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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:PGAP3-PTPN12

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: PGAP3-PTPN12
	FusionPDB ID: 64560
	FusionGDB2.0 ID: 64560
		Hgene	Tgene
	Gene symbol	PGAP3	PTPN12
	Gene ID	93210	5782
	Gene name	post-GPI attachment to proteins phospholipase 3	protein tyrosine phosphatase non-receptor type 12
	Synonyms	AGLA546\|CAB2\|PERLD1\|PP1498\|hCOS16	PTP-PEST\|PTPG1
	Cytomap	17q12	7q11.23
	Type of gene	protein-coding	protein-coding
	Description	post-GPI attachment to proteins factor 3COS16 homologgene coamplified with ERBB2 proteinper1-like domain containing 1post-GPI attachment to proteins 3	tyrosine-protein phosphatase non-receptor type 12protein-tyrosine phosphatase G1
	Modification date	20200327	20200329
	UniProtAcc	.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000300658, ENST00000378011, ENST00000429199, ENST00000579146,	ENST00000248594, ENST00000415482, ENST00000435495,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	18 X 8 X 9=1296	14 X 11 X 7=1078
	# samples	27	14
	** MAII score	log2(27/1296*10)=-2.26303440583379 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(14/1078*10)=-2.94485844580754 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: PGAP3 [Title/Abstract] AND PTPN12 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	PGAP3(37844087)-PTPN12(77227159), # samples:2
Anticipated loss of major functional domain due to fusion event.	PGAP3-PTPN12 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. PGAP3-PTPN12 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. PGAP3-PTPN12 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. PGAP3-PTPN12 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
Tgene	PTPN12	GO:0006470	protein dephosphorylation	27134172
Tgene	PTPN12	GO:0035335	peptidyl-tyrosine dephosphorylation	27134172

Fusion gene breakpoints across PGAP3 (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 PTPN12 (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	OV	TCGA-25-1320-01A	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+

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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)
ENST00000579146	PGAP3	chr17	37844087	-	ENST00000248594	PTPN12	chr7	77227159	+	2866	224	296	2074	592
ENST00000579146	PGAP3	chr17	37844087	-	ENST00000415482	PTPN12	chr7	77227159	+	2075	224	296	2074	593
ENST00000579146	PGAP3	chr17	37844087	-	ENST00000435495	PTPN12	chr7	77227159	+	2415	224	296	2074	592
ENST00000300658	PGAP3	chr17	37844087	-	ENST00000248594	PTPN12	chr7	77227159	+	2916	274	346	2124	592
ENST00000300658	PGAP3	chr17	37844087	-	ENST00000415482	PTPN12	chr7	77227159	+	2125	274	346	2124	593
ENST00000300658	PGAP3	chr17	37844087	-	ENST00000435495	PTPN12	chr7	77227159	+	2465	274	346	2124	592
ENST00000378011	PGAP3	chr17	37844087	-	ENST00000248594	PTPN12	chr7	77227159	+	2866	224	296	2074	592
ENST00000378011	PGAP3	chr17	37844087	-	ENST00000415482	PTPN12	chr7	77227159	+	2075	224	296	2074	593
ENST00000378011	PGAP3	chr17	37844087	-	ENST00000435495	PTPN12	chr7	77227159	+	2415	224	296	2074	592
ENST00000429199	PGAP3	chr17	37844087	-	ENST00000248594	PTPN12	chr7	77227159	+	2866	224	296	2074	592
ENST00000429199	PGAP3	chr17	37844087	-	ENST00000415482	PTPN12	chr7	77227159	+	2075	224	296	2074	593
ENST00000429199	PGAP3	chr17	37844087	-	ENST00000435495	PTPN12	chr7	77227159	+	2415	224	296	2074	592

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
ENST00000579146	ENST00000248594	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.000710792	0.99928916
ENST00000579146	ENST00000415482	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.004602742	0.99539727
ENST00000579146	ENST00000435495	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.001501776	0.9984982
ENST00000300658	ENST00000248594	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.000713539	0.9992865
ENST00000300658	ENST00000415482	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.004551983	0.99544805
ENST00000300658	ENST00000435495	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.001491381	0.99850863
ENST00000378011	ENST00000248594	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.000710792	0.99928916
ENST00000378011	ENST00000415482	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.004602742	0.99539727
ENST00000378011	ENST00000435495	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.001501776	0.9984982
ENST00000429199	ENST00000248594	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.000710792	0.99928916
ENST00000429199	ENST00000415482	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.004602742	0.99539727
ENST00000429199	ENST00000435495	PGAP3	chr17	37844087	-	PTPN12	chr7	77227159	+	0.001501776	0.9984982

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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

