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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:CSK-TMEM266 (FusionGDB2 ID:HG1445TG123591)

Fusion Gene Summary for CSK-TMEM266

check button Fusion gene summary
Fusion gene informationFusion gene name: CSK-TMEM266
Fusion gene ID: hg1445tg123591
HgeneTgene
Gene symbol

CSK

TMEM266

Gene ID

1445

123591

Gene nameC-terminal Src kinasetransmembrane protein 266
Synonyms-C15orf27|HVRP1|HsHVRP1|hTMEM266
Cytomap('CSK','CSK')('C15orf27','TMEM266')

15q24.1

15q24.2

Type of geneprotein-codingprotein-coding
Descriptiontyrosine-protein kinase CSKC-Src kinaseCSK, non-receptor tyrosine kinasec-src tyrosine kinaseprotein-tyrosine kinase CYLtransmembrane protein 266Hv1 related protein 1transmembrane protein C15orf27
Modification date2020032720200313
UniProtAcc

P41240

.
Ensembl transtripts involved in fusion geneENST00000220003, ENST00000439220, 
ENST00000309470, ENST00000567571, 
Fusion gene scores* DoF score2 X 2 X 2=82 X 2 X 2=8
# samples 33
** MAII scorelog2(3/8*10)=1.90689059560852log2(3/8*10)=1.90689059560852
Context

PubMed: CSK [Title/Abstract] AND TMEM266 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCSK(75075061)-C15orf27(76426509), # samples:2
CSK(75075061)-TMEM266(76426509), # samples:1
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
HgeneCSK

GO:0042997

negative regulation of Golgi to plasma membrane protein transport

20605918



check button Fusion gene information
* 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
ChimerDB4SKCMTCGA-EE-A2MR-06ACSKchr15

75075061

-C15orf27chr15

76426509

+
ChimerDB4SKCMTCGA-EE-A2MR-06ACSKchr15

75075061

+C15orf27chr15

76426509

+
ChimerDB4SKCMTCGA-EE-A2MR-06ACSKchr15

75075061

+TMEM266chr15

76426509

+
ChimerDB4SKCMTCGA-EE-A2MRCSKchr15

75075061

+C15orf27chr15

76426508

+


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Fusion Gene ORF analysis for CSK-TMEM266

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
5UTR-5UTRENST00000220003ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426509

+
5UTR-5UTRENST00000220003ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426508

+
5UTR-5UTRENST00000439220ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426509

+
5UTR-5UTRENST00000439220ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426508

+
5UTR-intronENST00000220003ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426509

+
5UTR-intronENST00000220003ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426508

+
5UTR-intronENST00000439220ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426509

+
5UTR-intronENST00000439220ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426508

+
intron-5UTRENST00000309470ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426509

+
intron-5UTRENST00000309470ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426508

+
intron-5UTRENST00000567571ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426509

+
intron-5UTRENST00000567571ENST00000388942CSKchr15

75075061

+C15orf27chr15

76426508

+
intron-intronENST00000309470ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426509

+
intron-intronENST00000309470ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426508

+
intron-intronENST00000567571ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426509

+
intron-intronENST00000567571ENST00000559079CSKchr15

75075061

+C15orf27chr15

76426508

+

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 CSK-TMEM266


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)
CSKchr1575075061+C15orf27chr1576426508+0.0010450650.9989549
CSKchr1575075061+C15orf27chr1576426508+0.0010450650.9989549
CSKchr1575075061+C15orf27chr1576426508+0.0010450650.9989549
CSKchr1575075061+C15orf27chr1576426508+0.0010450650.9989549


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 CSK-TMEM266


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/:75075061/:76426509)
- 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
CSK

P41240

.
FUNCTION: Non-receptor tyrosine-protein kinase that plays an important role in the regulation of cell growth, differentiation, migration and immune response. Phosphorylates tyrosine residues located in the C-terminal tails of Src-family kinases (SFKs) including LCK, SRC, HCK, FYN, LYN, CSK or YES1. Upon tail phosphorylation, Src-family members engage in intramolecular interactions between the phosphotyrosine tail and the SH2 domain that result in an inactive conformation. To inhibit SFKs, CSK is recruited to the plasma membrane via binding to transmembrane proteins or adapter proteins located near the plasma membrane. Suppresses signaling by various surface receptors, including T-cell receptor (TCR) and B-cell receptor (BCR) by phosphorylating and maintaining inactive several positive effectors such as FYN or LCK. {ECO:0000269|PubMed:1639064, ECO:0000269|PubMed:9281320}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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 CSK-TMEM266


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 CSK-TMEM266


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 CSK-TMEM266


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneCSKP41240DB01254DasatinibSmall moleculeApproved|Investigational
HgeneCSKP41240DB12010FostamatinibInhibitorSmall moleculeApproved|Investigational

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Related Diseases for CSK-TMEM266


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCSKC0020429Hyperalgesia1CTD_human
HgeneCSKC0024141Lupus Erythematosus, Systemic1CTD_human
HgeneCSKC0242380Libman-Sacks Disease1CTD_human
HgeneCSKC0458247Allodynia1CTD_human
HgeneCSKC0751211Hyperalgesia, Primary1CTD_human
HgeneCSKC0751212Hyperalgesia, Secondary1CTD_human
HgeneCSKC0751213Tactile Allodynia1CTD_human
HgeneCSKC0751214Hyperalgesia, Thermal1CTD_human
HgeneCSKC2936719Mechanical Allodynia1CTD_human