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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:PTPRT-ELF3

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: PTPRT-ELF3
	FusionPDB ID: 70554
	FusionGDB2.0 ID: 70554
		Hgene	Tgene
	Gene symbol	PTPRT	ELF3
	Gene ID	11122	1999
	Gene name	protein tyrosine phosphatase receptor type T	E74 like ETS transcription factor 3
	Synonyms	RPTPrho	EPR-1\|ERT\|ESE-1\|ESX
	Cytomap	20q12-q13.11	1q32.1
	Type of gene	protein-coding	protein-coding
	Description	receptor-type tyrosine-protein phosphatase TR-PTP-TRPTP-rhoreceptor protein tyrosine phosphatasereceptor-type tyrosine-protein phosphatase rho	ETS-related transcription factor Elf-3E74-like factor 3 (ETS domain transcription factor, serine box, epithelial-specific)E74-like factor 3 (ets domain transcription factor)E74-like factor 3 (ets domain transcription factor, epithelial-specific )epith
	Modification date	20200313	20200313
	UniProtAcc	.	P78545
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000356100, ENST00000373184, ENST00000373187, ENST00000373190, ENST00000373193, ENST00000373198, ENST00000373201, ENST00000485499,	ENST00000495848, ENST00000359651, ENST00000367283, ENST00000367284,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	18 X 20 X 6=2160	10 X 9 X 3=270
	# samples	21	10
	** MAII score	log2(21/2160*10)=-3.36257007938471 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(10/270*10)=-1.43295940727611 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: PTPRT [Title/Abstract] AND ELF3 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	PTPRT(41306506)-ELF3(201982957), # samples:1
Anticipated loss of major functional domain due to fusion event.	PTPRT-ELF3 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. PTPRT-ELF3 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. PTPRT-ELF3 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. PTPRT-ELF3 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	PTPRT	GO:0006470	protein dephosphorylation	16973135
Hgene	PTPRT	GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules	18644975
Hgene	PTPRT	GO:0035335	peptidyl-tyrosine dephosphorylation	17360477
Hgene	PTPRT	GO:0071354	cellular response to interleukin-6	17360477
Hgene	PTPRT	GO:1904893	negative regulation of STAT cascade	17360477
Hgene	PTPRT	GO:1990264	peptidyl-tyrosine dephosphorylation involved in inactivation of protein kinase activity	24846175
Tgene	ELF3	GO:0045892	negative regulation of transcription, DNA-templated	10773884
Tgene	ELF3	GO:0045893	positive regulation of transcription, DNA-templated	9234700

Fusion gene breakpoints across PTPRT (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 ELF3 (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-AN-A0FT-01A	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+

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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)
ENST00000373184	PTPRT	chr20	41306506	-	ENST00000359651	ELF3	chr1	201982957	+	2150	1153	0	1463	487
ENST00000373184	PTPRT	chr20	41306506	-	ENST00000367284	ELF3	chr1	201982957	+	3329	1153	0	1463	487
ENST00000373184	PTPRT	chr20	41306506	-	ENST00000367283	ELF3	chr1	201982957	+	2150	1153	0	1463	487
ENST00000373187	PTPRT	chr20	41306506	-	ENST00000359651	ELF3	chr1	201982957	+	2150	1153	0	1463	487
ENST00000373187	PTPRT	chr20	41306506	-	ENST00000367284	ELF3	chr1	201982957	+	3329	1153	0	1463	487
ENST00000373187	PTPRT	chr20	41306506	-	ENST00000367283	ELF3	chr1	201982957	+	2150	1153	0	1463	487
ENST00000356100	PTPRT	chr20	41306506	-	ENST00000359651	ELF3	chr1	201982957	+	2150	1153	0	1463	487
ENST00000356100	PTPRT	chr20	41306506	-	ENST00000367284	ELF3	chr1	201982957	+	3329	1153	0	1463	487
ENST00000356100	PTPRT	chr20	41306506	-	ENST00000367283	ELF3	chr1	201982957	+	2150	1153	0	1463	487
ENST00000373190	PTPRT	chr20	41306506	-	ENST00000359651	ELF3	chr1	201982957	+	2259	1262	91	1572	493
ENST00000373190	PTPRT	chr20	41306506	-	ENST00000367284	ELF3	chr1	201982957	+	3438	1262	91	1572	493
ENST00000373190	PTPRT	chr20	41306506	-	ENST00000367283	ELF3	chr1	201982957	+	2259	1262	91	1572	493
ENST00000373193	PTPRT	chr20	41306506	-	ENST00000359651	ELF3	chr1	201982957	+	2334	1337	31	1647	538
ENST00000373193	PTPRT	chr20	41306506	-	ENST00000367284	ELF3	chr1	201982957	+	3513	1337	31	1647	538
ENST00000373193	PTPRT	chr20	41306506	-	ENST00000367283	ELF3	chr1	201982957	+	2334	1337	31	1647	538
ENST00000373198	PTPRT	chr20	41306506	-	ENST00000359651	ELF3	chr1	201982957	+	2386	1389	83	1699	538
ENST00000373198	PTPRT	chr20	41306506	-	ENST00000367284	ELF3	chr1	201982957	+	3565	1389	83	1699	538
ENST00000373198	PTPRT	chr20	41306506	-	ENST00000367283	ELF3	chr1	201982957	+	2386	1389	83	1699	538
ENST00000373201	PTPRT	chr20	41306506	-	ENST00000359651	ELF3	chr1	201982957	+	2387	1390	84	1700	538
ENST00000373201	PTPRT	chr20	41306506	-	ENST00000367284	ELF3	chr1	201982957	+	3566	1390	84	1700	538
ENST00000373201	PTPRT	chr20	41306506	-	ENST00000367283	ELF3	chr1	201982957	+	2387	1390	84	1700	538

