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	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:PDSS2-DCLK1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: PDSS2-DCLK1
	FusionPDB ID: 64082
	FusionGDB2.0 ID: 64082
		Hgene	Tgene
	Gene symbol	PDSS2	DCLK1
	Gene ID	57107	9201
	Gene name	decaprenyl diphosphate synthase subunit 2	doublecortin like kinase 1
	Synonyms	C6orf210\|COQ10D3\|COQ1B\|DLP1\|bA59I9.3\|hDLP1	CL1\|CLICK1\|DCAMKL1\|DCDC3A\|DCLK
	Cytomap	6q21	13q13.3
	Type of gene	protein-coding	protein-coding
	Description	decaprenyl-diphosphate synthase subunit 2all-trans-decaprenyl-diphosphate synthase subunit 2decaprenyl pyrophosphate synthase subunit 2decaprenyl pyrophosphate synthetase subunit 2prenyl (decaprenyl) diphosphate synthase, subunit 2subunit 2 of decapr	serine/threonine-protein kinase DCLK1doublecortin domain-containing protein 3Adoublecortin-like and CAM kinase-like 1
	Modification date	20200313	20200320
	UniProtAcc	.	O15075
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000369031, ENST00000369037, ENST00000453874,	ENST00000379892, ENST00000379893, ENST00000460982, ENST00000255448, ENST00000360631,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	11 X 8 X 6=528	10 X 9 X 7=630
	# samples	13	10
	** MAII score	log2(13/528*10)=-2.02202630633 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(10/630*10)=-2.65535182861255 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: PDSS2 [Title/Abstract] AND DCLK1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	PDSS2(107595233)-DCLK1(36413313), # samples:1
Anticipated loss of major functional domain due to fusion event.	PDSS2-DCLK1 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. PDSS2-DCLK1 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. PDSS2-DCLK1 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. PDSS2-DCLK1 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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	PDSS2	GO:0006744	ubiquinone biosynthetic process	16262699
Hgene	PDSS2	GO:0008299	isoprenoid biosynthetic process	16262699

Fusion gene breakpoints across PDSS2 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across DCLK1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Gene Sample Information

Fusion gene information from FusionGDB2.0.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	GBM	TCGA-06-5415-01A	PDSS2	chr6	107595233	-	DCLK1	chr13	36413313	-

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Fusion ORF Analysis

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

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)
ENST00000369037	PDSS2	chr6	107595233	-	ENST00000360631	DCLK1	chr13	36413313	-	5290	908	209	2095	628
ENST00000369037	PDSS2	chr6	107595233	-	ENST00000255448	DCLK1	chr13	36413313	-	5364	908	209	2062	617
ENST00000453874	PDSS2	chr6	107595233	-	ENST00000360631	DCLK1	chr13	36413313	-	5283	901	202	2088	628
ENST00000453874	PDSS2	chr6	107595233	-	ENST00000255448	DCLK1	chr13	36413313	-	5357	901	202	2055	617
ENST00000369031	PDSS2	chr6	107595233	-	ENST00000360631	DCLK1	chr13	36413313	-	5291	909	210	2096	628
ENST00000369031	PDSS2	chr6	107595233	-	ENST00000255448	DCLK1	chr13	36413313	-	5365	909	210	2063	617

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000369037	ENST00000360631	PDSS2	chr6	107595233	-	DCLK1	chr13	36413313	-	0.000846452	0.9991535
ENST00000369037	ENST00000255448	PDSS2	chr6	107595233	-	DCLK1	chr13	36413313	-	0.000840297	0.9991597
ENST00000453874	ENST00000360631	PDSS2	chr6	107595233	-	DCLK1	chr13	36413313	-	0.000845543	0.99915445
ENST00000453874	ENST00000255448	PDSS2	chr6	107595233	-	DCLK1	chr13	36413313	-	0.000839582	0.9991604
ENST00000369031	ENST00000360631	PDSS2	chr6	107595233	-	DCLK1	chr13	36413313	-	0.000852667	0.9991473
ENST00000369031	ENST00000255448	PDSS2	chr6	107595233	-	DCLK1	chr13	36413313	-	0.000846498	0.9991535

