACC3/ch-TOG/clathrin complex is required for the maintenance of kinetochore fiber tension (PubMed:23532825). Enhances the strength of NDC80 complex-mediated kinetochore-tip microtubule attachments (PubMed:27156448). {ECO:0000269|PubMed:12569123, ECO:0000269|PubMed:18809577, ECO:0000269|PubMed:21297582, ECO:0000269|PubMed:21646404, ECO:0000269|PubMed:23532825, ECO:0000269|PubMed:27156448, ECO:0000269|PubMed:9570755}.FUNCTION: May play a role in action potential conduction in myelinated cells through the organization of molecular complexes at nodes of Ranvier and axon initial segments (PubMed:25950943). May also play a role in axon outgrowth and guidance (By similarity). {ECO:0000250|UniProtKB:A0A088MLT8, ECO:0000269|PubMed:25950943}.

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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Fusion Gene Sequence for CKAP5-IQCJ-SCHIP1


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.

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Fusion Gene PPI Analysis for CKAP5-IQCJ-SCHIP1


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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Related Drugs for CKAP5-IQCJ-SCHIP1


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

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Related Diseases for CKAP5-IQCJ-SCHIP1


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