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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:KIF2A-IPO11 (FusionGDB2 ID:42679)

Fusion Gene Summary for KIF2A-IPO11

check button Fusion gene summary
Fusion gene informationFusion gene name: KIF2A-IPO11
Fusion gene ID: 42679
HgeneTgene
Gene symbol

KIF2A

IPO11

Gene ID

3796

51194

Gene namekinesin family member 2Aimportin 11
SynonymsCDCBM3|HK2|KIF2RanBP11
Cytomap

5q12.1

5q12.1

Type of geneprotein-codingprotein-coding
Descriptionkinesin-like protein KIF2AKinesin, heavy chain, 2kinesin heavy chain member 2Akinesin-2importin-11Ran binding protein 11imp11ran-binding protein 11
Modification date2020031820200313
UniProtAcc

O00139

Q9UI26

Ensembl transtripts involved in fusion geneENST00000509663, ENST00000381103, 
ENST00000401507, ENST00000407818, 
ENST00000506857, 		ENST00000325324, 
ENST00000409296, ENST00000409534, 
ENST00000512177, 
Fusion gene scores* DoF score4 X 2 X 5=406 X 6 X 7=252
# samples 67
** MAII scorelog2(6/40*10)=0.584962500721156
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(7/252*10)=-1.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: KIF2A [Title/Abstract] AND IPO11 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointKIF2A(61602363)-IPO11(61762958), # samples:2
IPO11(61733244)-KIF2A(61669513), # samples:1
IPO11(61733244)-KIF2A(61669514), # samples:1
Anticipated loss of major functional domain due to fusion event.IPO11-KIF2A seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
KIF2A-IPO11 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
* 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
HgeneKIF2A

GO:0007052

mitotic spindle organization

18411309


check buttonFusion gene breakpoints across KIF2A (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 IPO11 (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
ChimerDB4BRCATCGA-LL-A73YKIF2Achr5

61643994

+IPO11chr5

61733100

+
ChimerDB4LUSCTCGA-22-A5C4KIF2Achr5

61602363

+IPO11chr5

61762958

+
ChimerDB4OVTCGA-24-1843-01AKIF2Achr5

61602363

+IPO11chr5

61762958

+


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Fusion Gene ORF analysis for KIF2A-IPO11

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-3CDSENST00000509663ENST00000325324KIF2Achr5

61602363

+IPO11chr5

61762958

+
3UTR-3CDSENST00000509663ENST00000409296KIF2Achr5

61602363

+IPO11chr5

61762958

+
3UTR-intronENST00000509663ENST00000409534KIF2Achr5

61602363

+IPO11chr5

61762958

+
3UTR-intronENST00000509663ENST00000512177KIF2Achr5

61602363

+IPO11chr5

61762958

+
5CDS-5UTRENST00000381103ENST00000325324KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-5UTRENST00000381103ENST00000409296KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-5UTRENST00000401507ENST00000325324KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-5UTRENST00000401507ENST00000409296KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-5UTRENST00000407818ENST00000325324KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-5UTRENST00000407818ENST00000409296KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-5UTRENST00000506857ENST00000325324KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-5UTRENST00000506857ENST00000409296KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000381103ENST00000409534KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000381103ENST00000512177KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000401507ENST00000409534KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000401507ENST00000409534KIF2Achr5

61602363

+IPO11chr5

61762958

+
5CDS-intronENST00000401507ENST00000512177KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000401507ENST00000512177KIF2Achr5

61602363

+IPO11chr5

61762958

+
5CDS-intronENST00000407818ENST00000409534KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000407818ENST00000409534KIF2Achr5

61602363

+IPO11chr5

61762958

+
5CDS-intronENST00000407818ENST00000512177KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000407818ENST00000512177KIF2Achr5

