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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:CLIP1-FKBP5 (FusionGDB2 ID:HG6249TG2289)

Fusion Gene Summary for CLIP1-FKBP5

check button Fusion gene summary
Fusion gene informationFusion gene name: CLIP1-FKBP5
Fusion gene ID: hg6249tg2289
HgeneTgene
Gene symbol

CLIP1

FKBP5

Gene ID

6249

2289

Gene nameCAP-Gly domain containing linker protein 1FKBP prolyl isomerase 5
SynonymsCLIP|CLIP-170|CLIP170|CYLN1|RSNAIG6|FKBP51|FKBP54|P54|PPIase|Ptg-10
Cytomap('CLIP1')('FKBP5')

12q24.31

6p21.31

Type of geneprotein-codingprotein-coding
DescriptionCAP-Gly domain-containing linker protein 1cytoplasmic linker protein 1cytoplasmic linker protein 170 alpha-2cytoplasmic linker protein CLIP-170restin (Reed-Steinberg cell-expressed intermediate filament-associated protein)peptidyl-prolyl cis-trans isomerase FKBP551 kDa FK506-binding protein51 kDa FKBP54 kDa progesterone receptor-associated immunophilinFF1 antigenFK506 binding protein 5FKBP-51HSP90-binding immunophilinPPIase FKBP5T-cell FK506-binding proteinandrog
Modification date2020031320200329
UniProtAcc

P30622

.
Ensembl transtripts involved in fusion geneENST00000358808, ENST00000361654, 
ENST00000537178, ENST00000302528, 
ENST00000536634, ENST00000540338, 
ENST00000540539, ENST00000545889, 
Fusion gene scores* DoF score22 X 22 X 13=629213 X 10 X 9=1170
# samples 3115
** MAII scorelog2(31/6292*10)=-4.34317855014145
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(15/1170*10)=-2.96347412397489
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CLIP1 [Title/Abstract] AND FKBP5 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCLIP1(122907068)-FKBP5(35688325), # 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
TgeneFKBP5

GO:0061077

chaperone-mediated protein folding

11350175



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
ChimerDB4SARCTCGA-PC-A5DN-01ACLIP1chr12

122907068

-FKBP5chr6

35688325

-


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Fusion Gene ORF analysis for CLIP1-FKBP5

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-5UTRENST00000358808ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-5UTRENST00000361654ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-5UTRENST00000537178ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000358808ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000358808ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000358808ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000358808ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000361654ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000361654ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000361654ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000361654ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000537178ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000537178ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000537178ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
5UTR-intronENST00000537178ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-5UTRENST00000302528ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-5UTRENST00000536634ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-5UTRENST00000540338ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-5UTRENST00000540539ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-5UTRENST00000545889ENST00000536438CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000302528ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000302528ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000302528ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000302528ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000536634ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000536634ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000536634ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000536634ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540338ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540338ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540338ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540338ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540539ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540539ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540539ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000540539ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000545889ENST00000357266CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000545889ENST00000539068CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000545889ENST00000540787CLIP1chr12

122907068

-FKBP5chr6

35688325

-
intron-intronENST00000545889ENST00000542713CLIP1chr12

122907068

-FKBP5chr6

35688325

-

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 CLIP1-FKBP5


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)


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Fusion Protein Features for CLIP1-FKBP5


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/:122907068/:35688325)
- 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
CLIP1

P30622

.
FUNCTION: Binds to the plus end of microtubules and regulates the dynamics of the microtubule cytoskeleton. Promotes microtubule growth and microtubule bundling. Links cytoplasmic vesicles to microtubules and thereby plays an important role in intracellular vesicle trafficking. Plays a role macropinocytosis and endosome trafficking. {ECO:0000269|PubMed:12433698, ECO:0000269|PubMed:17563362, ECO:0000269|PubMed:17889670}.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 CLIP1-FKBP5


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 CLIP1-FKBP5


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 CLIP1-FKBP5


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 CLIP1-FKBP5


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC0005586Bipolar Disorder5PSYGENET
TgeneC0011570Mental Depression5PSYGENET
TgeneC0011581Depressive disorder5PSYGENET
TgeneC0041696Unipolar Depression5PSYGENET
TgeneC0525045Mood Disorders5PSYGENET
TgeneC1269683Major Depressive Disorder5CTD_human;PSYGENET
TgeneC0001973Alcoholic Intoxication, Chronic1PSYGENET
TgeneC0003873Rheumatoid Arthritis1CTD_human
TgeneC0014175Endometriosis1CTD_human
TgeneC0021290Neonatal disorder1CTD_human
TgeneC0033975Psychotic Disorders1PSYGENET
TgeneC0269102Endometrioma1CTD_human
TgeneC0349204Nonorganic psychosis1PSYGENET
TgeneC0525041Neurobehavioral Manifestations1CTD_human
TgeneC2362914clinical depression1PSYGENET