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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:FOXP1-ACTR3B (FusionGDB2 ID:31188)

Fusion Gene Summary for FOXP1-ACTR3B

check button Fusion gene summary
Fusion gene informationFusion gene name: FOXP1-ACTR3B
Fusion gene ID: 31188
HgeneTgene
Gene symbol

FOXP1

ACTR3B

Gene ID

27086

57180

Gene nameforkhead box P1actin related protein 3B
Synonyms12CC4|HSPC215|MFH|QRF1|hFKH1BARP11|ARP3BETA
Cytomap

3p13

7q36.1-q36.2

Type of geneprotein-codingprotein-coding
Descriptionforkhead box protein P1fork head-related protein like Bglutamine-rich factor 1mac-1-regulated forkheadactin-related protein 3BARP3 actin related protein 3 homolog BARP3-betaactin-like protein 3Bactin-related protein 3-betaactin-related protein ARP4actin-related protein Arp11
Modification date2020032920200313
UniProtAcc

Q9H334

Q9P1U1

Ensembl transtripts involved in fusion geneENST00000318779, ENST00000318789, 
ENST00000475937, ENST00000493089, 
ENST00000468577, ENST00000472382, 
ENST00000484350, ENST00000491238, 
ENST00000498215, 		ENST00000256001, 
ENST00000377776, ENST00000397282, 
ENST00000488782, ENST00000537264, 
Fusion gene scores* DoF score34 X 30 X 13=132605 X 7 X 6=210
# samples 388
** MAII scorelog2(38/13260*10)=-5.124937546669
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/210*10)=-1.39231742277876
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: FOXP1 [Title/Abstract] AND ACTR3B [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointFOXP1(71408301)-ACTR3B(152549211), # samples:1
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
HgeneFOXP1

GO:0002903

negative regulation of B cell apoptotic process

25267198

HgeneFOXP1

GO:0010629

negative regulation of gene expression

30111844

HgeneFOXP1

GO:0030316

osteoclast differentiation

18799727

HgeneFOXP1

GO:0032496

response to lipopolysaccharide

18799727

HgeneFOXP1

GO:0032680

regulation of tumor necrosis factor production

18799727

HgeneFOXP1

GO:0035926

chemokine (C-C motif) ligand 2 secretion

18799727

HgeneFOXP1

GO:0036035

osteoclast development

18799727

HgeneFOXP1

GO:0042116

macrophage activation

18799727

HgeneFOXP1

GO:0042117

monocyte activation

18799727

HgeneFOXP1

GO:0045655

regulation of monocyte differentiation

15286807

HgeneFOXP1

GO:0045892

negative regulation of transcription, DNA-templated

20950788

HgeneFOXP1

GO:0050706

regulation of interleukin-1 beta secretion

18799727

HgeneFOXP1

GO:0050727

regulation of inflammatory response

18799727

HgeneFOXP1

GO:0060766

negative regulation of androgen receptor signaling pathway

18640093

HgeneFOXP1

GO:1900424

regulation of defense response to bacterium

18799727

HgeneFOXP1

GO:1901256

regulation of macrophage colony-stimulating factor production

18799727

HgeneFOXP1

GO:2001182

regulation of interleukin-12 secretion

18799727


check buttonFusion gene breakpoints across FOXP1 (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 ACTR3B (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
ChimerDB4PRADTCGA-J9-A8CK-01AFOXP1chr3

71408301

-ACTR3Bchr7

152549211

+


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Fusion Gene ORF analysis for FOXP1-ACTR3B

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
5UTR-intronENST00000318779ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318779ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318779ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318779ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318779ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318789ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318789ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318789ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318789ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000318789ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000475937ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000475937ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000475937ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000475937ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000475937ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000493089ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000493089ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000493089ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000493089ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
5UTR-intronENST00000493089ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000468577ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000468577ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000468577ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000468577ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000468577ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000472382ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000472382ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000472382ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000472382ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000472382ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000484350ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000484350ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000484350ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000484350ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000484350ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000491238ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000491238ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000491238ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000491238ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000491238ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000498215ENST00000256001FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000498215ENST00000377776FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000498215ENST00000397282FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000498215ENST00000488782FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+
intron-intronENST00000498215ENST00000537264FOXP1chr3

