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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: 31792

FusionGeneSummary for RPL13_MALAT1

check button Fusion gene summary
Fusion gene informationFusion gene name: RPL13_MALAT1
Fusion gene ID: 31792
HgeneTgene
Gene symbol

RPL13

MALAT1

Gene ID

28998

378938

Gene namemitochondrial ribosomal protein L13metastasis associated lung adenocarcinoma transcript 1
SynonymsL13|L13A|L13mt|RPL13|RPML13HCN|LINC00047|NCRNA00047|NEAT2|PRO2853
Cytomap

8q24.12

11q13.1

Type of geneprotein-codingncRNA
Description39S ribosomal protein L13, mitochondrialMRP-L13mitochondrial large ribosomal subunit protein uL13mhepcarcinlong 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)
Modification date2018052320180527
UniProtAcc

P26373

Ensembl transtripts involved in fusion geneENST00000311528, ENST00000567815, 
ENST00000452368, ENST00000393099, 
ENST00000534336, 
Fusion gene scores* DoF score6 X 7 X 2=8471 X 110 X 1=7810
# samples 7126
** MAII scorelog2(7/84*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(126/7810*10)=-2.63189881464206
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: RPL13 [Title/Abstract] AND MALAT1 [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

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
ChiTaRS3.1AA063629RPL13chr16

89629402

-MALAT1chr11

65268002

-
* 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
5CDS-3UTRENST00000311528ENST00000534336RPL13chr16

89629402

-MALAT1chr11

65268002

-
5CDS-3UTRENST00000567815ENST00000534336RPL13chr16

89629402

-MALAT1chr11

65268002

-
5CDS-3UTRENST00000452368ENST00000534336RPL13chr16

89629402

-MALAT1chr11

65268002

-
5CDS-3UTRENST00000393099ENST00000534336RPL13chr16

89629402

-MALAT1chr11

65268002

-

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FusionProtFeatures for RPL13_MALAT1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
RPL13

P26373

MALAT1

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}.

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 RPL13_MALAT1


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 RPL13_MALAT1


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 RPL13_MALAT1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for RPL13_MALAT1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneRPL13C0038356Stomach Neoplasms1CTD_human
TgeneMALAT1C0023893Liver Cirrhosis, Experimental1CTD_human
TgeneMALAT1C0023903Liver neoplasms1CTD_human
TgeneMALAT1C0027626Neoplasm Invasiveness1CTD_human
TgeneMALAT1C0027627Neoplasm Metastasis1CTD_human
TgeneMALAT1C0032460Polycystic Ovary Syndrome1CTD_human
TgeneMALAT1C0236663Alcohol withdrawal syndrome1PSYGENET
TgeneMALAT1C0279626Squamous cell carcinoma of esophagus1CTD_human