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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:RPL28-GAPDH (FusionGDB2 ID:75902)

Fusion Gene Summary for RPL28-GAPDH

check button Fusion gene summary
Fusion gene informationFusion gene name: RPL28-GAPDH
Fusion gene ID: 75902
HgeneTgene
Gene symbol

RPL28

GAPDH

Gene ID

6158

2597

Gene nameribosomal protein L28glyceraldehyde-3-phosphate dehydrogenase
SynonymsL28G3PD|GAPD|HEL-S-162eP
Cytomap

19q13.42

12p13.31

Type of geneprotein-codingprotein-coding
Description60S ribosomal protein L28large ribosomal subunit protein eL28glyceraldehyde-3-phosphate dehydrogenaseOCAS, p38 componentOct1 coactivator in S phase, 38 Kd componentaging-associated gene 9 proteinepididymis secretory sperm binding protein Li 162ePpeptidyl-cysteine S-nitrosylase GAPDH
Modification date2020031320200327
UniProtAcc.

P04406

Ensembl transtripts involved in fusion geneENST00000344063, ENST00000431533, 
ENST00000428193, ENST00000558815, 
ENST00000560583, ENST00000560055, 
ENST00000559463, ENST00000558131, 
ENST00000558752, ENST00000458349, 
ENST00000229239, ENST00000396856, 
ENST00000396861, ENST00000396859, 
ENST00000396858, 
Fusion gene scores* DoF score22 X 17 X 5=187027 X 29 X 8=6264
# samples 2431
** MAII scorelog2(24/1870*10)=-2.96193195916648
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(31/6264*10)=-4.3367440920168
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: RPL28 [Title/Abstract] AND GAPDH [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointRPL28(55899730)-GAPDH(6644002), # 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
TgeneGAPDH

GO:0010951

negative regulation of endopeptidase activity

22832495

TgeneGAPDH

GO:0017148

negative regulation of translation

23071094

TgeneGAPDH

GO:0031640

killing of cells of other organism

22832495

TgeneGAPDH

GO:0050715

positive regulation of cytokine secretion

22832495

TgeneGAPDH

GO:0050832

defense response to fungus

22832495

TgeneGAPDH

GO:0051873

killing by host of symbiont cells

22832495

TgeneGAPDH

GO:0052501

positive regulation by organism of apoptotic process in other organism involved in symbiotic interaction

22832495

TgeneGAPDH

GO:0061844

antimicrobial humoral immune response mediated by antimicrobial peptide

22832495

TgeneGAPDH

GO:0071346

cellular response to interferon-gamma

15479637


check buttonFusion gene breakpoints across RPL28 (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 GAPDH (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/AAW498880RPL28chr19

55899730

+GAPDHchr12

6644002

+


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Fusion Gene ORF analysis for RPL28-GAPDH

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
3UTR-3CDSENST00000344063ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000344063ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000344063ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000344063ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-intronENST00000344063ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-3CDSENST00000431533ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000431533ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000431533ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000431533ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-intronENST00000431533ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-3CDSENST00000428193ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000428193ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000428193ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000428193ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-intronENST00000428193ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-3CDSENST00000558815ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000558815ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000558815ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000558815ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-intronENST00000558815ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-3CDSENST00000560583ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000560583ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000560583ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000560583ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-intronENST00000560583ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-3CDSENST00000560055ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000560055ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000560055ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000560055ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-intronENST00000560055ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-3CDSENST00000559463ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000559463ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000559463ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000559463ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-intronENST00000559463ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-3CDSENST00000558131ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000558131ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000558131ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-5UTRENST00000558131ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
3UTR-intronENST00000558131ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-3CDSENST00000558752ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000558752ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000558752ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000558752ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-intronENST00000558752ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-3CDSENST00000458349ENST00000229239RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000458349ENST00000396856RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000458349ENST00000396861RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-5UTRENST00000458349ENST00000396859RPL28chr19

