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![]() | Fusion Gene Summary |
![]() | Fusion Gene ORF analysis |
![]() | Fusion Genomic Features |
![]() | Fusion Protein Features |
![]() | Fusion Gene Sequence |
![]() | Fusion Gene PPI analysis |
![]() | Related Drugs |
![]() | Related Diseases |
Fusion gene:CLK3-CTR9 (FusionGDB2 ID:HG1198TG9646) |
Fusion Gene Summary for CLK3-CTR9 |
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Fusion gene information | Fusion gene name: CLK3-CTR9 | Fusion gene ID: hg1198tg9646 | Hgene | Tgene | Gene symbol | CLK3 | CTR9 | Gene ID | 1198 | 9646 |
Gene name | CDC like kinase 3 | CTR9 homolog, Paf1/RNA polymerase II complex component | |
Synonyms | PHCLK3|PHCLK3/152 | SH2BP1|TSBP|p150|p150TSP | |
Cytomap | ('CLK3')('CTR9') 15q24.1 | 11p15.4 | |
Type of gene | protein-coding | protein-coding | |
Description | dual specificity protein kinase CLK3 | RNA polymerase-associated protein CTR9 homologCtr9, Paf1/RNA polymerase II complex component, homologSH2 domain binding protein 1 (tetratricopeptide repeat containing)TPR-containing, SH2-binding phosphoprotein | |
Modification date | 20200313 | 20200313 | |
UniProtAcc | P49761 | . | |
Ensembl transtripts involved in fusion gene | ENST00000564353, ENST00000345005, ENST00000348245, ENST00000352989, ENST00000395066, | ||
Fusion gene scores | * DoF score | 6 X 6 X 4=144 | 6 X 6 X 4=144 |
# samples | 6 | 6 | |
** MAII score | log2(6/144*10)=-1.26303440583379 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(6/144*10)=-1.26303440583379 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context | PubMed: CLK3 [Title/Abstract] AND CTR9 [Title/Abstract] AND fusion [Title/Abstract] | ||
Most frequent breakpoint | CLK3(74900767)-CTR9(10777224), # 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) |
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Partner | Gene | GO ID | GO term | PubMed ID |
Hgene | CLK3 | GO:0006468 | protein phosphorylation | 9637771 |
Hgene | CLK3 | GO:0043484 | regulation of RNA splicing | 9637771 |
Tgene | CTR9 | GO:0010390 | histone monoubiquitination | 16307923 |
Tgene | CTR9 | GO:0019827 | stem cell population maintenance | 19345177 |
Tgene | CTR9 | GO:0032968 | positive regulation of transcription elongation from RNA polymerase II promoter | 20178742 |
Tgene | CTR9 | GO:0033523 | histone H2B ubiquitination | 16307923 |
Tgene | CTR9 | GO:0045638 | negative regulation of myeloid cell differentiation | 20541477 |
Tgene | CTR9 | GO:0045944 | positive regulation of transcription by RNA polymerase II | 20178742 |
![]() * 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. |
Source | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
ChimerDB4 | ESCA | TCGA-LN-A4A8 | CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + |
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Fusion Gene ORF analysis for CLK3-CTR9 |
![]() * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
3UTR-3CDS | ENST00000564353 | ENST00000361367 | CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + |
5UTR-3CDS | ENST00000345005 | ENST00000361367 | CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + |
intron-3CDS | ENST00000348245 | ENST00000361367 | CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + |
intron-3CDS | ENST00000352989 | ENST00000361367 | CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + |
intron-3CDS | ENST00000395066 | ENST00000361367 | CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + |
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Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
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Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
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Fusion Genomic Features for CLK3-CTR9 |
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Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | 1-p | p (fusion gene breakpoint) |
CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + | 0.99924976 | 0.000750275 |
CLK3 | chr15 | 74900767 | + | CTR9 | chr11 | 10777224 | + | 0.99924976 | 0.000750275 |
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Fusion Protein Features for CLK3-CTR9 |
![]() Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:74900767/:10777224) - 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. |
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Hgene | Tgene |
CLK3 | . |
FUNCTION: Dual specificity kinase acting on both serine/threonine and tyrosine-containing substrates. Phosphorylates serine- and arginine-rich (SR) proteins of the spliceosomal complex. May be a constituent of a network of regulatory mechanisms that enable SR proteins to control RNA splicing and can cause redistribution of SR proteins from speckles to a diffuse nucleoplasmic distribution. Phosphorylates SRSF1 and SRSF3. Regulates the alternative splicing of tissue factor (F3) pre-mRNA in endothelial cells. {ECO:0000269|PubMed:19168442, ECO:0000269|PubMed:9637771}. | 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}. |
![]() * 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. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
- In-frame and not-retained protein feature among the 13 regional features. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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Fusion Gene Sequence for CLK3-CTR9 |
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Fusion Gene PPI Analysis for CLK3-CTR9 |
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Hgene | Hgene's interactors | Tgene | Tgene's interactors |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Related Drugs for CLK3-CTR9 |
![]() (DrugBank Version 5.1.8 2021-05-08) |
Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Hgene | CLK3 | P49761 | DB12010 | Fostamatinib | Inhibitor | Small molecule | Approved|Investigational |
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Related Diseases for CLK3-CTR9 |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |