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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: 19911

FusionGeneSummary for LMO4_RGS3

check button Fusion gene summary
Fusion gene informationFusion gene name: LMO4_RGS3
Fusion gene ID: 19911
HgeneTgene
Gene symbol

LMO4

RGS3

Gene ID

8543

5998

Gene nameLIM domain only 4regulator of G protein signaling 3
Synonyms-C2PA|RGP3
Cytomap

1p22.3

9q32

Type of geneprotein-codingprotein-coding
DescriptionLIM domain transcription factor LMO4LIM domain only protein 4LIM-only 4 proteinLMO-4breast tumor autoantigenregulator of G-protein signaling 3regulator of G-protein signalling 3
Modification date2018051920180519
UniProtAcc

P61968

P49796

Ensembl transtripts involved in fusion geneENST00000370544, ENST00000370542, 
ENST00000489303, 
ENST00000374140, 
ENST00000350696, ENST00000317613, 
ENST00000343817, ENST00000394646, 
ENST00000374136, ENST00000462143, 
ENST00000463806, ENST00000342620, 
ENST00000374134, ENST00000462403, 
Fusion gene scores* DoF score3 X 3 X 1=94 X 4 X 2=32
# samples 34
** MAII scorelog2(3/9*10)=1.73696559416621
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(4/32*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: LMO4 [Title/Abstract] AND RGS3 [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
ChiTaRS3.1T07447LMO4chr1

87813373

-RGS3chr9

116275846

-
* 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-intronENST00000370544ENST00000374140LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000350696LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000317613LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000343817LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000394646LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000374136LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000462143LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000463806LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000342620LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000374134LMO4chr1

87813373

-RGS3chr9

116275846

-
3UTR-intronENST00000370544ENST00000462403LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000374140LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000350696LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000317613LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000343817LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000394646LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000374136LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000462143LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000463806LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000342620LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000374134LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000370542ENST00000462403LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000374140LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000350696LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000317613LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000343817LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000394646LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000374136LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000462143LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000463806LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000342620LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000374134LMO4chr1

87813373

-RGS3chr9

116275846

-
intron-intronENST00000489303ENST00000462403LMO4chr1

87813373

-RGS3chr9

116275846

-

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FusionProtFeatures for LMO4_RGS3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LMO4

P61968

RGS3

P49796

Probable transcriptional factor. {ECO:0000250}.

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 LMO4_RGS3


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 LMO4_RGS3


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 LMO4_RGS3


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 LMO4_RGS3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneRGS3C0023893Liver Cirrhosis, Experimental1CTD_human