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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:CLASP1-NFYC (FusionGDB2 ID:HG23332TG4802)

Fusion Gene Summary for CLASP1-NFYC

Fusion gene summary

Fusion gene information	Fusion gene name: CLASP1-NFYC
	Fusion gene ID: hg23332tg4802
		Hgene	Tgene
	Gene symbol	CLASP1	NFYC
	Gene ID	23332	4802
	Gene name	cytoplasmic linker associated protein 1	nuclear transcription factor Y subunit gamma
	Synonyms	MAST1	CBF-C\|CBFC\|H1TF2A\|HAP5\|HSM\|NF-YC
	Cytomap	('CLASP1')('NFYC') 2q14.2-q14.3	1p34.2
	Type of gene	protein-coding	protein-coding
	Description	CLIP-associating protein 1multiple asters 1multiple asters homolog 1protein Orbit homolog 1	nuclear transcription factor Y subunit gammaCAAT box DNA-binding protein subunit CCCAAT binding factor subunit CCCAAT transcription binding factor subunit gammahistone H1 transcription factor large subunit 2Anuclear transcription factor Y subunit Cn
	Modification date	20200313	20200313
	UniProtAcc	.	Q13952
	Ensembl transtripts involved in fusion gene	ENST00000263710, ENST00000397587, ENST00000409078, ENST00000455322, ENST00000541377, ENST00000430234, ENST00000541859, ENST00000545861,
Fusion gene scores	* DoF score	8 X 6 X 5=240	16 X 10 X 7=1120
	# samples	8	18
	** MAII score	log2(8/240*10)=-1.58496250072116 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(18/1120*10)=-2.63742992061529 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: CLASP1 [Title/Abstract] AND NFYC [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	CLASP1(122406948)-NFYC(41204508), # 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
Hgene	CLASP1	GO:0051294	establishment of spindle orientation	21822276
Hgene	CLASP1	GO:0051301	cell division	21822276
Tgene	NFYC	GO:0006355	regulation of transcription, DNA-templated	15243141

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	DA041051	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+

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Fusion Gene ORF analysis for CLASP1-NFYC

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
5UTR-5UTR	ENST00000263710	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000263710	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000397587	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000409078	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000455322	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-5UTR	ENST00000541377	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-intron	ENST00000263710	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-intron	ENST00000397587	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-intron	ENST00000409078	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-intron	ENST00000455322	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
5UTR-intron	ENST00000541377	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000430234	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000541859	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000308733	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000372651	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000372652	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000372653	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000372654	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000425457	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000427410	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000440226	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000447388	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-5UTR	ENST00000545861	ENST00000456393	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-intron	ENST00000430234	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-intron	ENST00000541859	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+
intron-intron	ENST00000545861	ENST00000483091	CLASP1	chr2	122406948	-	NFYC	chr1	41204508	+

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 CLASP1-NFYC

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)
CLASP1	chr2	122406947	-	NFYC	chr1	41204509	+	5.04E-07	0.9999995
CLASP1	chr2	122406947	-	NFYC	chr1	41204509	+	5.04E-07	0.9999995

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 CLASP1-NFYC

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:122406948/:41204508)
- 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
.	NFYC Q13952
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: Component of the sequence-specific heterotrimeric transcription factor (NF-Y) which specifically recognizes a 5'-CCAAT-3' box motif found in the promoters of its target genes. NF-Y can function as both an activator and a repressor, depending on its interacting cofactors.

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 CLASP1-NFYC

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 CLASP1-NFYC

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 CLASP1-NFYC

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 CLASP1-NFYC

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source

Fusion Gene Studies in Kim Lab

Fusion gene:CLASP1-NFYC (FusionGDB2 ID:HG23332TG4802)

Fusion Gene Summary for CLASP1-NFYC

Fusion Gene ORF analysis for CLASP1-NFYC

Fusion Genomic Features for CLASP1-NFYC

Fusion Protein Features for CLASP1-NFYC

Fusion Gene Sequence for CLASP1-NFYC

Fusion Gene PPI Analysis for CLASP1-NFYC

Related Drugs for CLASP1-NFYC

Related Diseases for CLASP1-NFYC

Fusion Gene Studies
in Kim Lab