>64560_64560_1_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000300658_PTPN12_chr7_77227159_ENST00000248594_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_2_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000300658_PTPN12_chr7_77227159_ENST00000415482_length(amino acids)=593AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_3_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000300658_PTPN12_chr7_77227159_ENST00000435495_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_4_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000378011_PTPN12_chr7_77227159_ENST00000248594_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_5_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000378011_PTPN12_chr7_77227159_ENST00000415482_length(amino acids)=593AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_6_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000378011_PTPN12_chr7_77227159_ENST00000435495_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_7_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000429199_PTPN12_chr7_77227159_ENST00000248594_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_8_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000429199_PTPN12_chr7_77227159_ENST00000415482_length(amino acids)=593AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_9_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000429199_PTPN12_chr7_77227159_ENST00000435495_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_10_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000579146_PTPN12_chr7_77227159_ENST00000248594_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_11_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000579146_PTPN12_chr7_77227159_ENST00000415482_length(amino acids)=593AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

>64560_64560_12_PGAP3-PTPN12_PGAP3_chr17_37844087_ENST00000579146_PTPN12_chr7_77227159_ENST00000435495_length(amino acids)=592AA_BP=
MYQFHYVNWPDHDVPSSFDSILDMISLMRKYQEHEDVPICIHCSAGCGRTGAICAIDYTWNLLKAGKIPEEFNVFNLIQEMRTQRHSAVQ
TKEQYELVHRAIAQLFEKQLQLYEIHGAQKIADGVNEINTENMVSSIEPEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTP
SPPSAFPTVTTVWQDNDRYHPKPVLHMVSSEQHSADLNRNYSKSTELPGKNESTIEQIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNR
GHAIKIKSASPCIADKISKPQELSSDLNVGDTSQNSCVDCSVTQSNKVSVTPPEESQNSDTPPRPDRLPLDEKGHVTWSFHGPENAIPIP
DLSEGNSSDINYQTRKTVSLTPSPTTQVETPDLVDHDNTSPLFRTPLSFTNPLHSDDSDSDERNSDGAVTQNKTNISTASATVSAATSTE
SISTRKVLPMSIARHNIAGTTHSGAEKDVDVSEDSPPPLPERTPESFVLASEHNTPVRSEWSELQSQERSEQKKSEGLITSENEKCDHPA

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

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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/chr17:37844087/chr7:77227159)
- 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

Tgene

PTPN12

chr17:37844087

chr7:77227159

ENST00000248594

231_237

164.0

781.0

Region

Substrate binding

Tgene

PTPN12

chr17:37844087

chr7:77227159

ENST00000435495

231_237

34.0

651.0

Region

Substrate binding

Tgene

PTPN12

chr17:37844087

chr7:77227159

ENST00000435495

63_67

34.0

651.0

Region

Substrate binding

- 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

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

120_135

60.333333333333336

321.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

157_169

60.333333333333336

321.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

191_193

60.333333333333336

321.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

215_224

60.333333333333336

321.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

21_98

60.333333333333336

321.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

246_257

60.333333333333336

321.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

279_279

60.333333333333336

321.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

300_320

60.333333333333336

321.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

120_135

60.333333333333336

270.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

157_169

60.333333333333336

270.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

191_193

60.333333333333336

270.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

215_224

60.333333333333336

270.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

21_98

60.333333333333336

270.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

246_257

60.333333333333336

270.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

279_279

60.333333333333336

270.0

Topological domain

Lumenal

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

300_320

60.333333333333336

270.0

Topological domain

Cytoplasmic

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

136_156

60.333333333333336

321.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

170_190

60.333333333333336

321.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

194_214

60.333333333333336

321.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

225_245

60.333333333333336

321.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

258_278

60.333333333333336

321.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

280_299

60.333333333333336

321.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000300658

99_119

60.333333333333336

321.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

136_156

60.333333333333336

270.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

170_190

60.333333333333336

270.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

194_214

60.333333333333336

270.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

225_245

60.333333333333336

270.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

258_278

60.333333333333336

270.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

280_299

60.333333333333336

270.0

Transmembrane

Helical

Hgene

PGAP3

chr17:37844087

chr7:77227159

ENST00000378011

99_119

60.333333333333336

270.0

Transmembrane

Helical

Tgene

PTPN12

chr17:37844087

chr7:77227159

ENST00000248594

28_293

164.0

781.0

Domain

Tyrosine-protein phosphatase

Tgene

PTPN12

chr17:37844087

chr7:77227159

ENST00000435495

28_293

34.0

651.0

Domain

Tyrosine-protein phosphatase

Tgene

PTPN12

chr17:37844087

chr7:77227159

ENST00000248594

63_67

164.0

781.0

Region

Substrate binding

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
PGAP3
PTPN12

- 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

Top

Related Drugs to PGAP3-PTPN12

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to PGAP3-PTPN12

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