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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: 19698

FusionGeneSummary for LIFR_BCAS3

check button Fusion gene summary
Fusion gene informationFusion gene name: LIFR_BCAS3
Fusion gene ID: 19698
HgeneTgene
Gene symbol

LIFR

BCAS3

Gene ID

3977

54828

Gene nameLIF receptor alphaBCAS3, microtubule associated cell migration factor
SynonymsCD118|LIF-R|SJS2|STWS|SWSGAOB1|MAAB
Cytomap

5p13.1

17q23.2

Type of geneprotein-codingprotein-coding
Descriptionleukemia inhibitory factor receptorCD118 antigenLIF receptorleukemia inhibitory factor receptor alphabreast carcinoma-amplified sequence 3BCAS4/BCAS3 fusionRudhirabreast carcinoma amplified sequence 4/3 fusion proteinmetastasis associated antigen of breast cancerprotein Maab1
Modification date2018052320180523
UniProtAcc

P42702

Q9H6U6

Ensembl transtripts involved in fusion geneENST00000263409, ENST00000453190, 
ENST00000503088, 
ENST00000589222, 
ENST00000407086, ENST00000390652, 
ENST00000408905, ENST00000588462, 
ENST00000585744, ENST00000588874, 
ENST00000585812, 
Fusion gene scores* DoF score5 X 5 X 5=12526 X 15 X 15=5850
# samples 541
** MAII scorelog2(5/125*10)=-1.32192809488736
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(41/5850*10)=-3.83474080985268
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LIFR [Title/Abstract] AND BCAS3 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationTumor suppressor gene involved fusion gene, retained protein feature but frameshift.
DDR (DNA damage repair) gene involved fusion gene, in-frame but not retained their domain.
* 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
HgeneLIFR

GO:0008284

positive regulation of cell proliferation

7957045|8999038

HgeneLIFR

GO:0019221

cytokine-mediated signaling pathway

7957045

HgeneLIFR

GO:0034097

response to cytokine

8999038

HgeneLIFR

GO:0048861

leukemia inhibitory factor signaling pathway

8999038|12643274

HgeneLIFR

GO:0070120

ciliary neurotrophic factor-mediated signaling pathway

12643274

TgeneBCAS3

GO:0043085

positive regulation of catalytic activity

17505058

TgeneBCAS3

GO:0045944

positive regulation of transcription by RNA polymerase II

17505058

TgeneBCAS3

GO:0071391

cellular response to estrogen stimulus

17505058


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
TCGARVLUSCTCGA-68-8250-01ALIFRchr5

38496484

-BCAS3chr17

59445688

+
* 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
Frame-shitENST00000263409ENST00000589222LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000263409ENST00000407086LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000263409ENST00000390652LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000263409ENST00000408905LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000263409ENST00000588462LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000263409ENST00000585744LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000263409ENST00000588874LIFRchr5

38496484

-BCAS3chr17

59445688

+
5CDS-3UTRENST00000263409ENST00000585812LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000453190ENST00000589222LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000453190ENST00000407086LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000453190ENST00000390652LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000453190ENST00000408905LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000453190ENST00000588462LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000453190ENST00000585744LIFRchr5

38496484

-BCAS3chr17

59445688

+
Frame-shitENST00000453190ENST00000588874LIFRchr5

38496484

-BCAS3chr17

59445688

+
5CDS-3UTRENST00000453190ENST00000585812LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3CDSENST00000503088ENST00000589222LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3CDSENST00000503088ENST00000407086LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3CDSENST00000503088ENST00000390652LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3CDSENST00000503088ENST00000408905LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3CDSENST00000503088ENST00000588462LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3CDSENST00000503088ENST00000585744LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3CDSENST00000503088ENST00000588874LIFRchr5

38496484

-BCAS3chr17

59445688

+
5UTR-3UTRENST00000503088ENST00000585812LIFRchr5

38496484

-BCAS3chr17

59445688

+

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FusionProtFeatures for LIFR_BCAS3


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

P42702

BCAS3

Q9H6U6

Signal-transducing molecule. May have a common pathwaywith IL6ST. The soluble form inhibits the biological activity ofLIF by blocking its binding to receptors on target cells.

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 LIFR_BCAS3


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 LIFR_BCAS3


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
LIFRCNTFR, LIF, OSM, IL6ST, PTPN6, FBXO6, PRPF4, BAG3, GOLT1B, SCGB1D1, DEFA1, FAM19A4, SLAMF1, TRIM25BCAS3CTBP1, CTBP2, CDC23, C16orf70, ZDHHC17, ESR1, PELP1, HIST1H3A, KAT2B, WIPI2, ATM, BAG4, CCND1, FBXW7, KRAS, PALB2, PHB, PTPN1, SMAD4, STK11, TGFB1, TSG101, XRCC3, OFD1, CEP128, FBF1, NPHP1, SCLT1, XPO1, CD14, HDAC1, IRF3, MAGEE1, IL17RA, DOCK5, VWA5A, RAB2B


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 LIFR_BCAS3


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 LIFR_BCAS3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLIFRC0796176STUVE-WIEDEMANN SYNDROME2CTD_human;ORPHANET;UNIPROT
HgeneLIFRC0032460Polycystic Ovary Syndrome1CTD_human
HgeneLIFRC0033578Prostatic Neoplasms1CTD_human
HgeneLIFRC0036341Schizophrenia1PSYGENET
HgeneLIFRC0349398Paranoid delusion1PSYGENET