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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:ZC3H11A-FIP1L1 (FusionGDB2 ID:99826)

Fusion Gene Summary for ZC3H11A-FIP1L1

check button Fusion gene summary
Fusion gene informationFusion gene name: ZC3H11A-FIP1L1
Fusion gene ID: 99826
HgeneTgene
Gene symbol

ZC3H11A

FIP1L1

Gene ID

9877

81608

Gene namezinc finger CCCH-type containing 11Afactor interacting with PAPOLA and CPSF1
SynonymsZC3HDC11AFIP1|Rhe|hFip1
Cytomap

1q32.1

4q12

Type of geneprotein-codingprotein-coding
Descriptionzinc finger CCCH domain-containing protein 11Azinc finger CCCH-type domain containing 11Apre-mRNA 3'-end-processing factor FIP1FIP1 like 1FIP1-like 1 proteinFIP1L1 cleavage and polyadenylation specific factor subunitfactor interacting with PAPrearranged in hypereosinophilia
Modification date2020032720200313
UniProtAcc.

Q6UN15

Ensembl transtripts involved in fusion geneENST00000367214, ENST00000367212, 
ENST00000332127, ENST00000545588, 
ENST00000367210, ENST00000466470, 
ENST00000507166, ENST00000358575, 
ENST00000337488, ENST00000507922, 
ENST00000306932, ENST00000510668, 
Fusion gene scores* DoF score8 X 7 X 4=22417 X 15 X 11=2805
# samples 1023
** MAII scorelog2(10/224*10)=-1.16349873228288
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(23/2805*10)=-3.60829500455178
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ZC3H11A [Title/Abstract] AND FIP1L1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointZC3H11A(203787817)-FIP1L1(54292039), # samples:2
Anticipated loss of major functional domain due to fusion event.ZC3H11A-FIP1L1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
ZC3H11A-FIP1L1 seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
ZC3H11A-FIP1L1 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
* 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 buttonFusion gene breakpoints across ZC3H11A (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across FIP1L1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4LGGTCGA-E1-A7YD-01AZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
ChimerDB4LGGTCGA-E1-A7YDZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
ChimerDB4LGGTCGA-E1-A7YDZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+


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Fusion Gene ORF analysis for ZC3H11A-FIP1L1

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-shiftENST00000367214ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367214ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367214ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367214ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367214ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
5CDS-intronENST00000367214ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367212ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367212ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367212ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367212ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367212ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
5CDS-intronENST00000367212ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000332127ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000332127ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000332127ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000332127ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000332127ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
5CDS-intronENST00000332127ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000545588ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000545588ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000545588ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000545588ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000545588ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
5CDS-intronENST00000545588ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367210ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367210ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367210ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367210ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367210ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
5CDS-intronENST00000367210ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
intron-3CDSENST00000466470ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
intron-3CDSENST00000466470ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
intron-3CDSENST00000466470ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
intron-3CDSENST00000466470ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
intron-3CDSENST00000466470ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
intron-intronENST00000466470ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292039

+
Frame-shiftENST00000367214ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367214ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367214ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367214ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367214ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
5CDS-intronENST00000367214ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367212ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367212ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367212ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367212ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367212ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
5CDS-intronENST00000367212ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000332127ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000332127ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000332127ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000332127ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000332127ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
5CDS-intronENST00000332127ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000545588ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000545588ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000545588ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000545588ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000545588ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
5CDS-intronENST00000545588ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367210ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367210ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367210ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367210ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
Frame-shiftENST00000367210ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
5CDS-intronENST00000367210ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
intron-3CDSENST00000466470ENST00000507166ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
intron-3CDSENST00000466470ENST00000358575ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
intron-3CDSENST00000466470ENST00000337488ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
intron-3CDSENST00000466470ENST00000507922ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
intron-3CDSENST00000466470ENST00000306932ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+
intron-intronENST00000466470ENST00000510668ZC3H11Achr1

203787817

+FIP1L1chr4

54292038

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for ZC3H11A-FIP1L1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
ZC3H11Achr1203787817+FIP1L1chr454292038+3.48E-060.99999654
ZC3H11Achr1203787817+FIP1L1chr454292038+3.48E-060.99999654
ZC3H11Achr1203787817+FIP1L1chr454292038+3.48E-060.99999654
ZC3H11Achr1203787817+FIP1L1chr454292038+3.48E-060.99999654

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for ZC3H11A-FIP1L1


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.FIP1L1

Q6UN15

FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. FIP1L1 contributes to poly(A) site recognition and stimulates poly(A) addition. Binds to U-rich RNA sequence elements surrounding the poly(A) site. May act to tether poly(A) polymerase to the CPSF complex. {ECO:0000269|PubMed:14749727}.

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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Fusion Gene Sequence for ZC3H11A-FIP1L1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for ZC3H11A-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


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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Related Drugs for ZC3H11A-FIP1L1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for ZC3H11A-FIP1L1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneZC3H11AC0006142Malignant neoplasm of breast1CTD_human
HgeneZC3H11AC0678222Breast Carcinoma1CTD_human
HgeneZC3H11AC1257931Mammary Neoplasms, Human1CTD_human
HgeneZC3H11AC1458155Mammary Neoplasms1CTD_human
HgeneZC3H11AC4704874Mammary Carcinoma, Human1CTD_human
TgeneFIP1L1C0346421Chronic eosinophilic leukemia4ORPHANET
TgeneFIP1L1C0206141Idiopathic Hypereosinophilic Syndrome2CTD_human
TgeneFIP1L1C0206142Eosinophilic leukemia2CTD_human
TgeneFIP1L1C0206143Loeffler's Endocarditis2CTD_human
TgeneFIP1L1C1540912Hypereosinophilic syndrome2CTD_human
TgeneFIP1L1C0018801Heart failure1CTD_human
TgeneFIP1L1C0018802Congestive heart failure1CTD_human
TgeneFIP1L1C0023212Left-Sided Heart Failure1CTD_human
TgeneFIP1L1C0023487Acute Promyelocytic Leukemia1ORPHANET
TgeneFIP1L1C0235527Heart Failure, Right-Sided1CTD_human
TgeneFIP1L1C1959583Myocardial Failure1CTD_human
TgeneFIP1L1C1961112Heart Decompensation1CTD_human