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	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:NRXN1-NRXN1 (FusionGDB2 ID:60366)

Fusion Gene Summary for NRXN1-NRXN1

Fusion gene summary

Fusion gene information	Fusion gene name: NRXN1-NRXN1
	Fusion gene ID: 60366
		Hgene	Tgene
	Gene symbol	NRXN1	NRXN1
	Gene ID	9378	9378
	Gene name	neurexin 1	neurexin 1
	Synonyms	Hs.22998\|PTHSL2\|SCZD17	Hs.22998\|PTHSL2\|SCZD17
	Cytomap	2p16.3	2p16.3
	Type of gene	protein-coding	protein-coding
	Description	neurexin-1neurexin I	neurexin-1neurexin I
	Modification date	20200320	20200320
	UniProtAcc	Q9ULB1	Q9ULB1
	Ensembl transtripts involved in fusion gene	ENST00000331040, ENST00000342183, ENST00000401669, ENST00000401710, ENST00000402717, ENST00000404971, ENST00000405472, ENST00000405581, ENST00000406316, ENST00000406859,	ENST00000342183, ENST00000401669, ENST00000401710, ENST00000402717, ENST00000404971, ENST00000405472, ENST00000406316, ENST00000406859, ENST00000331040, ENST00000405581,
Fusion gene scores	* DoF score	7 X 7 X 1=49	8 X 8 X 5=320
	# samples	7	9
	** MAII score	log2(7/49*10)=0.514573172829758 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0	log2(9/320*10)=-1.83007499855769 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: NRXN1 [Title/Abstract] AND NRXN1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	NRXN1(51256112)-NRXN1(50170866), # samples:1
Anticipated loss of major functional domain due to fusion event.

* 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 NRXN1 (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 NRXN1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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	BX487736	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-

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Fusion Gene ORF analysis for NRXN1-NRXN1

Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
intron-3CDS	ENST00000331040	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000331040	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000331040	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000331040	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000331040	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000331040	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000331040	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000331040	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000342183	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401669	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000401710	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000402717	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000404971	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405472	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000405581	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406316	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000342183	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000401669	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000401710	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000402717	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000404971	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000405472	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000406316	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-3CDS	ENST00000406859	ENST00000406859	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000331040	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000331040	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000342183	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000342183	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000401669	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000401669	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000401710	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000401710	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000402717	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000402717	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000404971	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000404971	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000405472	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000405472	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000405581	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000405581	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000406316	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000406316	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000406859	ENST00000331040	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-
intron-intron	ENST00000406859	ENST00000405581	NRXN1	chr2	51256112	-	NRXN1	chr2	50170866	-

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

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)

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

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Fusion Genomic Features for NRXN1-NRXN1

FusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for NRXN1-NRXN1

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:51256112/:50170866)
- 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
NRXN1 Q9ULB1	NRXN1 Q9ULB1
FUNCTION: Cell surface protein involved in cell-cell-interactions, exocytosis of secretory granules and regulation of signal transmission. Function is isoform-specific. Alpha-type isoforms have a long N-terminus with six laminin G-like domains and play an important role in synaptic signal transmission. Alpha-type isoforms play a role in the regulation of calcium channel activity and Ca(2+)-triggered neurotransmitter release at synapses and at neuromuscular junctions. They play an important role in Ca(2+)-triggered exocytosis of secretory granules in pituitary gland. They may effect their functions at synapses and in endocrine cells via their interactions with proteins from the exocytotic machinery. Likewise, alpha-type isoforms play a role in regulating the activity of postsynaptic NMDA receptors, a subtype of glutamate-gated ion channels. Both alpha-type and beta-type isoforms may play a role in the formation or maintenance of synaptic junctions via their calcium-dependent interactions (via the extracellular domains) with neuroligin family members, CBLN1 or CBLN2. In vitro, triggers the de novo formation of presynaptic structures. May be involved in specification of excitatory synapses. Alpha-type isoforms were first identified as receptors for alpha-latrotoxin from spider venom (By similarity). {ECO:0000250}.	FUNCTION: Cell surface protein involved in cell-cell-interactions, exocytosis of secretory granules and regulation of signal transmission. Function is isoform-specific. Alpha-type isoforms have a long N-terminus with six laminin G-like domains and play an important role in synaptic signal transmission. Alpha-type isoforms play a role in the regulation of calcium channel activity and Ca(2+)-triggered neurotransmitter release at synapses and at neuromuscular junctions. They play an important role in Ca(2+)-triggered exocytosis of secretory granules in pituitary gland. They may effect their functions at synapses and in endocrine cells via their interactions with proteins from the exocytotic machinery. Likewise, alpha-type isoforms play a role in regulating the activity of postsynaptic NMDA receptors, a subtype of glutamate-gated ion channels. Both alpha-type and beta-type isoforms may play a role in the formation or maintenance of synaptic junctions via their calcium-dependent interactions (via the extracellular domains) with neuroligin family members, CBLN1 or CBLN2. In vitro, triggers the de novo formation of presynaptic structures. May be involved in specification of excitatory synapses. Alpha-type isoforms were first identified as receptors for alpha-latrotoxin from spider venom (By similarity). {ECO:0000250}.

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.

- In-frame and 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

- In-frame and 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

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Fusion Gene Sequence for NRXN1-NRXN1

For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for NRXN1-NRXN1

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 (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs for NRXN1-NRXN1

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases for NRXN1-NRXN1

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source