FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact
Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:ILF3-AP1M2 (FusionGDB2 ID:39613)

Fusion Gene Summary for ILF3-AP1M2

check button Fusion gene summary
Fusion gene informationFusion gene name: ILF3-AP1M2
Fusion gene ID: 39613
HgeneTgene
Gene symbol

ILF3

AP1M2

Gene ID

3609

10053

Gene nameinterleukin enhancer binding factor 3adaptor related protein complex 1 subunit mu 2
SynonymsCBTF|DRBF|DRBP76|MMP4|MPHOSPH4|MPP4|MPP4110|NF-AT-90|NF110|NF110b|NF90|NF90a|NF90b|NF90c|NF90ctv|NFAR|NFAR-1|NFAR-2|NFAR110|NFAR2|NFAR90|TCP110|TCP80AP1-mu2|HSMU1B|MU-1B|MU1B|mu2
Cytomap

19p13.2

19p13.2

Type of geneprotein-codingprotein-coding
Descriptioninterleukin enhancer-binding factor 3M phase phosphoprotein 4, nuclear factor associated with DS RNAM-phase phosphoprotein 4double-stranded RNA-binding protein, 76 kDdsRNA binding protein NFAR-2/MPP4interleukin enhancer binding factor 3, 90kDinterleAP-1 complex subunit mu-2AP-mu chain family member mu1BHA1 47 kDa subunit 2adaptor protein complex AP-1 mu-2 subunitadaptor related protein complex 1 mu 2 subunitclathrin assembly protein complex 1 mu-2 medium chain 2clathrin coat assembly protein A
Modification date2020032220200313
UniProtAcc

Q12906

Q9Y6Q5

Ensembl transtripts involved in fusion geneENST00000250241, ENST00000318511, 
ENST00000407004, ENST00000420083, 
ENST00000449870, ENST00000588657, 
ENST00000589998, ENST00000590261, 
ENST00000592763, ENST00000586544, 
ENST00000250244, ENST00000590923, 
Fusion gene scores* DoF score23 X 15 X 11=37957 X 6 X 5=210
# samples 309
** MAII scorelog2(30/3795*10)=-3.66106547980695
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(9/210*10)=-1.22239242133645
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ILF3 [Title/Abstract] AND AP1M2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointILF3(10782211)-AP1M2(10689639), # samples:3
Anticipated loss of major functional domain due to fusion event.
* 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
HgeneILF3

GO:0006468

protein phosphorylation

21123651

HgeneILF3

GO:0045892

negative regulation of transcription, DNA-templated

11739746

HgeneILF3

GO:0045893

positive regulation of transcription, DNA-templated

11739746


check buttonFusion gene breakpoints across ILF3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across AP1M2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4CESCTCGA-JW-A852-01AILF3chr19

10782211

-AP1M2chr19

10689639

-
ChimerDB4CESCTCGA-JW-A852-01AILF3chr19

10782211

+AP1M2chr19

10689639

-


Top

Fusion Gene ORF analysis for ILF3-AP1M2

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-frameENST00000250241ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000250241ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000318511ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000318511ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000407004ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000407004ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000420083ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000420083ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000449870ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000449870ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000588657ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000588657ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000589998ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000589998ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000590261ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000590261ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000592763ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
In-frameENST00000592763ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-
intron-3CDSENST00000586544ENST00000250244ILF3chr19

10782211

+AP1M2chr19

10689639

-
intron-3CDSENST00000586544ENST00000590923ILF3chr19

10782211

+AP1M2chr19

10689639

-

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

Top

Fusion Genomic Features for ILF3-AP1M2


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)

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.
genomic feature

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.

