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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:STK10-SNX2

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: STK10-SNX2
	FusionPDB ID: 87440
	FusionGDB2.0 ID: 87440
		Hgene	Tgene
	Gene symbol	STK10	SNX2
	Gene ID	6793	6643
	Gene name	serine/threonine kinase 10	sorting nexin 2
	Synonyms	LOK\|PRO2729	TRG-9
	Cytomap	5q35.1	5q23.2
	Type of gene	protein-coding	protein-coding
	Description	serine/threonine-protein kinase 10lymphocyte-oriented kinase	sorting nexin-2CTB-36H16.2transformation-related gene 9 protein
	Modification date	20200313	20200313
	UniProtAcc	.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000176763, ENST00000517775,	ENST00000510372, ENST00000379516, ENST00000514949,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	9 X 11 X 6=594	5 X 6 X 6=180
	# samples	13	7
	** MAII score	log2(13/594*10)=-2.19195130777231 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(7/180*10)=-1.36257007938471 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 SNX2 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	STK10(171614891)-SNX2(122161745), # samples:3
Anticipated loss of major functional domain due to fusion event.	STK10-SNX2 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-SNX2 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-SNX2 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. STK10-SNX2 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	STK10	GO:0046777	protein autophosphorylation	12639966\|18239682
Tgene	SNX2	GO:0072673	lamellipodium morphogenesis	20604901

Fusion 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.

Fusion gene breakpoints across SNX2 (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	BRCA	TCGA-BH-A0HL-01A	STK10	chr5	171614891	-	SNX2	chr5	122161745	+
ChimerDB4	BRCA	TCGA-BH-A0HL	STK10	chr5	171614890	-	SNX2	chr5	122161744	+
ChimerDB4	LAML	TCGA-AB-2875-03A	STK10	chr5	171509329	-	SNX2	chr5	122153043	+

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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)
ENST00000176763	STK10	chr5	171614891	-	ENST00000379516	SNX2	chr5	122161745	+	1308	500	26	847	273
ENST00000176763	STK10	chr5	171614891	-	ENST00000514949	SNX2	chr5	122161745	+	955	500	26	847	273
ENST00000176763	STK10	chr5	171509329	-	ENST00000379516	SNX2	chr5	122153043	+	3372	2333	26	2911	961
ENST00000176763	STK10	chr5	171509329	-	ENST00000514949	SNX2	chr5	122153043	+	3019	2333	26	2911	961
ENST00000176763	STK10	chr5	171614890	-	ENST00000379516	SNX2	chr5	122161744	+	1308	500	26	847	273
ENST00000176763	STK10	chr5	171614890	-	ENST00000514949	SNX2	chr5	122161744	+	955	500	26	847	273

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
ENST00000176763	ENST00000379516	STK10	chr5	171614891	-	SNX2	chr5	122161745	+	0.005169043	0.994831
ENST00000176763	ENST00000514949	STK10	chr5	171614891	-	SNX2	chr5	122161745	+	0.008413125	0.9915869
ENST00000176763	ENST00000379516	STK10	chr5	171509329	-	SNX2	chr5	122153043	+	0.003822284	0.9961777
ENST00000176763	ENST00000514949	STK10	chr5	171509329	-	SNX2	chr5	122153043	+	0.009058264	0.9909417
ENST00000176763	ENST00000379516	STK10	chr5	171614890	-	SNX2	chr5	122161744	+	0.005169043	0.994831
ENST00000176763	ENST00000514949	STK10	chr5	171614890	-	SNX2	chr5	122161744	+	0.008413125	0.9915869

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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

