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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:SCYL1-PACS1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: SCYL1-PACS1
	FusionPDB ID: 79773
	FusionGDB2.0 ID: 79773
		Hgene	Tgene
	Gene symbol	SCYL1	PACS1
	Gene ID	57410	55690
	Gene name	SCY1 like pseudokinase 1	phosphofurin acidic cluster sorting protein 1
	Synonyms	GKLP\|HT019\|NKTL\|NTKL\|P105\|SCAR21\|TAPK\|TEIF\|TRAP	MRD17\|SHMS
	Cytomap	11q13.1	11q13.1-q13.2
	Type of gene	protein-coding	protein-coding
	Description	N-terminal kinase-like proteinSCY1-like protein 1SCY1-like, kinase-like 1coated vesicle-associated kinase of 90 kDalikely ortholog of mouse N-terminal kinase-like proteintelomerase regulation-associated proteintelomerase transcriptional elements-int	phosphofurin acidic cluster sorting protein 1PACS-1cytosolic sorting protein PACS-1
	Modification date	20200313	20200313
	UniProtAcc	.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000270176, ENST00000279270, ENST00000420247, ENST00000524944, ENST00000525364, ENST00000527009, ENST00000533862, ENST00000534462,	ENST00000524815, ENST00000529757, ENST00000320580,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	8 X 8 X 7=448	21 X 18 X 12=4536
	# samples	14	26
	** MAII score	log2(14/448*10)=-1.67807190511264 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(26/4536*10)=-4.12483711191377 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: SCYL1 [Title/Abstract] AND PACS1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	SCYL1(65300276)-PACS1(65977833), # samples:1
Anticipated loss of major functional domain due to fusion event.	SCYL1-PACS1 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. SCYL1-PACS1 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. SCYL1-PACS1 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. SCYL1-PACS1 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	SCYL1	GO:0006890	retrograde vesicle-mediated transport, Golgi to ER	18556652

Fusion gene breakpoints across SCYL1 (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 PACS1 (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	COAD	TCGA-A6-A56B-01A	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+

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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)
ENST00000525364	SCYL1	chr11	65300276	+	ENST00000320580	PACS1	chr11	65977833	+	5222	1307	77	3754	1225
ENST00000270176	SCYL1	chr11	65300276	+	ENST00000320580	PACS1	chr11	65977833	+	5222	1307	77	3754	1225
ENST00000420247	SCYL1	chr11	65300276	+	ENST00000320580	PACS1	chr11	65977833	+	5214	1299	69	3746	1225
ENST00000533862	SCYL1	chr11	65300276	+	ENST00000320580	PACS1	chr11	65977833	+	5187	1272	42	3719	1225
ENST00000279270	SCYL1	chr11	65300276	+	ENST00000320580	PACS1	chr11	65977833	+	5186	1271	41	3718	1225
ENST00000524944	SCYL1	chr11	65300276	+	ENST00000320580	PACS1	chr11	65977833	+	5178	1263	33	3710	1225
ENST00000527009	SCYL1	chr11	65300276	+	ENST00000320580	PACS1	chr11	65977833	+	5195	1280	278	3727	1149

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
ENST00000525364	ENST00000320580	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+	0.000879774	0.9991202
ENST00000270176	ENST00000320580	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+	0.000879774	0.9991202
ENST00000420247	ENST00000320580	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+	0.00086666	0.9991334
ENST00000533862	ENST00000320580	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+	0.00082563	0.9991743
ENST00000279270	ENST00000320580	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+	0.000825352	0.99917465
ENST00000524944	ENST00000320580	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+	0.000822464	0.9991775
ENST00000527009	ENST00000320580	SCYL1	chr11	65300276	+	PACS1	chr11	65977833	+	0.001294258	0.99870574

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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