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Fusion Amino Acid Sequences

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

>64082_64082_1_PDSS2-DCLK1_PDSS2_chr6_107595233_ENST00000369031_DCLK1_chr13_36413313_ENST00000255448_length(amino acids)=617AA_BP=233
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM
SLRCLLSDELSNIAMQVRKLVGTQHPLLTTARGLVHDSWNSLQLRGLVVLLISKAAGPSSVNTSCQNYDMVSGIYSCQRSLAEITELIHI
ALLVHRGIVNLNELQSSDGPLKDMQFGNKIAILSGDFLLANACNGLALLQNTKSSQHGGSSTSLASTKVCSSMDENDGPGEEVSEEGFQI
PATITERYKVGRTIGDGNFAVVKECVERSTAREYALKIIKKSKCRGKEHMIQNEVSILRRVKHPNIVLLIEEMDVPTELYLVMELVKGGD
LFDAITSTNKYTERDASGMLYNLASAIKYLHSLNIVHRDIKPENLLVYEHQDGSKSLKLGDFGLATIVDGPLYTVCGTPTYVAPEIIAET
GYGLKVDIWAAGVITYILLCGFPPFRGSGDDQEVLFDQILMGQVDFPSPYWDNVSDSAKELITMMLLVDVDQRFSAVQVLEHPWVNDDGL

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

>64082_64082_2_PDSS2-DCLK1_PDSS2_chr6_107595233_ENST00000369031_DCLK1_chr13_36413313_ENST00000360631_length(amino acids)=628AA_BP=233
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM
SLRCLLSDELSNIAMQVRKLVGTQHPLLTTARGLVHDSWNSLQLRGLVVLLISKAAGPSSVNTSCQNYDMVSGIYSCQRSLAEITELIHI
ALLVHRGIVNLNELQSSDGPLKDMQFGNKIAILSGDFLLANACNGLALLQNTKSSQHGGSSTSLASTKVCSSMDENDGPGEEVSEEGFQI
PATITERYKVGRTIGDGNFAVVKECVERSTAREYALKIIKKSKCRGKEHMIQNEVSILRRVKHPNIVLLIEEMDVPTELYLVMELVKGGD
LFDAITSTNKYTERDASGMLYNLASAIKYLHSLNIVHRDIKPENLLVYEHQDGSKSLKLGDFGLATIVDGPLYTVCGTPTYVAPEIIAET
GYGLKVDIWAAGVITYILLCGFPPFRGSGDDQEVLFDQILMGQVDFPSPYWDNVSDSAKELITMMLLVDVDQRFSAVQVLEHPWVNDDGL

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

>64082_64082_3_PDSS2-DCLK1_PDSS2_chr6_107595233_ENST00000369037_DCLK1_chr13_36413313_ENST00000255448_length(amino acids)=617AA_BP=233
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM
SLRCLLSDELSNIAMQVRKLVGTQHPLLTTARGLVHDSWNSLQLRGLVVLLISKAAGPSSVNTSCQNYDMVSGIYSCQRSLAEITELIHI
ALLVHRGIVNLNELQSSDGPLKDMQFGNKIAILSGDFLLANACNGLALLQNTKSSQHGGSSTSLASTKVCSSMDENDGPGEEVSEEGFQI
PATITERYKVGRTIGDGNFAVVKECVERSTAREYALKIIKKSKCRGKEHMIQNEVSILRRVKHPNIVLLIEEMDVPTELYLVMELVKGGD
LFDAITSTNKYTERDASGMLYNLASAIKYLHSLNIVHRDIKPENLLVYEHQDGSKSLKLGDFGLATIVDGPLYTVCGTPTYVAPEIIAET
GYGLKVDIWAAGVITYILLCGFPPFRGSGDDQEVLFDQILMGQVDFPSPYWDNVSDSAKELITMMLLVDVDQRFSAVQVLEHPWVNDDGL

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

>64082_64082_4_PDSS2-DCLK1_PDSS2_chr6_107595233_ENST00000369037_DCLK1_chr13_36413313_ENST00000360631_length(amino acids)=628AA_BP=233
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM
SLRCLLSDELSNIAMQVRKLVGTQHPLLTTARGLVHDSWNSLQLRGLVVLLISKAAGPSSVNTSCQNYDMVSGIYSCQRSLAEITELIHI
ALLVHRGIVNLNELQSSDGPLKDMQFGNKIAILSGDFLLANACNGLALLQNTKSSQHGGSSTSLASTKVCSSMDENDGPGEEVSEEGFQI
PATITERYKVGRTIGDGNFAVVKECVERSTAREYALKIIKKSKCRGKEHMIQNEVSILRRVKHPNIVLLIEEMDVPTELYLVMELVKGGD
LFDAITSTNKYTERDASGMLYNLASAIKYLHSLNIVHRDIKPENLLVYEHQDGSKSLKLGDFGLATIVDGPLYTVCGTPTYVAPEIIAET
GYGLKVDIWAAGVITYILLCGFPPFRGSGDDQEVLFDQILMGQVDFPSPYWDNVSDSAKELITMMLLVDVDQRFSAVQVLEHPWVNDDGL