>87440_87440_1_STK10-SNX2_STK10_chr5_171509329_ENST00000176763_SNX2_chr5_122153043_ENST00000379516_length(amino acids)=961AA_BP=
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKAKNKETGALAAAKVIETKSEEE
LEDYIVEIEILATCDHPYIVKLLGAYYHDGKLWIMIEFCPGGAVDAIMLELDRGLTEPQIQVVCRQMLEALNFLHSKRIIHRDLKAGNVL
MTLEGDIRLADFGVSAKNLKTLQKRDSFIGTPYWMAPEVVMCETMKDTPYDYKADIWSLGITLIEMAQIEPPHHELNPMRVLLKIAKSDP
PTLLTPSKWSVEFRDFLKIALDKNPETRPSAAQLLEHPFVSSITSNKALRELVAEAKAEVMEEIEDGRDEGEEEDAVDAASTLENHTQNS
SEVSPPSLNADKPLEESPSTPLAPSQSQDSVNEPCSQPSGDRSLQTTSPPVVAPGNENGLAVPVPLRKSRPVSMDARIQVAQEKQVAEQG
GDLSPAANRSQKASQSRPNSSALETLGGEKLANGSLEPPAQAAPGPSKRDSDCSSLCTSESMDYGTNLSTDLSLNKEMGSLSIKDPKLYK
KTLKRTRKFVVDGVEVSITTSKIISEDEKKDEEMRFLRRQELRELRLLQKEEHRNQTQLSNKHELQLEQMHKRFEQEINAKKKFFDTELE
NLERQQKQQVEKMEQDHAVRRREEARRIRLEQDRDYTRFQEQLKLMKKEEALVCHRKELSANTAAFAKSAAMLGNSEDHTALSRALSQLA
EVEEKIDQLHQEQAFADFYMFSELLSDYIRLIAAVKGVFDHRMKCWQKWEDAQITLLKKREAEAKMMVANKPDKIQQAKNEIREWEAKVQ

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

>87440_87440_2_STK10-SNX2_STK10_chr5_171509329_ENST00000176763_SNX2_chr5_122153043_ENST00000514949_length(amino acids)=961AA_BP=
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKAKNKETGALAAAKVIETKSEEE
LEDYIVEIEILATCDHPYIVKLLGAYYHDGKLWIMIEFCPGGAVDAIMLELDRGLTEPQIQVVCRQMLEALNFLHSKRIIHRDLKAGNVL
MTLEGDIRLADFGVSAKNLKTLQKRDSFIGTPYWMAPEVVMCETMKDTPYDYKADIWSLGITLIEMAQIEPPHHELNPMRVLLKIAKSDP
PTLLTPSKWSVEFRDFLKIALDKNPETRPSAAQLLEHPFVSSITSNKALRELVAEAKAEVMEEIEDGRDEGEEEDAVDAASTLENHTQNS
SEVSPPSLNADKPLEESPSTPLAPSQSQDSVNEPCSQPSGDRSLQTTSPPVVAPGNENGLAVPVPLRKSRPVSMDARIQVAQEKQVAEQG
GDLSPAANRSQKASQSRPNSSALETLGGEKLANGSLEPPAQAAPGPSKRDSDCSSLCTSESMDYGTNLSTDLSLNKEMGSLSIKDPKLYK
KTLKRTRKFVVDGVEVSITTSKIISEDEKKDEEMRFLRRQELRELRLLQKEEHRNQTQLSNKHELQLEQMHKRFEQEINAKKKFFDTELE
NLERQQKQQVEKMEQDHAVRRREEARRIRLEQDRDYTRFQEQLKLMKKEEALVCHRKELSANTAAFAKSAAMLGNSEDHTALSRALSQLA
EVEEKIDQLHQEQAFADFYMFSELLSDYIRLIAAVKGVFDHRMKCWQKWEDAQITLLKKREAEAKMMVANKPDKIQQAKNEIREWEAKVQ

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

>87440_87440_3_STK10-SNX2_STK10_chr5_171614890_ENST00000176763_SNX2_chr5_122161744_ENST00000379516_length(amino acids)=273AA_BP=158
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKGVFDHRMKCWQKWEDAQITLLK
KREAEAKMMVANKPDKIQQAKNEIREWEAKVQQGERDFEQISKTIRKEVGRFEKERVKDFKTVIIKYLESLVQTQQQLIKYWEAFLPEAK

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

>87440_87440_4_STK10-SNX2_STK10_chr5_171614890_ENST00000176763_SNX2_chr5_122161744_ENST00000514949_length(amino acids)=273AA_BP=158
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKGVFDHRMKCWQKWEDAQITLLK
KREAEAKMMVANKPDKIQQAKNEIREWEAKVQQGERDFEQISKTIRKEVGRFEKERVKDFKTVIIKYLESLVQTQQQLIKYWEAFLPEAK

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

>87440_87440_5_STK10-SNX2_STK10_chr5_171614891_ENST00000176763_SNX2_chr5_122161745_ENST00000379516_length(amino acids)=273AA_BP=158
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKGVFDHRMKCWQKWEDAQITLLK
KREAEAKMMVANKPDKIQQAKNEIREWEAKVQQGERDFEQISKTIRKEVGRFEKERVKDFKTVIIKYLESLVQTQQQLIKYWEAFLPEAK

