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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:PRCC-NUGGC

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: PRCC-NUGGC
	FusionPDB ID: 68406
	FusionGDB2.0 ID: 68406
		Hgene	Tgene
	Gene symbol	PRCC	NUGGC
	Gene ID	5546	389643
	Gene name	proline rich mitotic checkpoint control factor	nuclear GTPase, germinal center associated
	Synonyms	RCCP1\|TPRC	C8orf80\|HMFN0672\|SLIP-GC
	Cytomap	1q23.1	8p21.1
	Type of gene	protein-coding	protein-coding
	Description	proline-rich protein PRCCPRCC, proline rich mitotic checkpoint control factorpapillary renal cell carcinoma (translocation-associated)papillary renal cell carcinoma translocation-associated gene protein	nuclear GTPase SLIP-GCGTPase SLIP-GCspeckled-like pattern in the germinal center
	Modification date	20200313	20200313
	UniProtAcc	Q92733	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000271526, ENST00000353233, ENST00000491853,	ENST00000341513, ENST00000413272,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	12 X 6 X 10=720	3 X 4 X 3=36
	# samples	14	4
	** MAII score	log2(14/720*10)=-2.36257007938471 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(4/36*10)=0.15200309344505 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0
Context (manual curation of fusion genes in FusionPDB)	PubMed: PRCC [Title/Abstract] AND NUGGC [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	PRCC(156738031)-NUGGC(27913571), # samples:1
Anticipated loss of major functional domain due to fusion event.	PRCC-NUGGC 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. PRCC-NUGGC 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. PRCC-NUGGC 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. PRCC-NUGGC 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	PRCC	GO:0007093	mitotic cell cycle checkpoint	11717438
Tgene	NUGGC	GO:0071222	cellular response to lipopolysaccharide	19734146

Fusion gene breakpoints across PRCC (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 NUGGC (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	PRAD	TCGA-HC-7744-01A	PRCC	chr1	156738031	+	NUGGC	chr8	27913571	-

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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)
ENST00000271526	PRCC	chr1	156738031	+	ENST00000413272	NUGGC	chr8	27913571	-	3368	740	272	2014	580
ENST00000271526	PRCC	chr1	156738031	+	ENST00000341513	NUGGC	chr8	27913571	-	3366	740	272	2014	580
ENST00000353233	PRCC	chr1	156738031	+	ENST00000413272	NUGGC	chr8	27913571	-	3314	686	218	1960	580
ENST00000353233	PRCC	chr1	156738031	+	ENST00000341513	NUGGC	chr8	27913571	-	3312	686	218	1960	580

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
ENST00000271526	ENST00000413272	PRCC	chr1	156738031	+	NUGGC	chr8	27913571	-	0.020030808	0.9799692
ENST00000271526	ENST00000341513	PRCC	chr1	156738031	+	NUGGC	chr8	27913571	-	0.020004138	0.9799959
ENST00000353233	ENST00000413272	PRCC	chr1	156738031	+	NUGGC	chr8	27913571	-	0.021030521	0.97896945
ENST00000353233	ENST00000341513	PRCC	chr1	156738031	+	NUGGC	chr8	27913571	-	0.021009758	0.97899026

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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

>68406_68406_1_PRCC-NUGGC_PRCC_chr1_156738031_ENST00000271526_NUGGC_chr8_27913571_ENST00000341513_length(amino acids)=580AA_BP=156
MSLVAYASSDESEPDEAEPEPEEEEAVAPTSGPALGGLFASLPAPKGPALLPPPPQMLAPAFPPPLLLPPPTGDPRLQPPPPLPFGLGGF
PPPPGVSPAEAAGVGEGLGLGLPSPRGPGLNLPPPIGGAGPPLGLPKPKKRKEPVKIAAPELHKGDQAIQSQREAVLERNEMIKLQRTRI
LKEKLKRKLPADFKVLEASDLVYTVSAQEYWQQALLTEEETEIPKLREYIRKSLLDKKKRTVTKYVTEAFGLLLLTDSFNSTQNLPNEHL
HMSVLRRFAEEKVELLEKAIAQCFACMEQPLQEGVRTARTSYRCILRACLVRSKGNQGFHQTLKAVCLKNGIYASRTLARIDLNEALTQP
VYDQIDPVFGSIFRTGKPTGSALMPHIDAFKQSLQEKMTEIGIRSGWKYDSCKKNFLIQEISAILGGLEDHILRRKRRIYESLTASVQSD
LKLCYEEAAQITGKKACERMKDAIRRGVDRQVAEGMFERAQERMQHQFQQLKTGIVEKVKGSITTMLALASSQGDGLYKELADVGSEYKE

