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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:TBX15-FMN2 (FusionGDB2 ID:88983)

Fusion Gene Summary for TBX15-FMN2

check button Fusion gene summary
Fusion gene informationFusion gene name: TBX15-FMN2
Fusion gene ID: 88983
HgeneTgene
Gene symbol

TBX15

FMN2

Gene ID

6913

56776

Gene nameT-box transcription factor 15formin 2
SynonymsTBX14-
Cytomap

1p12

1q43

Type of geneprotein-codingprotein-coding
DescriptionT-box transcription factor TBX15T-box 14T-box 15T-box protein 14T-box protein 15T-box transcription factor TBX14formin-2
Modification date2020031320200313
UniProtAcc.

Q9NZ56

Ensembl transtripts involved in fusion geneENST00000207157, ENST00000369429, 
ENST00000319653, ENST00000545751, 
ENST00000543681, ENST00000496950, 
Fusion gene scores* DoF score4 X 2 X 3=248 X 8 X 7=448
# samples 310
** MAII scorelog2(3/24*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(10/448*10)=-2.16349873228288
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TBX15 [Title/Abstract] AND FMN2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTBX15(119530214)-FMN2(240421245), # 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
TgeneFMN2

GO:0006974

cellular response to DNA damage stimulus

26287480

TgeneFMN2

GO:0070649

formin-nucleated actin cable assembly

26287480

TgeneFMN2

GO:2000781

positive regulation of double-strand break repair

26287480


check buttonFusion gene breakpoints across TBX15 (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 FMN2 (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
ChimerDB4SARCTCGA-DX-A2J0-01ATBX15chr1

119530214

-FMN2chr1

240421245

+
ChimerDB4SARCTCGA-DX-A2J0-01ATBX15chr1

119530214

-FMN2chr1

240421245

+
ChimerDB4SARCTCGA-DX-A2J0-01ATBX15chr1

119530214

-FMN2chr1

240421245

+


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Fusion Gene ORF analysis for TBX15-FMN2

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
intron-3CDSENST00000207157ENST00000319653TBX15chr1

119530214

-FMN2chr1

240421245

+
intron-intronENST00000207157ENST00000545751TBX15chr1

119530214

-FMN2chr1

240421245

+
intron-intronENST00000207157ENST00000543681TBX15chr1

119530214

-FMN2chr1

240421245

+
intron-intronENST00000207157ENST00000496950TBX15chr1

119530214

-FMN2chr1

240421245

+
In-frameENST00000369429ENST00000319653TBX15chr1

119530214

-FMN2chr1

240421245

+
5CDS-intronENST00000369429ENST00000545751TBX15chr1

119530214

-FMN2chr1

240421245

+
5CDS-intronENST00000369429ENST00000543681TBX15chr1

119530214

-FMN2chr1

240421245

+
5CDS-intronENST00000369429ENST00000496950TBX15chr1

119530214

-FMN2chr1

240421245

+

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)
ENST00000369429TBX15chr1119530214-ENST00000319653FMN2chr1240421245+23542152631318351

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
ENST00000369429ENST00000319653TBX15chr1119530214-FMN2chr1240421245+0.0003185090.9996815

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Fusion Genomic Features for TBX15-FMN2


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)
TBX15chr1119530213-FMN2chr1240421244+3.05E-070.99999964
TBX15chr1119530213-FMN2chr1240421244+3.05E-070.99999964

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 TBX15-FMN2


check button Go to

FGviewer for the breakpoints of chr1:119530214-chr1:240421245

.
- 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
.FMN2

Q9NZ56

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: Actin-binding protein that is involved in actin cytoskeleton assembly and reorganization (PubMed:22330775, PubMed:21730168). Acts as an actin nucleation factor and promotes assembly of actin filaments together with SPIRE1 and SPIRE2 (PubMed:22330775, PubMed:21730168). Involved in intracellular vesicle transport along actin fibers, providing a novel link between actin cytoskeleton dynamics and intracellular transport (By similarity). Required for asymmetric spindle positioning, asymmetric oocyte division and polar body extrusion during female germ cell meiosis (By similarity). Plays a role in responses to DNA damage, cellular stress and hypoxia by protecting CDKN1A against degradation, and thereby plays a role in stress-induced cell cycle arrest (PubMed:23375502). Also acts in the nucleus: together with SPIRE1 and SPIRE2, promotes assembly of nuclear actin filaments in response to DNA damage in order to facilitate movement of chromatin and repair factors after DNA damage (PubMed:26287480). Protects cells against apoptosis by protecting CDKN1A against degradation (PubMed:23375502). {ECO:0000250|UniProtKB:Q9JL04, ECO:0000269|PubMed:21730168, ECO:0000269|PubMed:22330775, ECO:0000269|PubMed:23375502, ECO:0000269|PubMed:26287480}.

