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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:NNAT-PTPRN2

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: NNAT-PTPRN2
	FusionPDB ID: 59480
	FusionGDB2.0 ID: 59480
		Hgene	Tgene
	Gene symbol	NNAT	PTPRN2
	Gene ID	4826	5799
	Gene name	neuronatin	protein tyrosine phosphatase receptor type N2
	Synonyms	Peg5	IA-2beta\|IAR\|ICAAR\|PTPRP\|R-PTP-N2
	Cytomap	20q11.23	7q36.3
	Type of gene	protein-coding	protein-coding
	Description	neuronatin	receptor-type tyrosine-protein phosphatase N2IAR/receptor-like protein-tyrosine phosphataseislet cell autoantigen-related proteinphogrinprotein tyrosine phosphatase receptor piprotein tyrosine phosphatase, receptor type, N polypeptide 2tyrosine phos
	Modification date	20200313	20200313
	UniProtAcc	Q16517	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000062104, ENST00000346199,	ENST00000389413, ENST00000389416, ENST00000389418, ENST00000404321, ENST00000409483,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	4 X 4 X 1=16	16 X 17 X 9=2448
	# samples	4	24
	** MAII score	log2(4/16*10)=1.32192809488736 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0	log2(24/2448*10)=-3.35049724708413 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: NNAT [Title/Abstract] AND PTPRN2 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	NNAT(36149805)-PTPRN2(157388013), # samples:1
Anticipated loss of major functional domain due to fusion event.	NNAT-PTPRN2 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. NNAT-PTPRN2 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. NNAT-PTPRN2 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. NNAT-PTPRN2 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

Fusion gene breakpoints across NNAT (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 PTPRN2 (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
ChiTaRS5.0	N/A	DA346166	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-

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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)
ENST00000062104	NNAT	chr20	36149805	+	ENST00000389413	PTPRN2	chr7	157388013	-	2477	189	117	818	233
ENST00000062104	NNAT	chr20	36149805	+	ENST00000409483	PTPRN2	chr7	157388013	-	2477	189	117	818	233
ENST00000062104	NNAT	chr20	36149805	+	ENST00000389416	PTPRN2	chr7	157388013	-	2472	189	117	818	233
ENST00000062104	NNAT	chr20	36149805	+	ENST00000389418	PTPRN2	chr7	157388013	-	2467	189	117	818	233
ENST00000062104	NNAT	chr20	36149805	+	ENST00000404321	PTPRN2	chr7	157388013	-	819	189	117	818	233
ENST00000346199	NNAT	chr20	36149805	+	ENST00000389413	PTPRN2	chr7	157388013	-	2473	185	113	814	233
ENST00000346199	NNAT	chr20	36149805	+	ENST00000409483	PTPRN2	chr7	157388013	-	2473	185	113	814	233
ENST00000346199	NNAT	chr20	36149805	+	ENST00000389416	PTPRN2	chr7	157388013	-	2468	185	113	814	233
ENST00000346199	NNAT	chr20	36149805	+	ENST00000389418	PTPRN2	chr7	157388013	-	2463	185	113	814	233
ENST00000346199	NNAT	chr20	36149805	+	ENST00000404321	PTPRN2	chr7	157388013	-	815	185	113	814	234

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
ENST00000062104	ENST00000389413	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002667505	0.99733245
ENST00000062104	ENST00000409483	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002667505	0.99733245
ENST00000062104	ENST00000389416	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002600985	0.997399
ENST00000062104	ENST00000389418	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002624576	0.9973755
ENST00000062104	ENST00000404321	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.003459532	0.9965405
ENST00000346199	ENST00000389413	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002059578	0.99794036
ENST00000346199	ENST00000409483	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002059578	0.99794036
ENST00000346199	ENST00000389416	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002016382	0.9979836
ENST00000346199	ENST00000389418	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.002033458	0.9979665
ENST00000346199	ENST00000404321	NNAT	chr20	36149805	+	PTPRN2	chr7	157388013	-	0.003333544	0.9966665

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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