61602363

+IPO11chr5

61762958

+
5CDS-intronENST00000506857ENST00000409534KIF2Achr5

61643994

+IPO11chr5

61733100

+
5CDS-intronENST00000506857ENST00000512177KIF2Achr5

61643994

+IPO11chr5

61733100

+
5UTR-3CDSENST00000381103ENST00000325324KIF2Achr5

61602363

+IPO11chr5

61762958

+
5UTR-3CDSENST00000381103ENST00000409296KIF2Achr5

61602363

+IPO11chr5

61762958

+
5UTR-intronENST00000381103ENST00000409534KIF2Achr5

61602363

+IPO11chr5

61762958

+
5UTR-intronENST00000381103ENST00000512177KIF2Achr5

61602363

+IPO11chr5

61762958

+
Frame-shiftENST00000401507ENST00000325324KIF2Achr5

61602363

+IPO11chr5

61762958

+
Frame-shiftENST00000401507ENST00000409296KIF2Achr5

61602363

+IPO11chr5

61762958

+
Frame-shiftENST00000407818ENST00000325324KIF2Achr5

61602363

+IPO11chr5

61762958

+
Frame-shiftENST00000407818ENST00000409296KIF2Achr5

61602363

+IPO11chr5

61762958

+
intron-3CDSENST00000506857ENST00000325324KIF2Achr5

61602363

+IPO11chr5

61762958

+
intron-3CDSENST00000506857ENST00000409296KIF2Achr5

61602363

+IPO11chr5

61762958

+
intron-5UTRENST00000509663ENST00000325324KIF2Achr5

61643994

+IPO11chr5

61733100

+
intron-5UTRENST00000509663ENST00000409296KIF2Achr5

61643994

+IPO11chr5

61733100

+
intron-intronENST00000506857ENST00000409534KIF2Achr5

61602363

+IPO11chr5

61762958

+
intron-intronENST00000506857ENST00000512177KIF2Achr5

61602363

+IPO11chr5

61762958

+
intron-intronENST00000509663ENST00000409534KIF2Achr5

61643994

+IPO11chr5

61733100

+
intron-intronENST00000509663ENST00000512177KIF2Achr5

61643994

+IPO11chr5

61733100

+

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 KIF2A-IPO11


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)
KIF2Achr561643994+IPO11chr561733100+2.73E-070.99999976
KIF2Achr561602363+IPO11chr561762957+3.56E-101
KIF2Achr561643994+IPO11chr561733100+2.73E-070.99999976
KIF2Achr561602363+IPO11chr561762957+3.56E-101

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%

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Fusion Protein Features for KIF2A-IPO11


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/:61602363/:61762958)
- 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
KIF2A

O00139

IPO11

Q9UI26

FUNCTION: Plus end-directed microtubule-dependent motor required for normal brain development. May regulate microtubule dynamics during axonal growth. Required for normal progression through mitosis. Required for normal congress of chromosomes at the metaphase plate. Required for normal spindle dynamics during mitosis. Promotes spindle turnover. Implicated in formation of bipolar mitotic spindles. Has microtubule depolymerization activity. {ECO:0000269|PubMed:15843429, ECO:0000269|PubMed:17538014, ECO:0000269|PubMed:18411309}.FUNCTION: Functions in nuclear protein import as nuclear transport receptor. Serves as receptor for nuclear localization signals (NLS) in cargo substrates. Is thought to mediate docking of the importin/substrate complex to the nuclear pore complex (NPC) through binding to nucleoporin and the complex is subsequently translocated through the pore by an energy requiring, Ran-dependent mechanism. At the nucleoplasmic side of the NPC, Ran binds to the importin, the importin/substrate complex dissociates and importin is re-exported from the nucleus to the cytoplasm where GTP hydrolysis releases Ran. The directionality of nuclear import is thought to be conferred by an asymmetric distribution of the GTP- and GDP-bound forms of Ran between the cytoplasm and nucleus (By similarity). Mediates the nuclear import of UBE2E3, and of RPL12 (By similarity). {ECO:0000250, ECO:0000269|PubMed:11032817}.

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 KIF2A-IPO11


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 KIF2A-IPO11


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 KIF2A-IPO11


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 KIF2A-IPO11


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