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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 20662

FusionGeneSummary for MALAT1_RPS6

check button Fusion gene summary
Fusion gene informationFusion gene name: MALAT1_RPS6
Fusion gene ID: 20662
HgeneTgene
Gene symbol

MALAT1

RPS6

Gene ID

378938

6194

Gene namemetastasis associated lung adenocarcinoma transcript 1ribosomal protein S6
SynonymsHCN|LINC00047|NCRNA00047|NEAT2|PRO2853S6
Cytomap

11q13.1

9p22.1

Type of genencRNAprotein-coding
Descriptionhepcarcinlong intergenic non-protein coding RNA 47metastasis associated lung adenocarcinoma transcript 1 (non-protein coding)nuclear enriched abundant transcript 2nuclear paraspeckle assembly transcript 2 (non-protein coding)40S ribosomal protein S6phosphoprotein NP33small ribosomal subunit protein eS6
Modification date2018052720180522
UniProtAcc

P62753

Ensembl transtripts involved in fusion geneENST00000534336, ENST00000380394, 
ENST00000498815, ENST00000380384, 
ENST00000315377, ENST00000380381, 
Fusion gene scores* DoF score83 X 128 X 5=531203 X 4 X 1=12
# samples 1415
** MAII scorelog2(141/53120*10)=-5.23548807894813
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(5/12*10)=2.05889368905357
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: MALAT1 [Title/Abstract] AND RPS6 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
TgeneRPS6

GO:0031929

TOR signaling

16428328

TgeneRPS6

GO:0043065

positive regulation of apoptotic process

18362888


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS3.1BF814212MALAT1chr11

65266525

-RPS6chr9

19379594

-
ChiTaRS3.1BF815926MALAT1chr11

65266525

-RPS6chr9

19379594

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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-3CDSENST00000534336ENST00000380394MALAT1chr11

65266525

-RPS6chr9

19379594

-
3UTR-intronENST00000534336ENST00000498815MALAT1chr11

65266525

-RPS6chr9

19379594

-
3UTR-5UTRENST00000534336ENST00000380384MALAT1chr11

65266525

-RPS6chr9

19379594

-
3UTR-5UTRENST00000534336ENST00000315377MALAT1chr11

65266525

-RPS6chr9

19379594

-
3UTR-5UTRENST00000534336ENST00000380381MALAT1chr11

65266525

-RPS6chr9

19379594

-

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FusionProtFeatures for MALAT1_RPS6


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
MALAT1

RPS6

P62753

Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. May play an important role in controlling cell growthand proliferation through the selective translation of particularclasses of mRNA.

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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FusionGeneSequence for MALAT1_RPS6


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for MALAT1_RPS6


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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RelatedDrugs for MALAT1_RPS6


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneRPS6P62753DB11638Artenimol40S ribosomal protein S6small moleculeapproved|investigational

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RelatedDiseases for MALAT1_RPS6


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneMALAT1C0023893Liver Cirrhosis, Experimental1CTD_human
HgeneMALAT1C0023903Liver neoplasms1CTD_human
HgeneMALAT1C0027626Neoplasm Invasiveness1CTD_human
HgeneMALAT1C0027627Neoplasm Metastasis1CTD_human
HgeneMALAT1C0032460Polycystic Ovary Syndrome1CTD_human
HgeneMALAT1C0236663Alcohol withdrawal syndrome1PSYGENET
HgeneMALAT1C0279626Squamous cell carcinoma of esophagus1CTD_human
TgeneRPS6C0038356Stomach Neoplasms1CTD_human
TgeneRPS6C1458155Mammary Neoplasms1CTD_human
TgeneRPS6C2239176Liver carcinoma1CTD_human