Top

Fusion Protein Features for ILF3-AP1M2


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr19:10782211/chr19:10689639)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
ILF3

Q12906

AP1M2

Q9Y6Q5

FUNCTION: RNA-binding protein that plays an essential role in the biogenesis of circular RNAs (circRNAs) which are produced by back-splicing circularization of pre-mRNAs. Within the nucleus, promotes circRNAs processing by stabilizing the regulatory elements residing in the flanking introns of the circularized exons. Plays thereby a role in the back-splicing of a subset of circRNAs (PubMed:28625552). As a consequence, participates in a wide range of transcriptional and post-transcriptional processes. Binds to poly-U elements and AU-rich elements (AREs) in the 3'-UTR of target mRNAs (PubMed:14731398). Upon viral infection, ILF3 accumulates in the cytoplasm and participates in the innate antiviral response (PubMed:21123651). Mechanistically, ILF3 becomes phosphorylated and activated by the double-stranded RNA-activated protein kinase/PKR which releases ILF3 from cellular mature circRNAs. In turn, unbound ILF3 molecules are able to interact with and thus inhibit viral mRNAs (PubMed:21123651, PubMed:28625552). {ECO:0000269|PubMed:14731398, ECO:0000269|PubMed:21123651, ECO:0000269|PubMed:28625552, ECO:0000269|PubMed:9442054}.FUNCTION: Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

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
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317385_389137691.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317634_637137691.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317640_659137691.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317701_709137691.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317794_798137691.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420385_389137895.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420634_637137895.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420640_659137895.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420701_709137895.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420794_798137895.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418385_389137707.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418634_637137707.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418640_659137707.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418701_709137707.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418794_798137707.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418385_389137691.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418634_637137691.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418640_659137691.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418701_709137691.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418794_798137691.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420385_389137899.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420634_637137899.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420640_659137899.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420701_709137899.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420794_798137899.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319385_389137899.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319634_637137899.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319640_659137899.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319701_709137899.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319794_798137899.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418385_389137703.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418634_637137703.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418640_659137703.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418701_709137703.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418794_798137703.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319385_389137895.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319634_637137895.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319640_659137895.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319701_709137895.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319794_798137895.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316385_389137699.0Compositional biasNote=Poly-Lys
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316634_637137699.0Compositional biasNote=Poly-Pro
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316640_659137699.0Compositional biasNote=Arg/Gly-rich
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316701_709137699.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316794_798137699.0Compositional biasNote=Poly-Gly
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317398_467137691.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317524_590137691.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+3175_378137691.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420398_467137895.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420524_590137895.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+4205_378137895.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418398_467137707.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418524_590137707.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+4185_378137707.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418398_467137691.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418524_590137691.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+4185_378137691.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420398_467137899.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420524_590137899.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+4205_378137899.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319398_467137899.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319524_590137899.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+3195_378137899.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418398_467137703.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418524_590137703.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+4185_378137703.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319398_467137895.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319524_590137895.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+3195_378137895.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316398_467137699.0DomainDRBM 1
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316524_590137699.0DomainDRBM 2
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+3165_378137699.0DomainDZF
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317371_389137691.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420371_389137895.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418371_389137707.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418371_389137691.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420371_389137899.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319371_389137899.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418371_389137703.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319371_389137895.0MotifBipartite nuclear localization signal
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316371_389137699.0MotifBipartite nuclear localization signal
TgeneAP1M2chr19:10782211chr19:10689639ENST00000250244612168_421272424.0DomainMHD
TgeneAP1M2chr19:10782211chr19:10689639ENST00000590923612168_421274426.0DomainMHD


Top

Fusion Gene Sequence for ILF3-AP1M2


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.

Top

Fusion Gene PPI Analysis for ILF3-AP1M2


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
HgeneILF3chr19:10782211chr19:10689639ENST00000250241+317609_894137.0691.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000318511+420609_894137.0895.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000407004+418609_894137.0707.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000420083+418609_894137.0691.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000449870+420609_894137.0899.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000588657+319609_894137.0899.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000589998+418609_894137.0703.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000590261+319609_894137.0895.0PRMT1
HgeneILF3chr19:10782211chr19:10689639ENST00000592763+316609_894137.0699.0PRMT1


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


Top

Related Drugs for ILF3-AP1M2


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

Top

Related Diseases for ILF3-AP1M2


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