>79773_79773_1_SCYL1-PACS1_SCYL1_chr11_65300276_ENST00000270176_PACS1_chr11_65977833_ENST00000320580_length(amino acids)=1225AA_BP=410
MWFFARDPVRDFPFELIPEPPEGGLPGPWALHRGRKKATGSPVSIFVYDVKPGAEEQTQVAKAAFKRFKTLRHPNILAYIDGLETEKCLH
VVTEAVTPLGIYLKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGLDYMYSAQGNGGGPPRKGIPE
LEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNGPLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPARFLQNCRAPGGFMSN
RFVETNLFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPLFKVGKFLSAEEYQQKIIPVVVKMFSS
TDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPHVVHGFLDTNPAIREQTVKGSKRILRSNEIVLPASGLVETELQLTFSLQYPHFLKRDAN
KLQIMLQRRKRYKNRTILGYKTLAVGLINMAEVMQHPNEGALVLGLHSNVKDVSVPVAEIKIYSLSSQPIDHEGIKSKLSDRSPDIDNYS
EEEEESFSSEQEGSDDPLHGQDLFYEDEDLRKVKKTRRKLTSTSAITRQPNIKQKFVALLKRFKVSDEVGFGLEHVSREQIREVEEDLDE
LYDSLEMYNPSDSGPEMEETESILSTPKPKLKPFFEGMSQSSSQTEIGSLNSKGSLGKDTTSPMELAALEKIKSTWIKNQDDSLTETDTL
EITDQDMFGDASTSLVVPEKVKTPMKSSKTDLQGSASPSKVEGVHTPRQKRSTPLKERQLSKPLSERTNSSDSERSPDLGHSTQIPRKVV
YDQLNQILVSDAALPENVILVNTTDWQGQYVAELLQDQRKPVVCTCSTVEVQAVLSALLTRIQRYCNCNSSMPRPVKVAAVGGQSYLSSI
LRFFVKSLANKTSDWLGYMRFLIIPLGSHPVAKYLGSVDSKYSSSFLDSGWRDLFSRSEPPVSEQLDVAGRVMQYVNGAATTHQLPVAEA
MLTCRHKFPDEDSYQKFIPFIGVVKVGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSRDATATPPSSPSMSSALAIVGSPNSPYGD
VIGLQVDYWLGHPGERRREGDKRDASSKNTLKSVFRSVQVSRLPHSGEAQLSGTMAMTVVTKEKNKKVPTIFLSKKPREKEVDSKSQVIE

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>79773_79773_2_SCYL1-PACS1_SCYL1_chr11_65300276_ENST00000279270_PACS1_chr11_65977833_ENST00000320580_length(amino acids)=1225AA_BP=410
MWFFARDPVRDFPFELIPEPPEGGLPGPWALHRGRKKATGSPVSIFVYDVKPGAEEQTQVAKAAFKRFKTLRHPNILAYIDGLETEKCLH
VVTEAVTPLGIYLKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGLDYMYSAQGNGGGPPRKGIPE
LEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNGPLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPARFLQNCRAPGGFMSN
RFVETNLFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPLFKVGKFLSAEEYQQKIIPVVVKMFSS
TDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPHVVHGFLDTNPAIREQTVKGSKRILRSNEIVLPASGLVETELQLTFSLQYPHFLKRDAN
KLQIMLQRRKRYKNRTILGYKTLAVGLINMAEVMQHPNEGALVLGLHSNVKDVSVPVAEIKIYSLSSQPIDHEGIKSKLSDRSPDIDNYS
EEEEESFSSEQEGSDDPLHGQDLFYEDEDLRKVKKTRRKLTSTSAITRQPNIKQKFVALLKRFKVSDEVGFGLEHVSREQIREVEEDLDE
LYDSLEMYNPSDSGPEMEETESILSTPKPKLKPFFEGMSQSSSQTEIGSLNSKGSLGKDTTSPMELAALEKIKSTWIKNQDDSLTETDTL
EITDQDMFGDASTSLVVPEKVKTPMKSSKTDLQGSASPSKVEGVHTPRQKRSTPLKERQLSKPLSERTNSSDSERSPDLGHSTQIPRKVV
YDQLNQILVSDAALPENVILVNTTDWQGQYVAELLQDQRKPVVCTCSTVEVQAVLSALLTRIQRYCNCNSSMPRPVKVAAVGGQSYLSSI
LRFFVKSLANKTSDWLGYMRFLIIPLGSHPVAKYLGSVDSKYSSSFLDSGWRDLFSRSEPPVSEQLDVAGRVMQYVNGAATTHQLPVAEA
MLTCRHKFPDEDSYQKFIPFIGVVKVGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSRDATATPPSSPSMSSALAIVGSPNSPYGD
VIGLQVDYWLGHPGERRREGDKRDASSKNTLKSVFRSVQVSRLPHSGEAQLSGTMAMTVVTKEKNKKVPTIFLSKKPREKEVDSKSQVIE

