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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: 32818

FusionGeneSummary for SCFD2_FIP1L1

check button Fusion gene summary
Fusion gene informationFusion gene name: SCFD2_FIP1L1
Fusion gene ID: 32818
HgeneTgene
Gene symbol

SCFD2

FIP1L1

Gene ID

152579

81608

Gene namesec1 family domain containing 2factor interacting with PAPOLA and CPSF1
SynonymsSTXBP1L1FIP1|Rhe|hFip1
Cytomap

4q12

4q12

Type of geneprotein-codingprotein-coding
Descriptionsec1 family domain-containing protein 2syntaxin binding protein 1-like 1pre-mRNA 3'-end-processing factor FIP1FIP1 like 1FIP1-like 1 proteinFIP1L1 cleavage and polyadenylation specific factor subunitfactor interacting with PAPrearranged in hypereosinophilia
Modification date2018051920180523
UniProtAcc

Q8WU76

Q6UN15

Ensembl transtripts involved in fusion geneENST00000401642, ENST00000388940, 
ENST00000507166, ENST00000358575, 
ENST00000337488, ENST00000507922, 
ENST00000306932, ENST00000510668, 
Fusion gene scores* DoF score7 X 6 X 4=1689 X 10 X 5=450
# samples 813
** MAII scorelog2(8/168*10)=-1.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/450*10)=-1.79141337818858
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SCFD2 [Title/Abstract] AND FIP1L1 [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
TCGARVLGGTCGA-S9-A6WQ-01ASCFD2chr4

54218765

-FIP1L1chr4

54292039

+
* 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
In-frameENST00000401642ENST00000507166SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000401642ENST00000358575SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000401642ENST00000337488SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000401642ENST00000507922SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000401642ENST00000306932SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
5CDS-intronENST00000401642ENST00000510668SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000388940ENST00000507166SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000388940ENST00000358575SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000388940ENST00000337488SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000388940ENST00000507922SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
In-frameENST00000388940ENST00000306932SCFD2chr4

54218765

-FIP1L1chr4

54292039

+
5CDS-intronENST00000388940ENST00000510668SCFD2chr4

54218765

-FIP1L1chr4

54292039

+

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FusionProtFeatures for SCFD2_FIP1L1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SCFD2

Q8WU76

FIP1L1

Q6UN15

May be involved in protein transport.

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
HgeneSCFD2chr4:54218765chr4:54292039ENST00000388940-28120_124335640Compositional biasNote=Poly-Ala
HgeneSCFD2chr4:54218765chr4:54292039ENST00000401642-29120_124335685Compositional biasNote=Poly-Ala
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000306932+715356_406233521Compositional biasNote=Pro-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000306932+715456_562233521Compositional biasNote=Arg-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000306932+715478_594233521Compositional biasNote=Glu-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000337488+1018356_406307595Compositional biasNote=Pro-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000337488+1018456_562307595Compositional biasNote=Arg-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000337488+1018478_594307595Compositional biasNote=Glu-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000358575+918356_406292589Compositional biasNote=Pro-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000358575+918456_562292589Compositional biasNote=Arg-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000358575+918478_594292589Compositional biasNote=Glu-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507166+1024356_406307850Compositional biasNote=Pro-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507166+1024456_562307850Compositional biasNote=Arg-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507166+1024478_594307850Compositional biasNote=Glu-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507922+912356_406292379Compositional biasNote=Pro-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507922+912456_562292379Compositional biasNote=Arg-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507922+912478_594292379Compositional biasNote=Glu-rich
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000306932+715457_490233521RegionArg/Asp/Glu-rich domain
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000337488+1018457_490307595RegionArg/Asp/Glu-rich domain
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000358575+918457_490292589RegionArg/Asp/Glu-rich domain
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507166+1024457_490307850RegionArg/Asp/Glu-rich domain
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507922+912457_490292379RegionArg/Asp/Glu-rich domain

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000306932+7151_356233521RegionNote=Necessary for stimulating PAPOLA activity
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000337488+10181_356307595RegionNote=Necessary for stimulating PAPOLA activity
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000358575+9181_356292589RegionNote=Necessary for stimulating PAPOLA activity
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507166+10241_356307850RegionNote=Necessary for stimulating PAPOLA activity
TgeneFIP1L1chr4:54218765chr4:54292039ENST00000507922+9121_356292379RegionNote=Necessary for stimulating PAPOLA activity


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FusionGeneSequence for SCFD2_FIP1L1


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 SCFD2_FIP1L1


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
SCFD2USE1, STX12, NAPG, SIRT2, RINT1, NBAS, SEC22B, BNIP1, ZW10, C19orf25, VAMP4, STX18FIP1L1CPSF4, SRRM2, HNRNPA1, COPS5, APP, CPSF1, CPSF2, CPSF3, WDR33, NUP153, LIG4, CSNK2A1, HDAC9, CLK2, PRMT2, PRMT6, WWOX, STAU1, GOLGA2, SGTA, NAA10, ZMYND19, CUL7, OBSL1, EZH2, SUZ12, RNF2, EAF1, CPSF4L, NTRK1, HIST1H1C, PCF11, CSTF2T, PAPOLA, CSTF3, MED4, SRPK2, XPO1, CSTF1, CSTF2, LSS, P4HA1, P4HB, PML, SYMPK, P4HA2, CRTAP, WWP2, KIF2A, LLGL2, SEC16A, POLK, KIF21A, CDCA5, CEP170P1, FOXL2, ESR1, SNW1, ZC3H18, PDHA1, FOXA1


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 SCFD2_FIP1L1


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 SCFD2_FIP1L1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneFIP1L1C1540912Hypereosinophilic syndrome1CTD_human