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
ENST00000373184	ENST00000359651	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007444225	0.9925558
ENST00000373184	ENST00000367284	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.00173917	0.9982608
ENST00000373184	ENST00000367283	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007444225	0.9925558
ENST00000373187	ENST00000359651	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007444225	0.9925558
ENST00000373187	ENST00000367284	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.00173917	0.9982608
ENST00000373187	ENST00000367283	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007444225	0.9925558
ENST00000356100	ENST00000359651	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007444225	0.9925558
ENST00000356100	ENST00000367284	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.00173917	0.9982608
ENST00000356100	ENST00000367283	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007444225	0.9925558
ENST00000373190	ENST00000359651	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007421236	0.9925788
ENST00000373190	ENST00000367284	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.001780179	0.9982198
ENST00000373190	ENST00000367283	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.007421236	0.9925788
ENST00000373193	ENST00000359651	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.008607435	0.9913926
ENST00000373193	ENST00000367284	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.002032059	0.9979679
ENST00000373193	ENST00000367283	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.008607435	0.9913926
ENST00000373198	ENST00000359651	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.008454677	0.99154526
ENST00000373198	ENST00000367284	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.00205131	0.9979487
ENST00000373198	ENST00000367283	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.008454677	0.99154526
ENST00000373201	ENST00000359651	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.008399341	0.99160063
ENST00000373201	ENST00000367284	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.002040179	0.99795985
ENST00000373201	ENST00000367283	PTPRT	chr20	41306506	-	ELF3	chr1	201982957	+	0.008399341	0.99160063

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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

>70554_70554_1_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000356100_ELF3_chr1_201982957_ENST00000359651_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_2_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000356100_ELF3_chr1_201982957_ENST00000367283_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_3_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000356100_ELF3_chr1_201982957_ENST00000367284_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_4_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373184_ELF3_chr1_201982957_ENST00000359651_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_5_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373184_ELF3_chr1_201982957_ENST00000367283_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_6_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373184_ELF3_chr1_201982957_ENST00000367284_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_7_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373187_ELF3_chr1_201982957_ENST00000359651_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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>70554_70554_8_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373187_ELF3_chr1_201982957_ENST00000367283_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_9_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373187_ELF3_chr1_201982957_ENST00000367284_length(amino acids)=487AA_BP=383
MASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHL
LLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVD
EVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIR
SDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRV
LLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEKLSRAMR

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

>70554_70554_10_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373190_ELF3_chr1_201982957_ENST00000359651_length(amino acids)=493AA_BP=389
MPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRAS
GQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHP
GYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSK
YRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDV
EYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEK

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

>70554_70554_11_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373190_ELF3_chr1_201982957_ENST00000367283_length(amino acids)=493AA_BP=389
MPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRAS
GQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHP
GYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSK
YRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDV
EYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEK

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

>70554_70554_12_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373190_ELF3_chr1_201982957_ENST00000367284_length(amino acids)=493AA_BP=389
MPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYSNCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRAS
GQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHP
GYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSK
YRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDV
EYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDILIHPELNEGLMKWENRHEGVFKFLRSEAVAQLWGQKKKNSNMTYEK

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

>70554_70554_13_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373193_ELF3_chr1_201982957_ENST00000359651_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_14_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373193_ELF3_chr1_201982957_ENST00000367283_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_15_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373193_ELF3_chr1_201982957_ENST00000367284_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_16_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373198_ELF3_chr1_201982957_ENST00000359651_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_17_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373198_ELF3_chr1_201982957_ENST00000367283_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_18_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373198_ELF3_chr1_201982957_ENST00000367284_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_19_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373201_ELF3_chr1_201982957_ENST00000359651_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_20_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373201_ELF3_chr1_201982957_ENST00000367283_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

>70554_70554_21_PTPRT-ELF3_PTPRT_chr20_41306506_ENST00000373201_ELF3_chr1_201982957_ENST00000367284_length(amino acids)=538AA_BP=38
MERRSAGSGSPSGASRAHSQRPRRRCGATPRPPQSRPRPPREGAELPAAARMASLAALALSLLLRLQLPPLPGARAQSAAGGCSFDEHYS
NCGYSVALGTNGFTWEQINTWEKPMLDQAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGG
PQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKW
SQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTAQRSVSKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKP
NANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCAAPRGTHLWEFIRDIL