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

>79773_79773_3_SCYL1-PACS1_SCYL1_chr11_65300276_ENST00000420247_PACS1_chr11_65977833_ENST00000320580_length(amino acids)=1225AA_BP=410
MWFFARDPVRDFPFELIPEPPEGGLPGPWALHRGRKKATGSPVSIFVYDVKPGAEEQTQVAKAAFKRFKTLRHPNILAYIDGLETEKCLH
VVTEAVTPLGIYLKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGLDYMYSAQGNGGGPPRKGIPE
LEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNGPLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPARFLQNCRAPGGFMSN
RFVETNLFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPLFKVGKFLSAEEYQQKIIPVVVKMFSS
TDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPHVVHGFLDTNPAIREQTVKGSKRILRSNEIVLPASGLVETELQLTFSLQYPHFLKRDAN
KLQIMLQRRKRYKNRTILGYKTLAVGLINMAEVMQHPNEGALVLGLHSNVKDVSVPVAEIKIYSLSSQPIDHEGIKSKLSDRSPDIDNYS
EEEEESFSSEQEGSDDPLHGQDLFYEDEDLRKVKKTRRKLTSTSAITRQPNIKQKFVALLKRFKVSDEVGFGLEHVSREQIREVEEDLDE
LYDSLEMYNPSDSGPEMEETESILSTPKPKLKPFFEGMSQSSSQTEIGSLNSKGSLGKDTTSPMELAALEKIKSTWIKNQDDSLTETDTL
EITDQDMFGDASTSLVVPEKVKTPMKSSKTDLQGSASPSKVEGVHTPRQKRSTPLKERQLSKPLSERTNSSDSERSPDLGHSTQIPRKVV
YDQLNQILVSDAALPENVILVNTTDWQGQYVAELLQDQRKPVVCTCSTVEVQAVLSALLTRIQRYCNCNSSMPRPVKVAAVGGQSYLSSI
LRFFVKSLANKTSDWLGYMRFLIIPLGSHPVAKYLGSVDSKYSSSFLDSGWRDLFSRSEPPVSEQLDVAGRVMQYVNGAATTHQLPVAEA
MLTCRHKFPDEDSYQKFIPFIGVVKVGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSRDATATPPSSPSMSSALAIVGSPNSPYGD
VIGLQVDYWLGHPGERRREGDKRDASSKNTLKSVFRSVQVSRLPHSGEAQLSGTMAMTVVTKEKNKKVPTIFLSKKPREKEVDSKSQVIE