55899730

+GAPDHchr12

6644002

+
intron-intronENST00000458349ENST00000396858RPL28chr19

55899730

+GAPDHchr12

6644002

+

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 RPL28-GAPDH


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 RPL28-GAPDH


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
.GAPDH

P04406

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.FUNCTION: Has both glyceraldehyde-3-phosphate dehydrogenase and nitrosylase activities, thereby playing a role in glycolysis and nuclear functions, respectively. Participates in nuclear events including transcription, RNA transport, DNA replication and apoptosis. Nuclear functions are probably due to the nitrosylase activity that mediates cysteine S-nitrosylation of nuclear target proteins such as SIRT1, HDAC2 and PRKDC. Modulates the organization and assembly of the cytoskeleton. Facilitates the CHP1-dependent microtubule and membrane associations through its ability to stimulate the binding of CHP1 to microtubules (By similarity). Glyceraldehyde-3-phosphate dehydrogenase is a key enzyme in glycolysis that catalyzes the first step of the pathway by converting D-glyceraldehyde 3-phosphate (G3P) into 3-phospho-D-glyceroyl phosphate. Component of the GAIT (gamma interferon-activated inhibitor of translation) complex which mediates interferon-gamma-induced transcript-selective translation inhibition in inflammation processes. Upon interferon-gamma treatment assembles into the GAIT complex which binds to stem loop-containing GAIT elements in the 3'-UTR of diverse inflammatory mRNAs (such as ceruplasmin) and suppresses their translation. {ECO:0000250, ECO:0000269|PubMed:11724794, ECO:0000269|PubMed:23071094, ECO:0000269|PubMed:3170585}.

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 RPL28-GAPDH


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 RPL28-GAPDH


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 RPL28-GAPDH


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneGAPDHP04406DB09130CopperSmall moleculeApproved|Investigational
TgeneGAPDHP04406DB09130CopperSmall moleculeApproved|Investigational
TgeneGAPDHP04406DB09130CopperSmall moleculeApproved|Investigational
TgeneGAPDHP04406DB09130CopperSmall moleculeApproved|Investigational
TgeneGAPDHP04406DB00157NADHSmall moleculeApproved|Nutraceutical
TgeneGAPDHP04406DB00157NADHSmall moleculeApproved|Nutraceutical
TgeneGAPDHP04406DB00157NADHSmall moleculeApproved|Nutraceutical
TgeneGAPDHP04406DB00157NADHSmall moleculeApproved|Nutraceutical
TgeneGAPDHP04406DB09092XanthinolCofactorSmall moleculeApproved|Withdrawn
TgeneGAPDHP04406DB09092XanthinolCofactorSmall moleculeApproved|Withdrawn
TgeneGAPDHP04406DB09092XanthinolCofactorSmall moleculeApproved|Withdrawn
TgeneGAPDHP04406DB09092XanthinolCofactorSmall moleculeApproved|Withdrawn

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Related Diseases for RPL28-GAPDH


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneRPL28C0043094Weight Gain1CTD_human
TgeneGAPDHC2239176Liver carcinoma2CTD_human
TgeneGAPDHC0001787Osteoporosis, Age-Related1CTD_human
TgeneGAPDHC0001973Alcoholic Intoxication, Chronic1PSYGENET
TgeneGAPDHC0003129Anoxemia1CTD_human
TgeneGAPDHC0003130Anoxia1CTD_human
TgeneGAPDHC0007137Squamous cell carcinoma1CTD_human
TgeneGAPDHC0009402Colorectal Carcinoma1CTD_human
TgeneGAPDHC0009404Colorectal Neoplasms1CTD_human
TgeneGAPDHC0014859Esophageal Neoplasms1CTD_human
TgeneGAPDHC0026640Mouth Neoplasms1CTD_human
TgeneGAPDHC0027540Necrosis1CTD_human
TgeneGAPDHC0029408Degenerative polyarthritis1CTD_human
TgeneGAPDHC0029456Osteoporosis1CTD_human
TgeneGAPDHC0029459Osteoporosis, Senile1CTD_human
TgeneGAPDHC0086743Osteoarthrosis Deformans1CTD_human
TgeneGAPDHC0152013Adenocarcinoma of lung (disorder)1CTD_human
TgeneGAPDHC0153381Malignant neoplasm of mouth1CTD_human
TgeneGAPDHC0242184Hypoxia1CTD_human
TgeneGAPDHC0546837Malignant neoplasm of esophagus1CTD_human
TgeneGAPDHC0700292Hypoxemia1CTD_human
TgeneGAPDHC0751406Post-Traumatic Osteoporosis1CTD_human
TgeneGAPDHC0948089Acute Coronary Syndrome1CTD_human