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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: 8278

FusionGeneSummary for CPNE4_MRPL3

check button Fusion gene summary
Fusion gene informationFusion gene name: CPNE4_MRPL3
Fusion gene ID: 8278
HgeneTgene
Gene symbol

CPNE4

MRPL3

Gene ID

131034

11222

Gene namecopine 4mitochondrial ribosomal protein L3
SynonymsCOPN4|CPN4COXPD9|MRL3|RPML3
Cytomap

3q22.1

3q22.1

Type of geneprotein-codingprotein-coding
Descriptioncopine-4copine 8copine IV39S ribosomal protein L3, mitochondrialL3mtMRP-L3mitochondrial 60S ribosomal protein L3mitochondrial large ribosomal subunit protein uL3m
Modification date2018052320180522
UniProtAcc

Q96A23

P09001

Ensembl transtripts involved in fusion geneENST00000512055, ENST00000429747, 
ENST00000512332, ENST00000511604, 
ENST00000502818, ENST00000503204, 
ENST00000264995, ENST00000425847, 
ENST00000506946, 
Fusion gene scores* DoF score7 X 6 X 2=841 X 2 X 1=2
# samples 82
** MAII scorelog2(8/84*10)=-0.070389327891398
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/2*10)=3.32192809488736
Context

PubMed: CPNE4 [Title/Abstract] AND MRPL3 [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
TCGALDPRADTCGA-G9-6364-01ACPNE4chr3

131753411

-MRPL3chr3

131219365

-
TCGALDPRADTCGA-HI-7171-01ACPNE4chr3

131753411

-MRPL3chr3

131220559

-
* 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
5UTR-3CDSENST00000512055ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-3CDSENST00000512055ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-intronENST00000512055ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-3CDSENST00000429747ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-3CDSENST00000429747ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-intronENST00000429747ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-3CDSENST00000512332ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-3CDSENST00000512332ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-intronENST00000512332ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-3CDSENST00000511604ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-3CDSENST00000511604ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-intronENST00000511604ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-3CDSENST00000502818ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-3CDSENST00000502818ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-intronENST00000502818ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-3CDSENST00000503204ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-3CDSENST00000503204ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131219365

-
intron-intronENST00000503204ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131219365

-
5UTR-3CDSENST00000512055ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-3CDSENST00000512055ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-intronENST00000512055ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-3CDSENST00000429747ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-3CDSENST00000429747ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-intronENST00000429747ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-3CDSENST00000512332ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-3CDSENST00000512332ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-intronENST00000512332ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-3CDSENST00000511604ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-3CDSENST00000511604ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131220559

-
5UTR-intronENST00000511604ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-3CDSENST00000502818ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-3CDSENST00000502818ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-intronENST00000502818ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-3CDSENST00000503204ENST00000264995CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-3CDSENST00000503204ENST00000425847CPNE4chr3

131753411

-MRPL3chr3

131220559

-
intron-intronENST00000503204ENST00000506946CPNE4chr3

131753411

-MRPL3chr3

131220559

-

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FusionProtFeatures for CPNE4_MRPL3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CPNE4

Q96A23

MRPL3

P09001

Probable calcium-dependent phospholipid-binding proteinthat may play a role in calcium-mediated intracellular processes.{ECO:0000250|UniProtKB:Q99829}.

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 CPNE4_MRPL3


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 CPNE4_MRPL3


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
CPNE4MCM2, HIST1H1A, EBF3, BAHCC1, CPNE6, RABEP2, RPS27A, RPL26L1, RGPD5, GTF3C2, UTRN, ANKRD49, WHSC1, SUPT5H, DHX30, PHOSPHO2, KIAA0020, RSL24D1, STAU1, NOP2, FTSJ3, RPL18A, RPL3MRPL3ICT1, CAND1, APP, MRPL9, MRPL4, MRPL12, MRPS9, MRPL39, MRPL23, MRPL13, MRPL17, MRPL10, MRPL46, MRPL42, MRPL55, MRPL52, MRPL19, MRPL41, RPS18, RPS15, NDUFS3, C1QBP, MRPS27, MRPL28, RPS8, HNRNPA1, MRPL37, MRPS30, MRPL47, NTRK1, MRPL15, MRPL18, RPS3, MRPL38, RPS14, RPS5, TUFM, CENPA, SCAF11, TIMM13, MRPL50, MRPL1, NAF1, FOXB1, FOXL2, FOXS1, RPL18, PPAN, MRPL35, CYLD, TRIM25


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 CPNE4_MRPL3


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 CPNE4_MRPL3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneMRPL3C3281234COMBINED OXIDATIVE PHOSPHORYLATION DEFICIENCY 91ORPHANET;UNIPROT