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

>79773_79773_4_SCYL1-PACS1_SCYL1_chr11_65300276_ENST00000524944_PACS1_chr11_65977833_ENST00000320580_length(amino acids)=1225AA_BP=410
MWFFARDPVRDFPFELIPEPPEGGLPGPWALHRGRKKATGSPVSIFVYDVKPGAEEQTQVAKAAFKRFKTLRHPNILAYIDGLETEKCLH
VVTEAVTPLGIYLKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGLDYMYSAQGNGGGPPRKGIPE
LEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNGPLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPARFLQNCRAPGGFMSN
RFVETNLFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPLFKVGKFLSAEEYQQKIIPVVVKMFSS
TDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPHVVHGFLDTNPAIREQTVKGSKRILRSNEIVLPASGLVETELQLTFSLQYPHFLKRDAN
KLQIMLQRRKRYKNRTILGYKTLAVGLINMAEVMQHPNEGALVLGLHSNVKDVSVPVAEIKIYSLSSQPIDHEGIKSKLSDRSPDIDNYS
EEEEESFSSEQEGSDDPLHGQDLFYEDEDLRKVKKTRRKLTSTSAITRQPNIKQKFVALLKRFKVSDEVGFGLEHVSREQIREVEEDLDE
LYDSLEMYNPSDSGPEMEETESILSTPKPKLKPFFEGMSQSSSQTEIGSLNSKGSLGKDTTSPMELAALEKIKSTWIKNQDDSLTETDTL
EITDQDMFGDASTSLVVPEKVKTPMKSSKTDLQGSASPSKVEGVHTPRQKRSTPLKERQLSKPLSERTNSSDSERSPDLGHSTQIPRKVV
YDQLNQILVSDAALPENVILVNTTDWQGQYVAELLQDQRKPVVCTCSTVEVQAVLSALLTRIQRYCNCNSSMPRPVKVAAVGGQSYLSSI
LRFFVKSLANKTSDWLGYMRFLIIPLGSHPVAKYLGSVDSKYSSSFLDSGWRDLFSRSEPPVSEQLDVAGRVMQYVNGAATTHQLPVAEA
MLTCRHKFPDEDSYQKFIPFIGVVKVGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSRDATATPPSSPSMSSALAIVGSPNSPYGD
VIGLQVDYWLGHPGERRREGDKRDASSKNTLKSVFRSVQVSRLPHSGEAQLSGTMAMTVVTKEKNKKVPTIFLSKKPREKEVDSKSQVIE

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

>79773_79773_5_SCYL1-PACS1_SCYL1_chr11_65300276_ENST00000525364_PACS1_chr11_65977833_ENST00000320580_length(amino acids)=1225AA_BP=410
MWFFARDPVRDFPFELIPEPPEGGLPGPWALHRGRKKATGSPVSIFVYDVKPGAEEQTQVAKAAFKRFKTLRHPNILAYIDGLETEKCLH
VVTEAVTPLGIYLKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGLDYMYSAQGNGGGPPRKGIPE
LEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNGPLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPARFLQNCRAPGGFMSN
RFVETNLFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPLFKVGKFLSAEEYQQKIIPVVVKMFSS
TDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPHVVHGFLDTNPAIREQTVKGSKRILRSNEIVLPASGLVETELQLTFSLQYPHFLKRDAN
KLQIMLQRRKRYKNRTILGYKTLAVGLINMAEVMQHPNEGALVLGLHSNVKDVSVPVAEIKIYSLSSQPIDHEGIKSKLSDRSPDIDNYS
EEEEESFSSEQEGSDDPLHGQDLFYEDEDLRKVKKTRRKLTSTSAITRQPNIKQKFVALLKRFKVSDEVGFGLEHVSREQIREVEEDLDE
LYDSLEMYNPSDSGPEMEETESILSTPKPKLKPFFEGMSQSSSQTEIGSLNSKGSLGKDTTSPMELAALEKIKSTWIKNQDDSLTETDTL
EITDQDMFGDASTSLVVPEKVKTPMKSSKTDLQGSASPSKVEGVHTPRQKRSTPLKERQLSKPLSERTNSSDSERSPDLGHSTQIPRKVV
YDQLNQILVSDAALPENVILVNTTDWQGQYVAELLQDQRKPVVCTCSTVEVQAVLSALLTRIQRYCNCNSSMPRPVKVAAVGGQSYLSSI
LRFFVKSLANKTSDWLGYMRFLIIPLGSHPVAKYLGSVDSKYSSSFLDSGWRDLFSRSEPPVSEQLDVAGRVMQYVNGAATTHQLPVAEA
MLTCRHKFPDEDSYQKFIPFIGVVKVGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSRDATATPPSSPSMSSALAIVGSPNSPYGD
VIGLQVDYWLGHPGERRREGDKRDASSKNTLKSVFRSVQVSRLPHSGEAQLSGTMAMTVVTKEKNKKVPTIFLSKKPREKEVDSKSQVIE