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

>64082_64082_5_PDSS2-DCLK1_PDSS2_chr6_107595233_ENST00000453874_DCLK1_chr13_36413313_ENST00000255448_length(amino acids)=617AA_BP=233
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM
SLRCLLSDELSNIAMQVRKLVGTQHPLLTTARGLVHDSWNSLQLRGLVVLLISKAAGPSSVNTSCQNYDMVSGIYSCQRSLAEITELIHI
ALLVHRGIVNLNELQSSDGPLKDMQFGNKIAILSGDFLLANACNGLALLQNTKSSQHGGSSTSLASTKVCSSMDENDGPGEEVSEEGFQI
PATITERYKVGRTIGDGNFAVVKECVERSTAREYALKIIKKSKCRGKEHMIQNEVSILRRVKHPNIVLLIEEMDVPTELYLVMELVKGGD
LFDAITSTNKYTERDASGMLYNLASAIKYLHSLNIVHRDIKPENLLVYEHQDGSKSLKLGDFGLATIVDGPLYTVCGTPTYVAPEIIAET
GYGLKVDIWAAGVITYILLCGFPPFRGSGDDQEVLFDQILMGQVDFPSPYWDNVSDSAKELITMMLLVDVDQRFSAVQVLEHPWVNDDGL

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

>64082_64082_6_PDSS2-DCLK1_PDSS2_chr6_107595233_ENST00000453874_DCLK1_chr13_36413313_ENST00000360631_length(amino acids)=628AA_BP=233
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM
SLRCLLSDELSNIAMQVRKLVGTQHPLLTTARGLVHDSWNSLQLRGLVVLLISKAAGPSSVNTSCQNYDMVSGIYSCQRSLAEITELIHI
ALLVHRGIVNLNELQSSDGPLKDMQFGNKIAILSGDFLLANACNGLALLQNTKSSQHGGSSTSLASTKVCSSMDENDGPGEEVSEEGFQI
PATITERYKVGRTIGDGNFAVVKECVERSTAREYALKIIKKSKCRGKEHMIQNEVSILRRVKHPNIVLLIEEMDVPTELYLVMELVKGGD
LFDAITSTNKYTERDASGMLYNLASAIKYLHSLNIVHRDIKPENLLVYEHQDGSKSLKLGDFGLATIVDGPLYTVCGTPTYVAPEIIAET
GYGLKVDIWAAGVITYILLCGFPPFRGSGDDQEVLFDQILMGQVDFPSPYWDNVSDSAKELITMMLLVDVDQRFSAVQVLEHPWVNDDGL

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

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Fusion Protein Functional Features

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr6:107595233/chr13:36413313)
- 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.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
.	DCLK1 O15075
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: Probable kinase that may be involved in a calcium-signaling pathway controlling neuronal migration in the developing brain. May also participate in functions of the mature nervous system.

Retention 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.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000255448

698_701

345.0

730.0

Compositional bias

Note=Poly-Arg

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000360631

698_701

345.0

741.0

Compositional bias

Note=Poly-Arg

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000379893

288_340

38.0

434.0

Compositional bias

Note=Pro/Ser-rich

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000379893

698_701

38.0

434.0

Compositional bias

Note=Poly-Arg

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000255448

390_647

345.0

730.0

Domain

Protein kinase

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000360631

390_647

345.0

741.0

Domain

Protein kinase

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000379893

186_269

38.0

434.0

Domain

Doublecortin 2

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000379893

390_647

38.0

434.0

Domain

Protein kinase

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000379893

57_143

38.0

434.0

Domain

Doublecortin 1

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000255448

396_404

345.0

730.0

Nucleotide binding

ATP

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000360631

396_404

345.0

741.0

Nucleotide binding

ATP

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000379893

396_404

38.0

434.0

Nucleotide binding

ATP

- 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

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000255448

288_340

345.0

730.0

Compositional bias

Note=Pro/Ser-rich

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000360631

288_340

345.0

741.0

Compositional bias

Note=Pro/Ser-rich

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000255448

186_269

345.0

730.0

Domain

Doublecortin 2

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000255448

57_143

345.0

730.0

Domain

Doublecortin 1

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000360631

186_269

345.0

741.0

Domain

Doublecortin 2

Tgene

DCLK1

chr6:107595233

chr13:36413313

ENST00000360631

57_143

345.0

741.0

Domain

Doublecortin 1

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Fusion Protein-Protein Interaction

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)

Gene

PPI interactors

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
PDSS2
DCLK1

- Retained interactions in fusion protein (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost interactions due to fusion (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs to PDSS2-DCLK1

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

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to PDSS2-DCLK1

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

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source