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

>68406_68406_2_PRCC-NUGGC_PRCC_chr1_156738031_ENST00000271526_NUGGC_chr8_27913571_ENST00000413272_length(amino acids)=580AA_BP=156
MSLVAYASSDESEPDEAEPEPEEEEAVAPTSGPALGGLFASLPAPKGPALLPPPPQMLAPAFPPPLLLPPPTGDPRLQPPPPLPFGLGGF
PPPPGVSPAEAAGVGEGLGLGLPSPRGPGLNLPPPIGGAGPPLGLPKPKKRKEPVKIAAPELHKGDQAIQSQREAVLERNEMIKLQRTRI
LKEKLKRKLPADFKVLEASDLVYTVSAQEYWQQALLTEEETEIPKLREYIRKSLLDKKKRTVTKYVTEAFGLLLLTDSFNSTQNLPNEHL
HMSVLRRFAEEKVELLEKAIAQCFACMEQPLQEGVRTARTSYRCILRACLVRSKGNQGFHQTLKAVCLKNGIYASRTLARIDLNEALTQP
VYDQIDPVFGSIFRTGKPTGSALMPHIDAFKQSLQEKMTEIGIRSGWKYDSCKKNFLIQEISAILGGLEDHILRRKRRIYESLTASVQSD
LKLCYEEAAQITGKKACERMKDAIRRGVDRQVAEGMFERAQERMQHQFQQLKTGIVEKVKGSITTMLALASSQGDGLYKELADVGSEYKE

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

>68406_68406_3_PRCC-NUGGC_PRCC_chr1_156738031_ENST00000353233_NUGGC_chr8_27913571_ENST00000341513_length(amino acids)=580AA_BP=156
MSLVAYASSDESEPDEAEPEPEEEEAVAPTSGPALGGLFASLPAPKGPALLPPPPQMLAPAFPPPLLLPPPTGDPRLQPPPPLPFGLGGF
PPPPGVSPAEAAGVGEGLGLGLPSPRGPGLNLPPPIGGAGPPLGLPKPKKRKEPVKIAAPELHKGDQAIQSQREAVLERNEMIKLQRTRI
LKEKLKRKLPADFKVLEASDLVYTVSAQEYWQQALLTEEETEIPKLREYIRKSLLDKKKRTVTKYVTEAFGLLLLTDSFNSTQNLPNEHL
HMSVLRRFAEEKVELLEKAIAQCFACMEQPLQEGVRTARTSYRCILRACLVRSKGNQGFHQTLKAVCLKNGIYASRTLARIDLNEALTQP
VYDQIDPVFGSIFRTGKPTGSALMPHIDAFKQSLQEKMTEIGIRSGWKYDSCKKNFLIQEISAILGGLEDHILRRKRRIYESLTASVQSD
LKLCYEEAAQITGKKACERMKDAIRRGVDRQVAEGMFERAQERMQHQFQQLKTGIVEKVKGSITTMLALASSQGDGLYKELADVGSEYKE