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

>79773_79773_6_SCYL1-PACS1_SCYL1_chr11_65300276_ENST00000527009_PACS1_chr11_65977833_ENST00000320580_length(amino acids)=1149AA_BP=334
MAYIDGLETEKCLHVVTEAVTPLGIYLKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGLDYMYSA
QGNGGGPPRKGIPELEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNGPLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPAR
FLQNCRAPGGFMSNRFVETNLFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPLFKVGKFLSAEEY
QQKIIPVVVKMFSSTDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPHVVHGFLDTNPAIREQTVKGSKRILRSNEIVLPASGLVETELQLT
FSLQYPHFLKRDANKLQIMLQRRKRYKNRTILGYKTLAVGLINMAEVMQHPNEGALVLGLHSNVKDVSVPVAEIKIYSLSSQPIDHEGIK
SKLSDRSPDIDNYSEEEEESFSSEQEGSDDPLHGQDLFYEDEDLRKVKKTRRKLTSTSAITRQPNIKQKFVALLKRFKVSDEVGFGLEHV
SREQIREVEEDLDELYDSLEMYNPSDSGPEMEETESILSTPKPKLKPFFEGMSQSSSQTEIGSLNSKGSLGKDTTSPMELAALEKIKSTW
IKNQDDSLTETDTLEITDQDMFGDASTSLVVPEKVKTPMKSSKTDLQGSASPSKVEGVHTPRQKRSTPLKERQLSKPLSERTNSSDSERS
PDLGHSTQIPRKVVYDQLNQILVSDAALPENVILVNTTDWQGQYVAELLQDQRKPVVCTCSTVEVQAVLSALLTRIQRYCNCNSSMPRPV
KVAAVGGQSYLSSILRFFVKSLANKTSDWLGYMRFLIIPLGSHPVAKYLGSVDSKYSSSFLDSGWRDLFSRSEPPVSEQLDVAGRVMQYV
NGAATTHQLPVAEAMLTCRHKFPDEDSYQKFIPFIGVVKVGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSRDATATPPSSPSMSS
ALAIVGSPNSPYGDVIGLQVDYWLGHPGERRREGDKRDASSKNTLKSVFRSVQVSRLPHSGEAQLSGTMAMTVVTKEKNKKVPTIFLSKK

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

>79773_79773_7_SCYL1-PACS1_SCYL1_chr11_65300276_ENST00000533862_PACS1_chr11_65977833_ENST00000320580_length(amino acids)=1225AA_BP=410
MWFFARDPVRDFPFELIPEPPEGGLPGPWALHRGRKKATGSPVSIFVYDVKPGAEEQTQVAKAAFKRFKTLRHPNILAYIDGLETEKCLH
VVTEAVTPLGIYLKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGLDYMYSAQGNGGGPPRKGIPE
LEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNGPLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPARFLQNCRAPGGFMSN
RFVETNLFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPLFKVGKFLSAEEYQQKIIPVVVKMFSS
TDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPHVVHGFLDTNPAIREQTVKGSKRILRSNEIVLPASGLVETELQLTFSLQYPHFLKRDAN
KLQIMLQRRKRYKNRTILGYKTLAVGLINMAEVMQHPNEGALVLGLHSNVKDVSVPVAEIKIYSLSSQPIDHEGIKSKLSDRSPDIDNYS
EEEEESFSSEQEGSDDPLHGQDLFYEDEDLRKVKKTRRKLTSTSAITRQPNIKQKFVALLKRFKVSDEVGFGLEHVSREQIREVEEDLDE
LYDSLEMYNPSDSGPEMEETESILSTPKPKLKPFFEGMSQSSSQTEIGSLNSKGSLGKDTTSPMELAALEKIKSTWIKNQDDSLTETDTL
EITDQDMFGDASTSLVVPEKVKTPMKSSKTDLQGSASPSKVEGVHTPRQKRSTPLKERQLSKPLSERTNSSDSERSPDLGHSTQIPRKVV
YDQLNQILVSDAALPENVILVNTTDWQGQYVAELLQDQRKPVVCTCSTVEVQAVLSALLTRIQRYCNCNSSMPRPVKVAAVGGQSYLSSI
LRFFVKSLANKTSDWLGYMRFLIIPLGSHPVAKYLGSVDSKYSSSFLDSGWRDLFSRSEPPVSEQLDVAGRVMQYVNGAATTHQLPVAEA
MLTCRHKFPDEDSYQKFIPFIGVVKVGLVEDSPSTAGDGDDSPVVSLTVPSTSPPSSSGLSRDATATPPSSPSMSSALAIVGSPNSPYGD
VIGLQVDYWLGHPGERRREGDKRDASSKNTLKSVFRSVQVSRLPHSGEAQLSGTMAMTVVTKEKNKKVPTIFLSKKPREKEVDSKSQVIE

