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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: 13237

FusionGeneSummary for FCF1_FOXN3

check button Fusion gene summary
Fusion gene informationFusion gene name: FCF1_FOXN3
Fusion gene ID: 13237
HgeneTgene
Gene symbol

FCF1

FOXN3

Gene ID

51077

1112

Gene nameFCF1, rRNA-processing proteinforkhead box N3
SynonymsBka|C14orf111|CGI-35|UTP24C14orf116|CHES1|PRO1635
Cytomap

14q24.3

14q31.3-q32.11

Type of geneprotein-codingprotein-coding
DescriptionrRNA-processing protein FCF1 homologFCF1 small subunitforkhead box protein N3checkpoint suppressor 1
Modification date2018052320180519
UniProtAcc

Q9Y324

O00409

Ensembl transtripts involved in fusion geneENST00000341162, ENST00000534938, 
ENST00000553615, 
ENST00000345097, 
ENST00000261302, ENST00000557258, 
ENST00000555353, ENST00000555658, 
Fusion gene scores* DoF score1 X 1 X 1=18 X 7 X 6=336
# samples 18
** MAII scorelog2(1/1*10)=3.32192809488736log2(8/336*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: FCF1 [Title/Abstract] AND FOXN3 [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
TgeneFOXN3

GO:0045892

negative regulation of transcription, DNA-templated

16102918


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
TCGALDLUSCTCGA-NC-A5HI-01AFCF1chr14

75180255

+FOXN3chr14

89817152

-
* 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-shiftENST00000341162ENST00000345097FCF1chr14

75180255

+FOXN3chr14

89817152

-
Frame-shiftENST00000341162ENST00000261302FCF1chr14

75180255

+FOXN3chr14

89817152

-
Frame-shiftENST00000341162ENST00000557258FCF1chr14

75180255

+FOXN3chr14

89817152

-
Frame-shiftENST00000341162ENST00000555353FCF1chr14

75180255

+FOXN3chr14

89817152

-
5CDS-intronENST00000341162ENST00000555658FCF1chr14

75180255

+FOXN3chr14

89817152

-
Frame-shiftENST00000534938ENST00000345097FCF1chr14

75180255

+FOXN3chr14

89817152

-
Frame-shiftENST00000534938ENST00000261302FCF1chr14

75180255

+FOXN3chr14

89817152

-
Frame-shiftENST00000534938ENST00000557258FCF1chr14

75180255

+FOXN3chr14

89817152

-
Frame-shiftENST00000534938ENST00000555353FCF1chr14

75180255

+FOXN3chr14

89817152

-
5CDS-intronENST00000534938ENST00000555658FCF1chr14

75180255

+FOXN3chr14

89817152

-
intron-3CDSENST00000553615ENST00000345097FCF1chr14

75180255

+FOXN3chr14

89817152

-
intron-3CDSENST00000553615ENST00000261302FCF1chr14

75180255

+FOXN3chr14

89817152

-
intron-3CDSENST00000553615ENST00000557258FCF1chr14

75180255

+FOXN3chr14

89817152

-
intron-3CDSENST00000553615ENST00000555353FCF1chr14

75180255

+FOXN3chr14

89817152

-
intron-intronENST00000553615ENST00000555658FCF1chr14

75180255

+FOXN3chr14

89817152

-

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FusionProtFeatures for FCF1_FOXN3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
FCF1

Q9Y324

FOXN3

O00409

Essential protein involved in pre-rRNA processing and40S ribosomal subunit assembly. {ECO:0000250}. Acts as a transcriptional repressor. May be involved inDNA damage-inducible cell cycle arrests (checkpoints).{ECO:0000269|PubMed:16102918}.

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 FCF1_FOXN3


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 FCF1_FOXN3


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
FCF1RPS2, RBM4B, APP, IFI16, HNRNPU, MYH9, TM9SF4, PPL, TREX2, SULT2B1, ENDOU, EVPL, IVL, SERPINB5, TRIM29, SERPINA12, ME1, KLK7, LGALSL, RAB5B, IL1RN, YOD1, CALML5, PKP3, DMKN, PYCARD, SERPINB8, SDR9C7, KLK10, FLG, POF1B, HAL, SERPINB2, CRABP2, EPPK1, ASPRV1, RNASE7, KPRP, SART3, SBSN, NCCRP1, MECP2, CRYAB, GPATCH4, MYH14, IGHG2, NEFH, RPL18, RPL30, DGCR8, LYPLA1, ACPP, CALML3, ARG1, PKP1, CASP14, CST6, CNBP, LGALS3, LGALS7B, UTP23, FOXA1, TRIM25FOXN3MEN1, ELAVL1, EXOSC8, SRPK2, CHSY3, CHSY1, FOXO3B, HRNR, KBTBD7, FOXR2, RFX2, RFX3, RFX1, ZBTB34, BTRC, FBXW11, DDB2


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 FCF1_FOXN3


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 FCF1_FOXN3


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