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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:SLC16A10-PEX3 (FusionGDB2 ID:82284)

Fusion Gene Summary for SLC16A10-PEX3

check button Fusion gene summary
Fusion gene informationFusion gene name: SLC16A10-PEX3
Fusion gene ID: 82284
HgeneTgene
Gene symbol

SLC16A10

PEX3

Gene ID

117247

8504

Gene namesolute carrier family 16 member 10peroxisomal biogenesis factor 3
SynonymsMCT10|PRO0813|TAT1PBD10A|PBD10B|TRG18
Cytomap

6q21

6q24.2

Type of geneprotein-codingprotein-coding
Descriptionmonocarboxylate transporter 10MCT 10T-type amino acid transporter 1aromatic amino acid transporter 1solute carrier family 16 (aromatic amino acid transporter), member 10solute carrier family 16 (monocarboxylic acid transporters), member 10solute carperoxisomal biogenesis factor 3peroxin-3peroxisomal assembly protein PEX3transformation-related protein 18
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000368851, ENST00000368850, 
ENST00000465319, 
ENST00000367591, 
Fusion gene scores* DoF score3 X 4 X 3=361 X 1 X 1=1
# samples 31
** MAII scorelog2(3/36*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(1/1*10)=3.32192809488736
Context

PubMed: SLC16A10 [Title/Abstract] AND PEX3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSLC16A10(111409298)-PEX3(143792098), # 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

check buttonFusion gene breakpoints across SLC16A10 (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 PEX3 (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
ChimerDB4BRCATCGA-AN-A0AM-01ASLC16A10chr6

111409298

+PEX3chr6

143792098

+


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Fusion Gene ORF analysis for SLC16A10-PEX3

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-frameENST00000368851ENST00000367591SLC16A10chr6

111409298

+PEX3chr6

143792098

+
intron-3CDSENST00000368850ENST00000367591SLC16A10chr6

111409298

+PEX3chr6

143792098

+
intron-3CDSENST00000465319ENST00000367591SLC16A10chr6

111409298

+PEX3chr6

143792098

+

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)
ENST00000368851SLC16A10chr6111409298+ENST00000367591PEX3chr6143792098+20935181541308384

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
ENST00000368851ENST00000367591SLC16A10chr6111409298+PEX3chr6143792098+0.0004691920.9995308

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Fusion Genomic Features for SLC16A10-PEX3


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)
SLC16A10chr6111409298+PEX3chr6143792097+5.09E-070.9999995
SLC16A10chr6111409298+PEX3chr6143792097+5.09E-070.9999995

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.
genomic feature of top 1%

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Fusion Protein Features for SLC16A10-PEX3


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/chr6:111409298/chr6:143792098)
- 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
..
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+161_66114516.0Topological domainCytoplasmic
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+1667_87114516.0TransmembraneHelical
TgenePEX3chr6:111409298chr6:143792098ENST00000367591312141_373110374.0Topological domainCytoplasmic
TgenePEX3chr6:111409298chr6:143792098ENST00000367591312117_140110374.0TransmembraneHelical

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16473_515114516.0Topological domainCytoplasmic
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16115_135114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16145_165114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16172_192114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16201_221114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16229_249114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16292_312114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16330_350114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16352_372114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16397_417114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16420_440114516.0TransmembraneHelical
HgeneSLC16A10chr6:111409298chr6:143792098ENST00000368851+16452_472114516.0TransmembraneHelical
TgenePEX3chr6:111409298chr6:143792098ENST000003675913121_45110374.0RegionTargeting to peroxisomes
TgenePEX3chr6:111409298chr6:143792098ENST000003675913121_15110374.0Topological domainCytoplasmic
TgenePEX3chr6:111409298chr6:143792098ENST0000036759131237_116110374.0Topological domainPeroxisomal
TgenePEX3chr6:111409298chr6:143792098ENST0000036759131216_36110374.0TransmembraneHelical