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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/chr11:65300276/chr11:65977833)
- 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

SCYL1

chr11:65300276

chr11:65977833

ENST00000270176

14_314

410.0

809.0

Domain

Protein kinase

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000279270

14_314

410.0

782.0

Domain

Protein kinase

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000420247

14_314

410.0

792.0

Domain

Protein kinase

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000533862

14_314

410.0

788.0

Domain

Protein kinase

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000270176

350_388

410.0

809.0

Repeat

Note=HEAT 1

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000279270

350_388

410.0

782.0

Repeat

Note=HEAT 1

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000420247

350_388

410.0

792.0

Repeat

Note=HEAT 1

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000533862

350_388

410.0

788.0

Repeat

Note=HEAT 1

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

353_377

148.0

964.0

Coiled coil

Ontology_term=ECO:0000255

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

279_283

148.0

964.0

Compositional bias

Note=Poly-Glu

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

168_175

148.0

964.0

Region

Note=Involved in binding to AP-1

- 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

SCYL1

chr11:65300276

chr11:65977833

ENST00000270176

761_797

410.0

809.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000279270

761_797

410.0

782.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000420247

761_797

410.0

792.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000533862

761_797

410.0

788.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000270176

589_619

410.0

809.0

Compositional bias

Note=Pro-rich

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000279270

589_619

410.0

782.0

Compositional bias

Note=Pro-rich

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000420247

589_619

410.0

792.0

Compositional bias

Note=Pro-rich

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000533862

589_619

410.0

788.0

Compositional bias

Note=Pro-rich

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000270176

389_427

410.0

809.0

Repeat

Note=HEAT 2

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000270176

507_545

410.0

809.0

Repeat

Note=HEAT 3

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000279270

389_427

410.0

782.0

Repeat

Note=HEAT 2

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000279270

507_545

410.0

782.0

Repeat

Note=HEAT 3

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000420247

389_427

410.0

792.0

Repeat

Note=HEAT 2

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000420247

507_545

410.0

792.0

Repeat

Note=HEAT 3

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000533862

389_427

410.0

788.0

Repeat

Note=HEAT 2

Hgene

SCYL1

chr11:65300276

chr11:65977833

ENST00000533862

507_545

410.0

788.0

Repeat

Note=HEAT 3

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

112_115

148.0

964.0

Compositional bias

Note=Poly-Ser

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

35_40

148.0

964.0

Compositional bias

Note=Poly-Gln

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

55_84

148.0

964.0

Compositional bias

Note=Ser-rich

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

5_44

148.0

964.0

Compositional bias

Note=Gly-rich

Tgene

PACS1

chr11:65300276

chr11:65977833

ENST00000320580

62_65

148.0

964.0

Compositional bias

Note=Poly-Ala

Top

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
SCYL1
PACS1

- 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
Hgene	SCYL1	chr11:65300276	chr11:65977833	ENST00000270176	+	9	18	793_808	410.0	809.0	COPB1
Hgene	SCYL1	chr11:65300276	chr11:65977833	ENST00000279270	+	9	17	793_808	410.0	782.0	COPB1
Hgene	SCYL1	chr11:65300276	chr11:65977833	ENST00000420247	+	9	18	793_808	410.0	792.0	COPB1
Hgene	SCYL1	chr11:65300276	chr11:65977833	ENST00000533862	+	9	18	793_808	410.0	788.0	COPB1

Top

Related Drugs to SCYL1-PACS1

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to SCYL1-PACS1

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