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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:LRPPRC-GPD2 (FusionGDB2 ID:HG10128TG2820)

Fusion Gene Summary for LRPPRC-GPD2

check button Fusion gene summary
Fusion gene informationFusion gene name: LRPPRC-GPD2
Fusion gene ID: hg10128tg2820
HgeneTgene
Gene symbol

LRPPRC

GPD2

Gene ID

10128

2820

Gene nameleucine rich pentatricopeptide repeat containingglycerol-3-phosphate dehydrogenase 2
SynonymsCLONE-23970|GP130|LRP130|LSFCGDH2|GPDM|mGPDH
Cytomap('LRPPRC')('GPD2')

2p21

2q24.1

Type of geneprotein-codingprotein-coding
Descriptionleucine-rich PPR motif-containing protein, mitochondrial130 kDa leucine-rich proteinLRP 130leucine-rich PPR-motif containingmitochondrial leucine-rich PPR motif-containing proteinglycerol-3-phosphate dehydrogenase, mitochondrialGPD-MGPDH-Mglycerol-3-phosphate dehydrogenase 2 (mitochondrial)mitochondrial glycerophosphate dehydrogenasemtGPDtesticular tissue protein Li 76
Modification date2020032920200313
UniProtAcc.

P43304

Ensembl transtripts involved in fusion geneENST00000260665, ENST00000409659, 
ENST00000409946, 
Fusion gene scores* DoF score13 X 12 X 6=9364 X 4 X 3=48
# samples 145
** MAII scorelog2(14/936*10)=-2.74108170263844
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/48*10)=0.0588936890535686
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: LRPPRC [Title/Abstract] AND GPD2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointLRPPRC(44115789)-GPD2(157375968), # 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 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/AN67395LRPPRCchr2

44115789

+GPD2chr2

157375968

+


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Fusion Gene ORF analysis for LRPPRC-GPD2

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-intronENST00000260665ENST00000310454LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000260665ENST00000409125LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000260665ENST00000409674LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000260665ENST00000438166LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000260665ENST00000496190LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000260665ENST00000540309LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409659ENST00000310454LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409659ENST00000409125LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409659ENST00000409674LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409659ENST00000438166LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409659ENST00000496190LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409659ENST00000540309LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409946ENST00000310454LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409946ENST00000409125LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409946ENST00000409674LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409946ENST00000438166LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409946ENST00000496190LRPPRCchr2

44115789

+GPD2chr2

157375968

+
intron-intronENST00000409946ENST00000540309LRPPRCchr2

44115789

+GPD2chr2

157375968

+

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 LRPPRC-GPD2


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)


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Fusion Protein Features for LRPPRC-GPD2


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/:44115789/:157375968)
- 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
.GPD2

P43304

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: Calcium-responsive mitochondrial glycerol-3-phosphate dehydrogenase which seems to be a key component of the pancreatic beta-cell glucose-sensing device. {ECO:0000269|PubMed:9070847}.

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 LRPPRC-GPD2


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 LRPPRC-GPD2


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 LRPPRC-GPD2


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 LRPPRC-GPD2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLRPPRCC0023264Leigh Disease8CLINGEN
HgeneLRPPRCC1838951LEIGH SYNDROME DUE TO MITOCHONDRIAL COMPLEX I DEFICIENCY8CLINGEN
HgeneLRPPRCC1850597Leigh Syndrome Due To Mitochondrial Complex II Deficiency8CLINGEN
HgeneLRPPRCC1850598Leigh Syndrome due to Mitochondrial Complex III Deficiency8CLINGEN
HgeneLRPPRCC1850599Leigh Syndrome due to Mitochondrial Complex IV Deficiency8CLINGEN
HgeneLRPPRCC1850600Leigh Syndrome due to Mitochondrial Complex V Deficiency8CLINGEN
HgeneLRPPRCC2931891Necrotizing encephalopathy, infantile subacute, of Leigh8CLINGEN
HgeneLRPPRCC1857355Leigh syndrome , French Canadian type4CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneLRPPRCC0751651Mitochondrial Diseases1GENOMICS_ENGLAND
TgeneC0001787Osteoporosis, Age-Related1CTD_human
TgeneC0002152Alloxan Diabetes1CTD_human
TgeneC0011853Diabetes Mellitus, Experimental1CTD_human
TgeneC0011860Diabetes Mellitus, Non-Insulin-Dependent1CTD_human
TgeneC0029456Osteoporosis1CTD_human
TgeneC0029459Osteoporosis, Senile1CTD_human
TgeneC0038433Streptozotocin Diabetes1CTD_human
TgeneC0268583Methylmalonic acidemia1CTD_human
TgeneC0751406Post-Traumatic Osteoporosis1CTD_human
TgeneC1855119Methylmalonic aciduria1CTD_human