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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:CAST-CDHR3 (FusionGDB2 ID:13259)

Fusion Gene Summary for CAST-CDHR3

Fusion gene summary

Fusion gene information	Fusion gene name: CAST-CDHR3
	Fusion gene ID: 13259
		Hgene	Tgene
	Gene symbol	CAST	CDHR3
	Gene ID	26059	222256
	Gene name	ELKS/RAB6-interacting/CAST family member 2	cadherin related family member 3
	Synonyms	CAST\|CAST1\|ELKSL\|SPBC110\|Spc110	CDH28
	Cytomap	3p14.3	7q22.3
	Type of gene	protein-coding	protein-coding
	Description	ERC protein 2CAZ-associated structural proteincytomatrix protein p110	cadherin-related family member 3cadherin-like protein 28
	Modification date	20200313	20200313
	UniProtAcc	.	Q6ZTQ4
	Ensembl transtripts involved in fusion gene	ENST00000309190, ENST00000325674, ENST00000359176, ENST00000395812, ENST00000395813, ENST00000511049, ENST00000338252, ENST00000341926, ENST00000348386, ENST00000504465, ENST00000508579, ENST00000508608, ENST00000508830, ENST00000509903, ENST00000510756, ENST00000511782, ENST00000515663,	ENST00000317716, ENST00000343407, ENST00000470188, ENST00000478080, ENST00000541203, ENST00000542731,
Fusion gene scores	* DoF score	11 X 11 X 6=726	3 X 2 X 3=18
	# samples	13	3
	** MAII score	log2(13/726*10)=-2.4814579249673 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(3/18*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0
Context	PubMed: CAST [Title/Abstract] AND CDHR3 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	CAST(96108937)-CDHR3(105668108), # 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 CAST (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 CDHR3 (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
ChimerDB4	LUAD	TCGA-75-7025-01A	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+

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Fusion Gene ORF analysis for CAST-CDHR3

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
3UTR-intron	ENST00000309190	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000309190	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000309190	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000309190	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000309190	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000309190	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000325674	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000325674	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000325674	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000325674	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000325674	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000325674	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000359176	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000359176	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000359176	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000359176	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000359176	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000359176	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395812	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395812	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395812	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395812	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395812	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395812	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395813	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395813	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395813	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395813	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395813	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000395813	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000511049	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000511049	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000511049	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000511049	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000511049	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
3UTR-intron	ENST00000511049	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
5CDS-intron	ENST00000338252	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
5CDS-intron	ENST00000338252	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
5CDS-intron	ENST00000338252	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
5CDS-intron	ENST00000338252	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
5CDS-intron	ENST00000338252	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
5CDS-intron	ENST00000338252	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000341926	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000341926	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000341926	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000341926	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000341926	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000341926	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000348386	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000348386	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000348386	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000348386	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000348386	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000348386	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000504465	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000504465	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000504465	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000504465	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000504465	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000504465	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508579	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508579	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508579	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508579	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508579	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508579	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508608	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508608	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508608	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508608	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508608	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508608	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508830	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508830	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508830	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508830	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508830	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000508830	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000509903	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000509903	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000509903	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000509903	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000509903	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000509903	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000510756	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000510756	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000510756	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000510756	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000510756	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000510756	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000511782	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000511782	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000511782	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000511782	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000511782	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000511782	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000515663	ENST00000317716	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000515663	ENST00000343407	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000515663	ENST00000470188	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000515663	ENST00000478080	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000515663	ENST00000541203	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+
intron-intron	ENST00000515663	ENST00000542731	CAST	chr5	96108937	-	CDHR3	chr7	105668108	+

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 CAST-CDHR3

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 CAST-CDHR3

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:96108937/:105668108)
- 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
.	CDHR3 Q6ZTQ4
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.	FUNCTION: Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types.; FUNCTION: (Microbial infection) Acts as a receptor for rhinovirus C. {ECO:0000269\|PubMed:25848009}.

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 CAST-CDHR3

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.

Top

Fusion Gene PPI Analysis for CAST-CDHR3

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 CAST-CDHR3

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 CAST-CDHR3

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source