>59480_59480_1_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000062104_PTPRN2_chr7_157388013_ENST00000389413_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_2_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000062104_PTPRN2_chr7_157388013_ENST00000389416_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_3_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000062104_PTPRN2_chr7_157388013_ENST00000389418_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_4_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000062104_PTPRN2_chr7_157388013_ENST00000404321_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_5_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000062104_PTPRN2_chr7_157388013_ENST00000409483_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_6_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000346199_PTPRN2_chr7_157388013_ENST00000389413_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_7_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000346199_PTPRN2_chr7_157388013_ENST00000389416_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_8_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000346199_PTPRN2_chr7_157388013_ENST00000389418_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_9_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000346199_PTPRN2_chr7_157388013_ENST00000404321_length(amino acids)=234AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

>59480_59480_10_NNAT-PTPRN2_NNAT_chr20_36149805_ENST00000346199_PTPRN2_chr7_157388013_ENST00000409483_length(amino acids)=233AA_BP=22
MAAVAAASAELLIIGWYIFRVLLQMDHDPRNPAYIATQGPLPATVADFWQMVWESGCVVIVMLTPLAENGVRQCYHYWPDEGSNLYHIYE
VNLVSEHIWCEDFLVRSFYLKNLQTNETRTVTQFHFLSWYDRGVPSSSRSLLDFRRKVNKCYRGRSCPIIVHCSDGAGRSGTYVLIDMVL

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

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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/chr20:36149805/chr7:157388013)
- 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
NNAT Q16517	.
FUNCTION: May participate in the maintenance of segment identity in the hindbrain and pituitary development, and maturation or maintenance of the overall structure of the nervous system. May function as a regulatory subunit of ion channels.	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

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389413

1004_1010

777.0

987.0

Motif

Leucine-based sorting signal

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389416

1004_1010

789.0

999.0

Motif

Leucine-based sorting signal

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389418

1004_1010

806.0

1016.0

Motif

Leucine-based sorting signal

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000404321

1004_1010

829.0

1039.0

Motif

Leucine-based sorting signal

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389413

945_951

777.0

987.0

Region

Substrate binding

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389416

945_951

789.0

999.0

Region

Substrate binding

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389418

945_951

806.0

1016.0

Region

Substrate binding

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000404321

945_951

829.0

1039.0

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

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389413

745_1005

777.0

987.0

Domain

Tyrosine-protein phosphatase

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389416

745_1005

789.0

999.0

Domain

Tyrosine-protein phosphatase

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389418

745_1005

806.0

1016.0

Domain

Tyrosine-protein phosphatase

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000404321

745_1005

829.0

1039.0

Domain

Tyrosine-protein phosphatase

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389413

666_675

777.0

987.0

Motif

Tyrosine-based internalization motif

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389416

666_675

789.0

999.0

Motif

Tyrosine-based internalization motif

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389418

666_675

806.0

1016.0

Motif

Tyrosine-based internalization motif

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000404321

666_675

829.0

1039.0

Motif

Tyrosine-based internalization motif

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389413

22_615

777.0

987.0

Topological domain

Extracellular

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389413

637_1015

777.0

987.0

Topological domain

Cytoplasmic

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389416

22_615

789.0

999.0

Topological domain

Extracellular

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389416

637_1015

789.0

999.0

Topological domain

Cytoplasmic

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389418

22_615

806.0

1016.0

Topological domain

Extracellular

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389418

637_1015

806.0

1016.0

Topological domain

Cytoplasmic

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000404321

22_615

829.0

1039.0

Topological domain

Extracellular

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000404321

637_1015

829.0

1039.0

Topological domain

Cytoplasmic

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389413

616_636

777.0

987.0

Transmembrane

Helical

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389416

616_636

789.0

999.0

Transmembrane

Helical

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000389418

616_636

806.0

1016.0

Transmembrane

Helical

Tgene

PTPRN2

chr20:36149805

chr7:157388013

ENST00000404321

616_636

829.0

1039.0

Transmembrane

Helical

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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
NNAT
PTPRN2

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

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

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

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs to NNAT-PTPRN2

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 NNAT-PTPRN2

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