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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:APLP2-PRRC2C (FusionGDB2 ID:5566)

Fusion Gene Summary for APLP2-PRRC2C

check button Fusion gene summary
Fusion gene informationFusion gene name: APLP2-PRRC2C
Fusion gene ID: 5566
HgeneTgene
Gene symbol

APLP2

PRRC2C

Gene ID

334

23215

Gene nameamyloid beta precursor like protein 2proline rich coiled-coil 2C
SynonymsAPLP-2|APPH|APPL2|CDEBPBAT2-iso|BAT2D1|BAT2L2|XTP2
Cytomap

11q24.3

1q24.3

Type of geneprotein-codingprotein-coding
Descriptionamyloid-like protein 2CDEI box-binding proteinamyloid beta (A4) precursor-like protein 2amyloid precursor protein homolog HSD-2testicular tissue protein Li 23protein PRRC2CBAT2 domain containing 1BAT2 domain-containing protein 1HBV X-transactivated gene 2 proteinHBV XAg-transactivated protein 2HBxAg transactivated protein 2HLA-B-associated transcript 2-like 2proline-rich and coiled-coil-containing prote
Modification date2020031320200313
UniProtAcc

Q06481

.
Ensembl transtripts involved in fusion geneENST00000532456, ENST00000539648, 
ENST00000528499, ENST00000263574, 
ENST00000345598, ENST00000338167, 
ENST00000278756, ENST00000543137, 
ENST00000426496, ENST00000392078, 
ENST00000476522, ENST00000367742, 
ENST00000338920, 
Fusion gene scores* DoF score32 X 25 X 10=800019 X 25 X 7=3325
# samples 3625
** MAII scorelog2(36/8000*10)=-4.47393118833241
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(25/3325*10)=-3.73335434061383
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: APLP2 [Title/Abstract] AND PRRC2C [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointAPLP2(130014501)-PRRC2C(171501915), # 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

check buttonFusion gene breakpoints across APLP2 (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 PRRC2C (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
ChiTaRS5.0N/ABM752864APLP2chr11

130014501

+PRRC2Cchr1

171501915

+


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Fusion Gene ORF analysis for APLP2-PRRC2C

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-3CDSENST00000532456ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000532456ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000532456ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000532456ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000532456ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000539648ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000539648ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000539648ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000539648ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000539648ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000528499ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000528499ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000528499ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000528499ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000528499ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3CDSENST00000263574ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3CDSENST00000263574ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000263574ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000263574ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000263574ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000345598ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000345598ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000345598ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000345598ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000345598ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000338167ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3CDSENST00000338167ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000338167ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000338167ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
intron-3UTRENST00000338167ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3CDSENST00000278756ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3CDSENST00000278756ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000278756ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000278756ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000278756ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3CDSENST00000543137ENST00000426496APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3CDSENST00000543137ENST00000392078APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000543137ENST00000476522APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000543137ENST00000367742APLP2chr11

130014501

+PRRC2Cchr1

171501915

+
3UTR-3UTRENST00000543137ENST00000338920APLP2chr11

130014501

+PRRC2Cchr1

171501915

+

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 APLP2-PRRC2C


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 APLP2-PRRC2C


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
APLP2

Q06481

.
FUNCTION: May play a role in the regulation of hemostasis. The soluble form may have inhibitory properties towards coagulation factors. May interact with cellular G-protein signaling pathways. May bind to the DNA 5'-GTCACATG-3'(CDEI box). Inhibits trypsin, chymotrypsin, plasmin, factor XIA and plasma and glandular kallikrein. Modulates the Cu/Zn nitric oxide-catalyzed autodegradation of GPC1 heparan sulfate side chains in fibroblasts (By similarity). {ECO:0000250, ECO:0000269|PubMed:8307156}.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.

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 APLP2-PRRC2C


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 APLP2-PRRC2C


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 APLP2-PRRC2C


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneAPLP2Q06481DB14548Zinc sulfate, unspecified formLigandSmall moleculeApproved|Experimental
HgeneAPLP2Q06481DB14548Zinc sulfate, unspecified formLigandSmall moleculeApproved|Experimental
HgeneAPLP2Q06481DB01593ZincCofactorSmall moleculeApproved|Investigational
HgeneAPLP2Q06481DB01593ZincCofactorSmall moleculeApproved|Investigational
HgeneAPLP2Q06481DB14487Zinc acetateSmall moleculeApproved|Investigational
HgeneAPLP2Q06481DB14487Zinc acetateSmall moleculeApproved|Investigational
HgeneAPLP2Q06481DB14533Zinc chlorideLigandSmall moleculeApproved|Investigational
HgeneAPLP2Q06481DB14533Zinc chlorideLigandSmall moleculeApproved|Investigational

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Related Diseases for APLP2-PRRC2C


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneAPLP2C0027746Nerve Degeneration1CTD_human
HgeneAPLP2C0151744Myocardial Ischemia1CTD_human