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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:CRNN-PRRC2A (FusionGDB2 ID:19532)

Fusion Gene Summary for CRNN-PRRC2A

check button Fusion gene summary
Fusion gene informationFusion gene name: CRNN-PRRC2A
Fusion gene ID: 19532
HgeneTgene
Gene symbol

CRNN

PRRC2A

Gene ID

49860

7916

Gene namecornulinproline rich coiled-coil 2A
SynonymsC1orf10|DRC1|PDRC1|SEP53BAT2|D6S51|D6S51E|G2
Cytomap

1q21.3

6p21.33

Type of geneprotein-codingprotein-coding
Descriptioncornulin53 kDa putative calcium-binding protein53 kDa squamous epithelial-induced stress protein58 kDa heat shock proteinsquamous epithelial heat shock protein 53tumor-related proteinprotein PRRC2AHLA-B-associated transcript 2large proline-rich protein BAT2proline-rich and coiled-coil-containing protein 2Aprotein G2
Modification date2020031320200313
UniProtAcc

Q9UBG3

.
Ensembl transtripts involved in fusion geneENST00000271835, ENST00000376007, 
ENST00000376033, ENST00000383455, 
ENST00000383464, ENST00000414956, 
ENST00000416335, ENST00000422962, 
ENST00000428775, ENST00000430737, 
ENST00000432252, ENST00000435971, 
ENST00000439762, ENST00000454306, 
ENST00000458561, ENST00000466607, 
ENST00000468994, ENST00000469577, 
ENST00000470109, ENST00000473169, 
ENST00000484613, ENST00000485195, 
ENST00000547056, ENST00000547457, 
ENST00000547669, ENST00000548373, 
ENST00000549037, ENST00000549383, 
ENST00000549768, ENST00000550109, 
ENST00000550609, ENST00000550674, 
ENST00000551341, ENST00000551794, 
Fusion gene scores* DoF score1 X 1 X 1=16 X 6 X 3=108
# samples 16
** MAII scorelog2(1/1*10)=3.32192809488736log2(6/108*10)=-0.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CRNN [Title/Abstract] AND PRRC2A [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCRNN(152382401)-PRRC2A(31604507), # 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneCRNN

GO:0009408

response to heat

11606197

HgeneCRNN

GO:0071345

cellular response to cytokine stimulus

30009832

HgeneCRNN

GO:0098609

cell-cell adhesion

2631556


check buttonFusion gene breakpoints across CRNN (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across PRRC2A (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4STADTCGA-CG-5717-01ACRNNchr1

152382401

-PRRC2Achr6

31604507

+


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Fusion Gene ORF analysis for CRNN-PRRC2A

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
intron-3CDSENST00000271835ENST00000376007CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000376033CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000383455CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000383464CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000414956CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000416335CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000422962CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000428775CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000430737CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000432252CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000435971CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000439762CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000454306CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000458561CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000466607CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000468994CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000469577CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000470109CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000473169CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000484613CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000485195CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000547056CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000547457CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000547669CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000548373CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000549037CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000549383CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000549768CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000550109CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000550609CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000550674CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000551341CRNNchr1

152382401

-PRRC2Achr6

31604507

+
intron-intronENST00000271835ENST00000551794CRNNchr1

152382401

-PRRC2Achr6

31604507

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF 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.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for CRNN-PRRC2A


check buttonFusionAI 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.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution 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.

check buttonDistribution 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 CRNN-PRRC2A


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:152382401/:31604507)
- 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.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CRNN

Q9UBG3

.
FUNCTION: Promotes cell proliferation, G1/S cell cycle progression and induces expression of the cell cycle regulator CCND1 (PubMed:30009832). Regulates proliferation induced by proinflammatory cytokine response via activation of NFKB1 and PI3K/AKT signaling pathways (PubMed:30009832). {ECO:0000269|PubMed:30009832}.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}.

check buttonRetention 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.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for CRNN-PRRC2A


check button 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 CRNN-PRRC2A


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for CRNN-PRRC2A


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for CRNN-PRRC2A


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource