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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:BAG2-PRIM2 (FusionGDB2 ID:HG9532TG5558)

Fusion Gene Summary for BAG2-PRIM2

check button Fusion gene summary
Fusion gene informationFusion gene name: BAG2-PRIM2
Fusion gene ID: hg9532tg5558
HgeneTgene
Gene symbol

BAG2

PRIM2

Gene ID

9532

5558

Gene nameBAG cochaperone 2DNA primase subunit 2
SynonymsBAG-2|dJ417I1.2PRIM2A|p58
Cytomap('BAG2')('PRIM2')

6p12.1

6p11.2

Type of geneprotein-codingprotein-coding
DescriptionBAG family molecular chaperone regulator 2BCL2 associated athanogene 2bcl-2-associated athanogene 2dJ417I1.2 (BAG-family molecular chaperone regulator 2)DNA primase large subunitDNA primase 58 kDa subunitprimase (DNA) subunit 2primase, DNA, polypeptide 2 (58kDa)
Modification date2020032720200313
UniProtAcc

O95816

.
Ensembl transtripts involved in fusion geneENST00000370693, ENST00000545080, 
Fusion gene scores* DoF score4 X 3 X 5=6015 X 17 X 6=1530
# samples 523
** MAII scorelog2(5/60*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(23/1530*10)=-2.73382588663564
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: BAG2 [Title/Abstract] AND PRIM2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointBAG2(57046939)-PRIM2(57244698), # samples:1
BAG2(57046939)-PRIM2(57244699), # samples:1
BAG2(57037608)-PRIM2(57183235), # samples:1
Anticipated loss of major functional domain due to fusion event.BAG2-PRIM2 seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
BAG2-PRIM2 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
* 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
HgeneBAG2

GO:0019538

protein metabolic process

9873015

HgeneBAG2

GO:0031397

negative regulation of protein ubiquitination

24383081|25006867

HgeneBAG2

GO:0032091

negative regulation of protein binding

16207813

HgeneBAG2

GO:0050821

protein stabilization

16207813|24383081|25006867

HgeneBAG2

GO:1904667

negative regulation of ubiquitin protein ligase activity

16207813



check button Fusion gene information
* 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
ChimerDB4LUSCTCGA-37-A5ELBAG2chr6

57046939

+PRIM2chr6

57244698

+
ChimerDB4LUSCTCGA-37-A5ELBAG2chr6

57046939

+PRIM2chr6

57244699

+
ChimerDB4STADTCGA-BR-8364-01ABAG2chr6

57037608

+PRIM2chr6

57183235

+


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Fusion Gene ORF analysis for BAG2-PRIM2

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
5CDS-3UTRENST00000370693ENST00000389488BAG2chr6

57046939

+PRIM2chr6

57244698

+
5CDS-3UTRENST00000370693ENST00000389488BAG2chr6

57046939

+PRIM2chr6

57244699

+
5CDS-3UTRENST00000370693ENST00000389488BAG2chr6

57037608

+PRIM2chr6

57183235

+
5CDS-3UTRENST00000545080ENST00000389488BAG2chr6

57046939

+PRIM2chr6

57244698

+
5CDS-3UTRENST00000545080ENST00000389488BAG2chr6

57046939

+PRIM2chr6

57244699

+
5CDS-5UTRENST00000370693ENST00000607273BAG2chr6

57037608

+PRIM2chr6

57183235

+
Frame-shiftENST00000370693ENST00000607273BAG2chr6

57046939

+PRIM2chr6

57244698

+
Frame-shiftENST00000370693ENST00000607273BAG2chr6

57046939

+PRIM2chr6

57244699

+
Frame-shiftENST00000545080ENST00000607273BAG2chr6

57046939

+PRIM2chr6

57244698

+
Frame-shiftENST00000545080ENST00000607273BAG2chr6

57046939

+PRIM2chr6

57244699

+
intron-3UTRENST00000545080ENST00000389488BAG2chr6

57037608

+PRIM2chr6

57183235

+
intron-5UTRENST00000545080ENST00000607273BAG2chr6

57037608

+PRIM2chr6

57183235

+

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 BAG2-PRIM2


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)
BAG2chr657037608+PRIM2chr657183234+0.0490627140.95093733
BAG2chr657046939+PRIM2chr657244698+7.11E-060.99999285
BAG2chr657037608+PRIM2chr657183234+0.0490627140.95093733
BAG2chr657046939+PRIM2chr657244698+7.11E-060.99999285


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.
genomic feature of top 1%

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Fusion Protein Features for BAG2-PRIM2


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/:57046939/:57244698)
- 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
BAG2

O95816

.
FUNCTION: Co-chaperone for HSP70 and HSC70 chaperone proteins. Acts as a nucleotide-exchange factor (NEF) promoting the release of ADP from the HSP70 and HSC70 proteins thereby triggering client/substrate protein release (PubMed:24318877, PubMed:9873016). {ECO:0000269|PubMed:24318877, ECO:0000269|PubMed:9873016}.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 BAG2-PRIM2


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 BAG2-PRIM2


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 BAG2-PRIM2


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 BAG2-PRIM2


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