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

Top

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/chr20:41306506/chr1:201982957)
- 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
.	ELF3 P78545
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: Transcriptional activator that binds and transactivates ETS sequences containing the consensus nucleotide core sequence GGA[AT]. Acts synergistically with POU2F3 to transactivate the SPRR2A promoter and with RUNX1 to transactivate the ANGPT1 promoter. Also transactivates collagenase, CCL20, CLND7, FLG, KRT8, NOS2, PTGS2, SPRR2B, TGFBR2 and TGM3 promoters. Represses KRT4 promoter activity. Involved in mediating vascular inflammation. May play an important role in epithelial cell differentiation and tumorigenesis. May be a critical downstream effector of the ERBB2 signaling pathway. May be associated with mammary gland development and involution. Plays an important role in the regulation of transcription with TATA-less promoters in preimplantation embryos, which is essential in preimplantation development (By similarity). {ECO:0000250, ECO:0000269\|PubMed:10391676, ECO:0000269\|PubMed:10644990, ECO:0000269\|PubMed:10773884, ECO:0000269\|PubMed:11036073, ECO:0000269\|PubMed:11313868, ECO:0000269\|PubMed:12414801, ECO:0000269\|PubMed:12624109, ECO:0000269\|PubMed:12682075, ECO:0000269\|PubMed:12713734, ECO:0000269\|PubMed:14715662, ECO:0000269\|PubMed:14767472, ECO:0000269\|PubMed:15075319, ECO:0000269\|PubMed:15169914, ECO:0000269\|PubMed:15794755, ECO:0000269\|PubMed:16307850, ECO:0000269\|PubMed:17060315, ECO:0000269\|PubMed:9129154, ECO:0000269\|PubMed:9234700, ECO:0000269\|PubMed:9336459, ECO:0000269\|PubMed:9395241, ECO:0000269\|PubMed:9417054}.

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

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

193_284

384.3333333333333

1442.0

Domain

Note=Ig-like C2-type

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

291_384

384.3333333333333

1442.0

Domain

Fibronectin type-III 1

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

30_191

384.3333333333333

1442.0

Domain

MAM

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

193_284

384.3333333333333

1461.0

Domain

Note=Ig-like C2-type

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

291_384

384.3333333333333

1461.0

Domain

Fibronectin type-III 1

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

30_191

384.3333333333333

1461.0

Domain

MAM

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000359651

273_355

268.3333333333333

372.0

DNA binding

ETS

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000367283

273_355

268.3333333333333

372.0

DNA binding

ETS

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000367284

273_355

268.3333333333333

372.0

DNA binding

ETS

- 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

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

1175_1437

384.3333333333333

1442.0

Domain

Tyrosine-protein phosphatase 2

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

389_483

384.3333333333333

1442.0

Domain

Fibronectin type-III 2

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

484_590

384.3333333333333

1442.0

Domain

Fibronectin type-III 3

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

591_726

384.3333333333333

1442.0

Domain

Fibronectin type-III 4

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

889_1143

384.3333333333333

1442.0

Domain

Tyrosine-protein phosphatase 1

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

1175_1437

384.3333333333333

1461.0

Domain

Tyrosine-protein phosphatase 2

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

389_483

384.3333333333333

1461.0

Domain

Fibronectin type-III 2

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

484_590

384.3333333333333

1461.0

Domain

Fibronectin type-III 3

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

591_726

384.3333333333333

1461.0

Domain

Fibronectin type-III 4

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

889_1143

384.3333333333333

1461.0

Domain

Tyrosine-protein phosphatase 1

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

1084_1090

384.3333333333333

1442.0

Region

Substrate binding

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

1084_1090

384.3333333333333

1461.0

Region

Substrate binding

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

26_747

384.3333333333333

1442.0

Topological domain

Extracellular

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

769_1441

384.3333333333333

1442.0

Topological domain

Cytoplasmic

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

26_747

384.3333333333333

1461.0

Topological domain

Extracellular

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

769_1441

384.3333333333333

1461.0

Topological domain

Cytoplasmic

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373187

748_768

384.3333333333333

1442.0

Transmembrane

Helical

Hgene

PTPRT

chr20:41306506

chr1:201982957

ENST00000373198

748_768

384.3333333333333

1461.0

Transmembrane

Helical

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000359651

46_132

268.3333333333333

372.0

Domain

PNT

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000367283

46_132

268.3333333333333

372.0

Domain

PNT

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000367284

46_132

268.3333333333333

372.0

Domain

PNT

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000359651

137_145

268.3333333333333

372.0

Motif

Note=9aaTAD

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000367283

137_145

268.3333333333333

372.0

Motif

Note=9aaTAD

Tgene

ELF3

chr20:41306506

chr1:201982957

ENST00000367284

137_145

268.3333333333333

372.0

Motif

Note=9aaTAD

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
PTPRT
ELF3

- 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 PTPRT-ELF3

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to PTPRT-ELF3

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