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

>87440_87440_6_STK10-SNX2_STK10_chr5_171614891_ENST00000176763_SNX2_chr5_122161745_ENST00000514949_length(amino acids)=273AA_BP=158
MERVRGSRRQGWAGQELRGRHKGGGPGDLTGRGRGRARRRLRGSGCSRRGAAQGTLDRGRAAGKGGSGENPERRGVLQLLLLLLAAAEAT
ARARARARAGATAPPAMAFANFRRILRLSTFEKRKSREYEHVRRDLDPNEVWEIVGELGDGAFGKVYKGVFDHRMKCWQKWEDAQITLLK
KREAEAKMMVANKPDKIQQAKNEIREWEAKVQQGERDFEQISKTIRKEVGRFEKERVKDFKTVIIKYLESLVQTQQQLIKYWEAFLPEAK

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

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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/chr5:171614891/chr5:122161745)
- 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
.	.
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.

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

Hgene

STK10

chr5:171509329

chr5:122153043

ENST00000176763

36_294

663.0

969.0

Domain

Protein kinase

Hgene

STK10

chr5:171509329

chr5:122153043

ENST00000176763

42_50

663.0

969.0

Nucleotide binding

ATP

Hgene

STK10

chr5:171614890

chr5:122161744

ENST00000176763

42_50

52.0

969.0

Nucleotide binding

ATP

Hgene

STK10

chr5:171614891

chr5:122161745

ENST00000176763

42_50

52.0

969.0

Nucleotide binding

ATP

Hgene

STK10

chr5:171509329

chr5:122153043

ENST00000176763

175_224

663.0

969.0

Region

Note=Activation segment

Tgene

SNX2

chr5:171509329

chr5:122153043

ENST00000379516

140_269

520.0

Domain

Tgene

SNX2

chr5:171509329

chr5:122153043

ENST00000379516

299_519

520.0

Domain

BAR

Tgene

SNX2

chr5:171509329

chr5:122153043

ENST00000379516

278_295

520.0

Region

Membrane-binding amphipathic helix

- 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

Hgene

STK10

chr5:171509329

chr5:122153043

ENST00000176763

573_947

663.0

969.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

STK10

chr5:171614890

chr5:122161744

ENST00000176763

573_947

52.0

969.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

STK10

chr5:171614891

chr5:122161745

ENST00000176763

573_947

52.0

969.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

STK10

chr5:171509329

chr5:122153043

ENST00000176763

750_884

663.0

969.0

Compositional bias

Note=Gln-rich

Hgene

STK10

chr5:171614890

chr5:122161744

ENST00000176763

750_884

52.0

969.0

Compositional bias

Note=Gln-rich

Hgene

STK10

chr5:171614891

chr5:122161745

ENST00000176763

750_884

52.0

969.0

Compositional bias

Note=Gln-rich

Hgene

STK10

chr5:171614890

chr5:122161744

ENST00000176763

36_294

52.0

969.0

Domain

Protein kinase

Hgene

STK10

chr5:171614891

chr5:122161745

ENST00000176763

36_294

52.0

969.0

Domain

Protein kinase

Hgene

STK10

chr5:171614890

chr5:122161744

ENST00000176763

175_224

52.0

969.0

Region

Note=Activation segment

Hgene

STK10

chr5:171614891

chr5:122161745

ENST00000176763

175_224

52.0

969.0

Region

Note=Activation segment

Tgene

SNX2

chr5:171614890

chr5:122161744

ENST00000379516

140_269

404.0

520.0

Domain

Tgene

SNX2

chr5:171614890

chr5:122161744

ENST00000379516

299_519

404.0

520.0

Domain

BAR

Tgene

SNX2

chr5:171614891

chr5:122161745

ENST00000379516

140_269

404.0

520.0

Domain

Tgene

SNX2

chr5:171614891

chr5:122161745

ENST00000379516

299_519

404.0

520.0

Domain

BAR

Tgene

SNX2

chr5:171614890

chr5:122161744

ENST00000379516

278_295

404.0

520.0

Region

Membrane-binding amphipathic helix

Tgene

SNX2

chr5:171614891

chr5:122161745

ENST00000379516

278_295

404.0

520.0

Region

Membrane-binding amphipathic helix

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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
STK10
SNX2

- 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
Tgene	SNX2	chr5:171614890	chr5:122161744	ENST00000379516		10	15	260_519	404.0	520.0	RhoG
Tgene	SNX2	chr5:171614891	chr5:122161745	ENST00000379516		10	15	260_519	404.0	520.0	RhoG

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Related Drugs to STK10-SNX2

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 STK10-SNX2

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