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
TgeneFMN2chr1:119530214chr1:240421245ENST000003196535181567_15971355.01723.0Coiled coilOntology_term=ECO:0000255
TgeneFMN2chr1:119530214chr1:240421245ENST000003196535181677_16991355.01723.0Coiled coilOntology_term=ECO:0000255

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTBX15chr1:119530214chr1:240421245ENST00000207157-18122_3040497.0DNA bindingT-box
HgeneTBX15chr1:119530214chr1:240421245ENST00000369429-18122_30468.33333333333333603.0DNA bindingT-box
TgeneFMN2chr1:119530214chr1:240421245ENST00000319653518193_2311355.01723.0Coiled coilOntology_term=ECO:0000255
TgeneFMN2chr1:119530214chr1:240421245ENST00000319653518670_7061355.01723.0Coiled coilOntology_term=ECO:0000255
TgeneFMN2chr1:119530214chr1:240421245ENST00000319653518200_2271355.01723.0Compositional biasNote=Gln-rich
TgeneFMN2chr1:119530214chr1:240421245ENST00000319653518758_12681355.01723.0Compositional biasNote=Pro-rich
TgeneFMN2chr1:119530214chr1:240421245ENST000003196535181283_16981355.01723.0DomainFH2


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Fusion Gene Sequence for TBX15-FMN2


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.
>In-frame_ENST00000369429_ENST00000319653_TCGA-DX-A2J0-01A_TBX15_chr1_119530214_-_FMN2_chr1_240421245_length(transcript)=2354nt_BP=215nt
GGCGGCTAAAATGAGTGAAAGGAGAAGATCTGCAGTCGCCCTGAGCTCGCGAGCACATGCCTTCTCCGTTGAAGCCTTGATCGGCTCAAA
TAAAAAACGGAAACTGCGAGACTGGGAGGAGAAGGGGCTGGACCTGTCTATGGAGGCGCTGAGCCCCGCGGGCCCACTCGGAGACACGGA
GGACGCGGCGGCACACGGCCTGGAGCCTCACCCGGGTTGTCAAGTTATTAAGCAACAAAAGATCACAAGCAGTTGGAATACTAATGTCTA
GCCTTCATTTAGATATGAAAGACATACAACATGCTGTTGTGAACTTGGATAATTCTGTGGTTGACCTGGAGACCCTTCAAGCTCTCTATG
AGAATAGAGCACAGTCAGACGAACTCGAAAAAATAGAAAAGCATGGCCGATCTTCCAAAGACAAGGAAAATGCCAAGTCTCTGGACAAAC
CTGAACAGTTCCTTTATGAACTGTCACTAATCCCCAACTTTTCAGAGCGAGTCTTTTGCATCCTGTTCCAGTCCACATTTTCAGAAAGCA
TTTGCTCAATTCGTCGCAAACTGGAATTACTACAGAAATTGTGTGAGACATTAAAAAATGGCCCAGGGGTTATGCAGGTTCTAGGTTTGG
TTCTTGCCTTTGGCAACTACATGAATGGAGGAAATAAGACTCGAGGACAGGCAGATGGCTTTGGATTAGACATTCTTCCAAAACTGAAAG
ATGTCAAGAGCAGTGACAATAGCAGAAGCCTTTTGTCATATATTGTTTCGTATTATCTCCGAAATTTTGATGAGGATGCTGGAAAAGAAC
AGTGCCTCTTTCCACTGCCAGAACCCCAGGACCTTTTTCAGGCCTCACAGATGAAGTTTGAAGATTTTCAAAAAGATCTCAGAAAACTGA
AGAAAGACTTGAAAGCCTGTGAAGTTGAAGCAGGGAAAGTATACCAGGTCTCCTCAAAAGAGCATATGCAGCCTTTCAAGGAAAACATGG
AACAATTTATTATTCAAGCCAAAATTGACCAAGAGGCAGAGGAAAATTCACTGACAGAGACTCATAAATGCTTTTTGGAGACCACGGCAT
ATTTCTTCATGAAACCAAAACTTGGAGAGAAGGAGGTGTCCCCAAATGCTTTCTTCAGTATCTGGCATGAATTCAGCTCTGACTTTAAAG
ACTTCTGGAAGAAAGAGAACAAACTTCTTCTACAAGAGAGAGTAAAAGAAGCCGAAGAGGTGTGTAGACAGAAGAAAGGAAAATCACTTT
ATAAAATAAAACCAAGACATGACTCTGGAATTAAAGCAAAGATAAGCATGAAAACTTGAACAATGAAAAGCAGAATGAAAATGAGTCATT
GCAACGACTTTCACAAAATTCAGCTGACCTGAGAGTGGGAGGGAAACTACCGTCATTCTGCTCATGTTTCTTCTTGACCTCTTGCATAAT
CTTTTTGTTTTCTAGACAGTTCACTAATTGTTGAATTTTACTGTATATTCATATAAAAATGCAAACGTACTAGACCAGTGGAGAATTTGA
CACCTTTTCTTTTTGTAAAAGTTTATGGTATTATACCGATAGACCAAAACAGCATGTGTAAGAGGCAGTATCTGCACTAATTCTCAACAT
GCTAAACATTAACTACAATTCACTGTTGTGAGAATATTCCTCGTCACAGCAAAAACACTTTCCTTTCTACTGACAACCAGTCCTCCACAT
CACAGCATTTAGACATATGGGTAAAATGTTATTTCTAGTGAATTGTTTGTATCAGTTTCATGTCTAAGTATAAATTTTCTATTTTAAAAT
TTAAGAACCGTTTATAATCAGTGCTTTCCCAACTCTTGGGTTGCTCTCCATAACTATGTATTTGTGAAAGAAAATGGTCATTTTTTTTAC
TGAAGTCATATAATGACTTGGGTCAGCTCGTAATGCATTGTGATGGTTTTGTATGAGCTGGGTGTTTTTTTCCATTACTTTTAATGATCT
TCGTTGCAAGTTATAGTTGTGGATAAAGGGGAGAATTTATTGCTCTTGCAAACCAATTATGGAAAGCAACTTAAGAAAACCAATGTTCTA
AATCATAATTGTTTGTATTTATGTAAAGTATGGTCTCTTACTTTTTAGTTTGTAGTTTAAGTGCAAAGAAACAGTAGTGGTTTTTTTTCT
ATTGTTTTGTAGTCTTCCTGTCCCCTTCAGTCCCTCCAGTGTGTATATTACCATTCTCCAATGAAATAATAGGGCATTTAACAAAGATCG
CTATGTGCAATACTGTATTTAGTGTTTCTATTTCAATTTTTCTAGGATGTTAATTTATATGAAAATAAAATGAATAATAAAAGAATAAAG

