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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:STK10-PCBD2

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: STK10-PCBD2
FusionPDB ID: 87436
FusionGDB2.0 ID: 87436
HgeneTgene
Gene symbol

STK10

PCBD2

Gene ID

6793

84105

Gene nameserine/threonine kinase 10pterin-4 alpha-carbinolamine dehydratase 2
SynonymsLOK|PRO2729DCOH2|DCOHM|PHS2
Cytomap

5q35.1

5q31.1

Type of geneprotein-codingprotein-coding
Descriptionserine/threonine-protein kinase 10lymphocyte-oriented kinasepterin-4-alpha-carbinolamine dehydratase 24-alpha-hydroxy-tetrahydropterin dehydratase 26-pyruvoyl-tetrahydropterin synthase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 2DcoH-like protein DCoHmHNF-1-alpha dimerization cofactorPH
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST idsENST00000176763, ENST00000517775, 
ENST00000510013, ENST00000254908, 
ENST00000512783, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score9 X 11 X 6=59412 X 26 X 5=1560
# samples 1322
** MAII scorelog2(13/594*10)=-2.19195130777231
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(22/1560*10)=-2.82597060022495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: STK10 [Title/Abstract] AND PCBD2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)STK10(171583627)-PCBD2(134294729), # samples:1
Anticipated loss of major functional domain due to fusion event.STK10-PCBD2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
STK10-PCBD2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame 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
HgeneSTK10

GO:0046777

protein autophosphorylation

12639966|18239682

TgenePCBD2

GO:0045893

positive regulation of transcription, DNA-templated

11980910


check buttonFusion gene breakpoints across STK10 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across PCBD2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4OVTCGA-13-0760STK10chr5

171583627

-PCBD2chr5

134294729

+


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000176763STK10chr5171583627-ENST00000254908PCBD2chr5134294729+143866526841271
ENST00000176763STK10chr5171583627-ENST00000512783PCBD2chr5134294729+605066526841271

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
ENST00000176763ENST00000254908STK10chr5171583627-PCBD2chr5134294729+0.004718710.9952813
ENST00000176763ENST00000512783STK10chr5171583627-PCBD2chr5134294729+0.0014045760.9985954

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>87436_87436_1_STK10-PCBD2_STK10_chr5_171583627_ENST00000176763_PCBD2_chr5_134294729_ENST00000254908_length(amino acids)=271AA_BP=213
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKAKNKETGALAAAKVIETKSEEE
LEDYIVEIEILATCDHPYIVKLLGAYYHDGKLWAFGFMSRVALQAEKMNHHPEWFNVYNKVQITLTSHDCGELTKKDVKLAKFIEKAAAS

--------------------------------------------------------------

>87436_87436_2_STK10-PCBD2_STK10_chr5_171583627_ENST00000176763_PCBD2_chr5_134294729_ENST00000512783_length(amino acids)=271AA_BP=213
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKAKNKETGALAAAKVIETKSEEE
LEDYIVEIEILATCDHPYIVKLLGAYYHDGKLWAFGFMSRVALQAEKMNHHPEWFNVYNKVQITLTSHDCGELTKKDVKLAKFIEKAAAS

--------------------------------------------------------------

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Fusion Protein Functional Features


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/chr5:171583627/chr5:134294729)
- 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
..
FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSTK10chr5:171583627chr5:134294729ENST00000176763-21942_50107.0969.0Nucleotide bindingATP

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSTK10chr5:171583627chr5:134294729ENST00000176763-219573_947107.0969.0Coiled coilOntology_term=ECO:0000255
HgeneSTK10chr5:171583627chr5:134294729ENST00000176763-219750_884107.0969.0Compositional biasNote=Gln-rich
HgeneSTK10chr5:171583627chr5:134294729ENST00000176763-21936_294107.0969.0DomainProtein kinase
HgeneSTK10chr5:171583627chr5:134294729ENST00000176763-219175_224107.0969.0RegionNote=Activation segment


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
STK10
PCBD2


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to STK10-PCBD2


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to STK10-PCBD2


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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