FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact
Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:RPL36-MSLN (FusionGDB2 ID:76159)

Fusion Gene Summary for RPL36-MSLN

check button Fusion gene summary
Fusion gene informationFusion gene name: RPL36-MSLN
Fusion gene ID: 76159
HgeneTgene
Gene symbol

RPL36

MSLN

Gene ID

25873

10232

Gene nameribosomal protein L36mesothelin
SynonymsL36MPF|SMRP
Cytomap

19p13.3

16p13.3

Type of geneprotein-codingprotein-coding
Description60S ribosomal protein L36large ribosomal subunit protein eL36mesothelinCAK1 antigenmegakaryocyte potentiating factorpre-pro-megakaryocyte-potentiating factorsoluble MPF mesothelin related protein
Modification date2020031320200329
UniProtAcc.

Q13421

Ensembl transtripts involved in fusion geneENST00000579649, ENST00000582380, 
ENST00000577222, ENST00000347512, 
ENST00000579446, ENST00000394580, 
ENST00000563941, ENST00000545450, 
ENST00000566549, ENST00000382862, 
Fusion gene scores* DoF score20 X 9 X 5=9002 X 2 X 2=8
# samples 212
** MAII scorelog2(21/900*10)=-2.09953567355091
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(2/8*10)=1.32192809488736
Context

PubMed: RPL36 [Title/Abstract] AND MSLN [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointRPL36(5691464)-MSLN(817375), # samples:1
Anticipated loss of major functional domain due to fusion event.RPL36-MSLN seems lost the major protein functional domain in Hgene partner, which is a cell metabolism 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
HgeneRPL36

GO:0002181

cytoplasmic translation

25957688


check buttonFusion gene breakpoints across RPL36 (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 MSLN (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
ChimerDB4OVTCGA-13-1497RPL36chr19

5691464

+MSLNchr16

817375

+


Top

Fusion Gene ORF analysis for RPL36-MSLN

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
Frame-shiftENST00000579649ENST00000563941RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000579649ENST00000545450RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000579649ENST00000566549RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000579649ENST00000382862RPL36chr19

5691464

+MSLNchr16

817375

+
intron-3CDSENST00000582380ENST00000563941RPL36chr19

5691464

+MSLNchr16

817375

+
intron-3CDSENST00000582380ENST00000545450RPL36chr19

5691464

+MSLNchr16

817375

+
intron-3CDSENST00000582380ENST00000566549RPL36chr19

5691464

+MSLNchr16

817375

+
intron-3CDSENST00000582380ENST00000382862RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000577222ENST00000563941RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000577222ENST00000545450RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000577222ENST00000566549RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000577222ENST00000382862RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000347512ENST00000563941RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000347512ENST00000545450RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000347512ENST00000566549RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000347512ENST00000382862RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000579446ENST00000563941RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000579446ENST00000545450RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000579446ENST00000566549RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000579446ENST00000382862RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000394580ENST00000563941RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000394580ENST00000545450RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000394580ENST00000566549RPL36chr19

5691464

+MSLNchr16

817375

+
Frame-shiftENST00000394580ENST00000382862RPL36chr19

5691464

+MSLNchr16

817375

+

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

Top

Fusion Genomic Features for RPL36-MSLN


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)
RPL36chr195691464+MSLNchr16817375+0.88528040.114719585
RPL36chr195691464+MSLNchr16817375+0.88528040.114719585

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.

Top

Fusion Protein Features for RPL36-MSLN


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
.MSLN

Q13421

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: Membrane-anchored forms may play a role in cellular adhesion.; FUNCTION: Megakaryocyte-potentiating factor (MPF) potentiates megakaryocyte colony formation in vitro.

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


Top

Fusion Gene Sequence for RPL36-MSLN


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.

Top

Fusion Gene PPI Analysis for RPL36-MSLN


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


Top

Related Drugs for RPL36-MSLN


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

Top

Related Diseases for RPL36-MSLN


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneRPL36C1260899Anemia, Diamond-Blackfan1GENOMICS_ENGLAND
TgeneMSLNC0025500Mesothelioma3CTD_human
TgeneMSLNC0887833Carcinoma, Pancreatic Ductal3CTD_human
TgeneMSLNC0345967Malignant mesothelioma2CTD_human
TgeneMSLNC3714739Mesothelial Neoplasms2CTD_human
TgeneMSLNC0001418Adenocarcinoma1CTD_human
TgeneMSLNC0006826Malignant Neoplasms1CTD_human
TgeneMSLNC0024232Lymphatic Metastasis1CTD_human
TgeneMSLNC0024623Malignant neoplasm of stomach1CTD_human
TgeneMSLNC0027651Neoplasms1CTD_human
TgeneMSLNC0030297Pancreatic Neoplasm1CTD_human
TgeneMSLNC0032226Pleural Diseases1CTD_human
TgeneMSLNC0038356Stomach Neoplasms1CTD_human
TgeneMSLNC0086692Benign Neoplasm1CTD_human
TgeneMSLNC0205641Adenocarcinoma, Basal Cell1CTD_human
TgeneMSLNC0205642Adenocarcinoma, Oxyphilic1CTD_human
TgeneMSLNC0205643Carcinoma, Cribriform1CTD_human
TgeneMSLNC0205644Carcinoma, Granular Cell1CTD_human
TgeneMSLNC0205645Adenocarcinoma, Tubular1CTD_human
TgeneMSLNC0206687Carcinoma, Endometrioid1CTD_human
TgeneMSLNC0206698Cholangiocarcinoma1CTD_human
TgeneMSLNC0345905Intrahepatic Cholangiocarcinoma1CTD_human
TgeneMSLNC0346647Malignant neoplasm of pancreas1CTD_human
TgeneMSLNC0919267ovarian neoplasm1CTD_human
TgeneMSLNC1140680Malignant neoplasm of ovary1CTD_human
TgeneMSLNC1569637Adenocarcinoma, Endometrioid1CTD_human
TgeneMSLNC1708349Hereditary Diffuse Gastric Cancer1CTD_human
TgeneMSLNC3805278Extrahepatic Cholangiocarcinoma1CTD_human