>In-frame_ENST00000369429_ENST00000319653_TCGA-DX-A2J0-01A_TBX15_chr1_119530214_-_FMN2_chr1_240421245_length(amino acids)=351AA_start in transcript=263_stop in transcript=1318
MSSLHLDMKDIQHAVVNLDNSVVDLETLQALYENRAQSDELEKIEKHGRSSKDKENAKSLDKPEQFLYELSLIPNFSERVFCILFQSTFS
ESICSIRRKLELLQKLCETLKNGPGVMQVLGLVLAFGNYMNGGNKTRGQADGFGLDILPKLKDVKSSDNSRSLLSYIVSYYLRNFDEDAG
KEQCLFPLPEPQDLFQASQMKFEDFQKDLRKLKKDLKACEVEAGKVYQVSSKEHMQPFKENMEQFIIQAKIDQEAEENSLTETHKCFLET

--------------------------------------------------------------

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Fusion Gene PPI Analysis for TBX15-FMN2


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 TBX15-FMN2


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 TBX15-FMN2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneTBX15C1850040Pelviscapular dysplasia2CTD_human;GENOMICS_ENGLAND;ORPHANET
HgeneTBX15C0018273Growth Disorders1CTD_human
HgeneTBX15C0027626Neoplasm Invasiveness1CTD_human
HgeneTBX15C0376634Craniofacial Abnormalities1CTD_human
TgeneFMN2C0007134Renal Cell Carcinoma1CTD_human
TgeneFMN2C0279702Conventional (Clear Cell) Renal Cell Carcinoma1CTD_human
TgeneFMN2C1266042Chromophobe Renal Cell Carcinoma1CTD_human
TgeneFMN2C1266043Sarcomatoid Renal Cell Carcinoma1CTD_human
TgeneFMN2C1266044Collecting Duct Carcinoma of the Kidney1CTD_human
TgeneFMN2C1306837Papillary Renal Cell Carcinoma1CTD_human