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

>68406_68406_4_PRCC-NUGGC_PRCC_chr1_156738031_ENST00000353233_NUGGC_chr8_27913571_ENST00000413272_length(amino acids)=580AA_BP=156
MSLVAYASSDESEPDEAEPEPEEEEAVAPTSGPALGGLFASLPAPKGPALLPPPPQMLAPAFPPPLLLPPPTGDPRLQPPPPLPFGLGGF
PPPPGVSPAEAAGVGEGLGLGLPSPRGPGLNLPPPIGGAGPPLGLPKPKKRKEPVKIAAPELHKGDQAIQSQREAVLERNEMIKLQRTRI
LKEKLKRKLPADFKVLEASDLVYTVSAQEYWQQALLTEEETEIPKLREYIRKSLLDKKKRTVTKYVTEAFGLLLLTDSFNSTQNLPNEHL
HMSVLRRFAEEKVELLEKAIAQCFACMEQPLQEGVRTARTSYRCILRACLVRSKGNQGFHQTLKAVCLKNGIYASRTLARIDLNEALTQP
VYDQIDPVFGSIFRTGKPTGSALMPHIDAFKQSLQEKMTEIGIRSGWKYDSCKKNFLIQEISAILGGLEDHILRRKRRIYESLTASVQSD
LKLCYEEAAQITGKKACERMKDAIRRGVDRQVAEGMFERAQERMQHQFQQLKTGIVEKVKGSITTMLALASSQGDGLYKELADVGSEYKE

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

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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/chr1:156738031/chr8:27913571)
- 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
PRCC Q92733	.
FUNCTION: May regulate cell cycle progression through interaction with MAD2L2. {ECO:0000269\|PubMed:11717438}.	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

Hgene

PRCC

chr1:156738031

chr8:27913571

ENST00000271526

18_25

156.0

492.0

Compositional bias

Note=Poly-Glu

Hgene

PRCC

chr1:156738031

chr8:27913571

ENST00000271526

52_55

156.0

492.0

Compositional bias

Note=Poly-Pro

Hgene

PRCC

chr1:156738031

chr8:27913571

ENST00000271526

79_84

156.0

492.0

Compositional bias

Note=Poly-Pro

Hgene

PRCC

chr1:156738031

chr8:27913571

ENST00000271526

91_94

156.0

492.0

Compositional bias

Note=Poly-Pro

Tgene

NUGGC

chr1:156738031

chr8:27913571

ENST00000413272

745_775

372.0

797.0

Coiled coil

Ontology_term=ECO:0000255

- 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

PRCC

chr1:156738031

chr8:27913571

ENST00000271526

235_239

156.0

492.0

Compositional bias

Note=Poly-Thr

Tgene

NUGGC

chr1:156738031

chr8:27913571

ENST00000413272

158_185

372.0

797.0

Coiled coil

Ontology_term=ECO:0000255

Tgene

NUGGC

chr1:156738031

chr8:27913571

ENST00000413272

107_114

372.0

797.0

Nucleotide binding

GTP

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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

PRCC

EGFR, SF3A2, MAD2L2, NABP2, RBM10, LSM2, PRPF19, PPIL2, TOE1, CSNK2A1, WRAP73, EWSR1, XPO1, HSF2, PCK2, SORT1, SOD1, YWHAZ, LRP8, PIM2, ZNF281, IWS1, CEP170P1, Crnkl1, Bcas2, CDC5L, C19orf57, F11, TKTL2, BCAM, FAF1, BCAS2, HSPA9, FKBP9, CARM1, CRNKL1, SCYL2, SH3GLB1, CDK5, SEPT7, DIS3, CHORDC1, SUB1, SARNP, COPZ1, GORASP2, SEPT11, DRG1, TRIM25, NTC20, HOMER3, ESR2, TP53BP1, ACTC1, PLEKHA4, DNAJC10, ELAVL1, LSM4, DNAJB1, CBX3, DHX8, HIST1H2BG, NUP50, PRPF8, TERF2IP, NAA40, HSPA12A, PLOD3, EP300, SP7,

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
PRCC
NUGGC

- 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 PRCC-NUGGC

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 PRCC-NUGGC

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
Hgene	PRCC	C4518356	MiT family translocation renal cell carcinoma	3	ORPHANET