71408301

-ACTR3Bchr7

152549211

+

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 FOXP1-ACTR3B


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)
FOXP1chr371408300-ACTR3Bchr7152549210+0.0075251720.99247485
FOXP1chr371408300-ACTR3Bchr7152549210+0.0075251720.99247485

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.
genomic feature of top 1%

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Fusion Protein Features for FOXP1-ACTR3B


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/:71408301/:152549211)
- 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
FOXP1

Q9H334

ACTR3B

Q9P1U1

FUNCTION: Transcriptional repressor (PubMed:18347093, PubMed:26647308). Can act with CTBP1 to synergistically repress transcription but CTPBP1 is not essential (By similarity). Plays an important role in the specification and differentiation of lung epithelium. Acts cooperatively with FOXP4 to regulate lung secretory epithelial cell fate and regeneration by restricting the goblet cell lineage program; the function may involve regulation of AGR2. Essential transcriptional regulator of B-cell development. Involved in regulation of cardiac muscle cell proliferation. Involved in the columnar organization of spinal motor neurons. Promotes the formation of the lateral motor neuron column (LMC) and the preganglionic motor column (PGC) and is required for respective appropriate motor axon projections. The segment-appropriate generation of spinal chord motor columns requires cooperation with other Hox proteins. Can regulate PITX3 promoter activity; may promote midbrain identity in embryonic stem cell-derived dopamine neurons by regulating PITX3. Negatively regulates the differentiation of T follicular helper cells T(FH)s. Involved in maintenance of hair follicle stem cell quiescence; the function probably involves regulation of FGF18 (By similarity). Represses transcription of various pro-apoptotic genes and cooperates with NF-kappa B-signaling in promoting B-cell expansion by inhibition of caspase-dependent apoptosis (PubMed:25267198). Binds to CSF1R promoter elements and is involved in regulation of monocyte differentiation and macrophage functions; repression of CSF1R in monocytes seems to involve NCOR2 as corepressor (PubMed:15286807, PubMed:18799727, PubMed:18347093). Involved in endothelial cell proliferation, tube formation and migration indicative for a role in angiogenesis; the role in neovascularization seems to implicate suppression of SEMA5B (PubMed:24023716). Can negatively regulate androgen receptor signaling (PubMed:18640093). Acts as a transcriptional activator of the FBXL7 promoter; this activity is regulated by AURKA (PubMed:28218735). {ECO:0000250|UniProtKB:P58462, ECO:0000269|PubMed:15286807, ECO:0000269|PubMed:18640093, ECO:0000269|PubMed:18799727, ECO:0000269|PubMed:24023716, ECO:0000269|PubMed:25267198, ECO:0000269|PubMed:26647308, ECO:0000269|PubMed:28218735, ECO:0000305|PubMed:18347093, ECO:0000305|PubMed:24023716}.; FUNCTION: [Isoform 8]: Involved in transcriptional regulation in embryonic stem cells (ESCs). Stimulates expression of transcription factors that are required for pluripotency and decreases expression of differentiation-associated genes. Has distinct DNA-binding specifities as compared to the canonical form and preferentially binds DNA with the sequence 5'-CGATACAA-3' (or closely related sequences) (PubMed:21924763). Promotes ESC self-renewal and pluripotency (By similarity). {ECO:0000250|UniProtKB:P58462, ECO:0000269|PubMed:21924763}.FUNCTION: Plays a role in the organization of the actin cytoskeleton. May function as ATP-binding component of the Arp2/3 complex which is involved in regulation of actin polymerization and together with an activating nucleation-promoting factor (NPF) mediates the formation of branched actin networks. May decrease the metastatic potential of tumors. {ECO:0000269|PubMed:14651955}.

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 FOXP1-ACTR3B


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 FOXP1-ACTR3B


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 FOXP1-ACTR3B


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 FOXP1-ACTR3B


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