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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: 12985

FusionGeneSummary for FAT1_NTRK3

check button Fusion gene summary
Fusion gene informationFusion gene name: FAT1_NTRK3
Fusion gene ID: 12985
HgeneTgene
Gene symbol

FAT1

NTRK3

Gene ID

2195

4916

Gene nameFAT atypical cadherin 1neurotrophic receptor tyrosine kinase 3
SynonymsCDHF7|CDHR8|FAT|ME5|hFat1GP145-TrkC|TRKC|gp145(trkC)
Cytomap

4q35.2

15q25.3

Type of geneprotein-codingprotein-coding
Descriptionprotocadherin Fat 1FAT tumor suppressor 1cadherin ME5cadherin family member 7cadherin-related family member 8cadherin-related tumor suppressor homologprotein fat homologNT-3 growth factor receptorETS related protein-neurotrophic receptor tyrosine kinase fusion proteinETV6-NTRK3 fusionneurotrophic tyrosine kinase, receptor, type 3tyrosine kinase receptor C
Modification date2018051920180523
UniProtAcc

Q14517

Q16288

Ensembl transtripts involved in fusion geneENST00000441802, ENST00000512347, 
ENST00000394480, ENST00000557856, 
ENST00000357724, ENST00000355254, 
ENST00000360948, ENST00000542733, 
ENST00000558676, ENST00000317501, 
ENST00000558306, ENST00000540489, 
Fusion gene scores* DoF score10 X 10 X 7=7009 X 7 X 9=567
# samples 1320
** MAII scorelog2(13/700*10)=-2.42884329880387
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(20/567*10)=-1.5033487351675
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: FAT1 [Title/Abstract] AND NTRK3 [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
TgeneNTRK3

GO:0000187

activation of MAPK activity

23027130

TgeneNTRK3

GO:0001933

negative regulation of protein phosphorylation

23027130

TgeneNTRK3

GO:0007169

transmembrane receptor protein tyrosine kinase signaling pathway

23027130

TgeneNTRK3

GO:0008284

positive regulation of cell proliferation

23027130

TgeneNTRK3

GO:0010628

positive regulation of gene expression

23027130

TgeneNTRK3

GO:0030335

positive regulation of cell migration

23027130

TgeneNTRK3

GO:0032148

activation of protein kinase B activity

23027130

TgeneNTRK3

GO:0033138

positive regulation of peptidyl-serine phosphorylation

23027130

TgeneNTRK3

GO:0050927

positive regulation of positive chemotaxis

23027130

TgeneNTRK3

GO:0090630

activation of GTPase activity

23027130

TgeneNTRK3

GO:2000251

positive regulation of actin cytoskeleton reorganization

23027130


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
TCGARVCESCTCGA-HM-A3JK-01AFAT1chr4

187627717

-NTRK3chr15

88680792

-
* 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-shiftENST00000441802ENST00000394480FAT1chr4

187627717

-NTRK3chr15

88680792

-
Frame-shiftENST00000441802ENST00000557856FAT1chr4

187627717

-NTRK3chr15

88680792

-
Frame-shiftENST00000441802ENST00000357724FAT1chr4

187627717

-NTRK3chr15

88680792

-
Frame-shiftENST00000441802ENST00000355254FAT1chr4

187627717

-NTRK3chr15

88680792

-
Frame-shiftENST00000441802ENST00000360948FAT1chr4

187627717

-NTRK3chr15

88680792

-
Frame-shiftENST00000441802ENST00000542733FAT1chr4

187627717

-NTRK3chr15

88680792

-
Frame-shiftENST00000441802ENST00000558676FAT1chr4

187627717

-NTRK3chr15

88680792

-
Frame-shiftENST00000441802ENST00000317501FAT1chr4

187627717

-NTRK3chr15

88680792

-
5CDS-intronENST00000441802ENST00000558306FAT1chr4

187627717

-NTRK3chr15

88680792

-
5CDS-intronENST00000441802ENST00000540489FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000394480FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000557856FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000357724FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000355254FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000360948FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000542733FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000558676FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-3CDSENST00000512347ENST00000317501FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-intronENST00000512347ENST00000558306FAT1chr4

187627717

-NTRK3chr15

88680792

-
intron-intronENST00000512347ENST00000540489FAT1chr4

187627717

-NTRK3chr15

88680792

-

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FusionProtFeatures for FAT1_NTRK3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
FAT1

Q14517

NTRK3

Q16288

Plays an essential role for cellular polarization,directed cell migration and modulating cell-cell contact.{ECO:0000250}. Receptor tyrosine kinase involved in nervous system andprobably heart development. Upon binding of its ligandNTF3/neurotrophin-3, NTRK3 autophosphorylates and activatesdifferent signaling pathways, including the phosphatidylinositol3-kinase/AKT and the MAPK pathways, that control cell survival anddifferentiation. {ECO:0000269|PubMed:25196463}.

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 FAT1_NTRK3


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 FAT1_NTRK3


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
FAT1HDAC6, NUB1, UBC, NOS2, VASP, AIRE, ILK, RPS6KA2, KLK11, TAZ, NXPH2, TRAC, SUSD4, DNASE2B, CALR3, VEGFB, CD96, LIPH, GPHA2, C2orf48, CLK1, EZH2, NIPSNAP1, SH3RF1, TRAF4, NOXA1, ND1, SORBS2, IGLL1, PSG8, XAGE1B, PDGFB, SLAMF1, GML, IFNE, DKKL1, SIRT6, BRINP3, ST8SIA4NTRK3NTF3, FRS2, SHC1, PLCG1, SQSTM1, PTPN1, APP, HSP90AA1, IRAK3, TNK2, NTRK1, SH3BP4, PTPRS, MYADM, C1GALT1, GNB2, C6orf120, MTOR, LGALS1, PTCD2, TMEM11, PAG1, EFR3A, TBC1D24, GNB4, TMEM192, INTS7, DENND4A, FAM171A2, KIAA0391, EPHA2, ATP7B, CXCR4, ACAD10, HRAS, EHD4, RPTOR, HEATR6, SLC39A11


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 FAT1_NTRK3


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 FAT1_NTRK3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneFAT1C0009404Colorectal Neoplasms1CTD_human
HgeneFAT1C0010606Adenoid Cystic Carcinoma1CTD_human
HgeneFAT1C0017636Glioblastoma1CTD_human
HgeneFAT1C0018671Head and Neck Neoplasms1CTD_human
HgeneFAT1C0023893Liver Cirrhosis, Experimental1CTD_human
HgeneFAT1C0036095Salivary Gland Neoplasms1CTD_human
HgeneFAT1C0279626Squamous cell carcinoma of esophagus1CTD_human
TgeneNTRK3C0036341Schizophrenia3PSYGENET
TgeneNTRK3C0041696Unipolar Depression2PSYGENET
TgeneNTRK3C1269683Major Depressive Disorder2PSYGENET
TgeneNTRK3C0014175Endometriosis1CTD_human
TgeneNTRK3C0017638Glioma1CTD_human
TgeneNTRK3C0038220Status Epilepticus1CTD_human
TgeneNTRK3C0525045Mood Disorders1PSYGENET