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Fusion Gene Sequence for SLC16A10-PEX3


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.
>82284_82284_1_SLC16A10-PEX3_SLC16A10_chr6_111409298_ENST00000368851_PEX3_chr6_143792098_ENST00000367591_length(transcript)=2093nt_BP=518nt
GCGGCCGCCTGCGCGCTGGCCGCCTGCGCGCTGCCAGCCCGCCCGCCCGCCAGGGGCTCCGCCGCCCTCGCCTCGGCCTCGTTAGCCCGC
CAGGAGCCCCGCAGCTCCTCCGGGAGCCCGCTGGTAACTCGCGTCCCTCGCGCTTCTCCGGCGCCTGAGGGGCCCGCCTCGGGCCATGGT
GCTCTCCCAGGAGGAGCCGGACTCCGCGCGGGGCACGAGCGAGGCGCAGCCGCTCGGCCCCGCGCCCACGGGGGCCGCTCCGCCGCCCGG
CCCGGGACCCTCGGACAGCCCCGAGGCGGCTGTCGAGAAGGTGGAGGTGGAGCTGGCGGGGCCGGCGACCGCGGAGCCCCATGAGCCCCC
CGAACCCCCCGAGGGCGGCTGGGGCTGGCTGGTGATGCTGGCGGCCATGTGGTGCAACGGGTCGGTGTTCGGCATCCAGAACGCTTGCGG
GGTGCTCTTCGTGTCCATGCTGGAAACCTTCGGCTCCAAAGACGATGACAAGATGGTCTTTAAGACAGGTTTCACAAGAAGTACTGTGGC
TGTATACAGTACCTGTATGCTGGTTGTTCTTTTGCGGGTCCAGTTAAACATAATTGGTGGATATATTTACCTGGATAATGCAGCAGTTGG
CAAAAATGGCACTACAATTCTTGCTCCCCCAGATGTCCAACAGCAGTATTTATCAAGTATTCAGCACCTACTTGGAGATGGCCTGACAGA
ATTGATCACTGTCATTAAACAAGCTGTGCAGAAGGTTTTAGGAAGTGTTTCTCTTAAACATTCTTTGTCCCTTTTGGACTTGGAGCAAAA
ACTAAAAGAAATCAGAAATCTCGTTGAGCAGCATAAGTCTTCTTCTTGGATTAATAAAGATGGATCCAAACCTTTATTATGCCATTATAT
GATGCCAGATGAAGAAACTCCATTAGCAGTGCAGGCCTGTGGACTTTCTCCTCGAGACATTACCACTATTAAACTTCTCAATGAAACTAG
AGACATGTTGGAAAGCCCAGATTTTAGTACAGTTTTGAATACCTGTTTAAACCGAGGTTTTAGTAGACTTCTAGACAATATGGCTGAGTT
CTTTCGACCTACTGAACAGGACCTGCAACATGGTAACTCTATGAATAGTCTTTCCAGTGTCAGCCTGCCTTTAGCTAAGATAATTCCAAT
AGTAAACGGACAGATCCATTCAGTTTGCAGTGAAACACCTAGTCATTTTGTTCAGGATCTGTTGACAATGGAGCAAGTGAAAGACTTTGC
TGCTAATGTGTATGAAGCTTTTAGTACCCCTCAGCAACTGGAGAAATGATTTTTCCTTCAAGAAAAACTACAGTGGGATTCATTTACTTT
TTAAAATACACTGGGTAAATCACCTATACTTAGAGTAACAGTTTGTTATCAAAATGCCTGATAAAATATATTCTTAATAAAAGTCTTCAT
TTCATAATGAAATCAATTTATTTGGCATCTTAATATATTTTTTTAGATTCATCAACAGACCAGTTTTTGTGGGCATATATATATACACGT
GCAAATATCAGAATTGTTAATAATTTGTTACACATGGACATTTGTTCCAAACTGACTAAAAATCAATATAGATATTTTATATACATATAT
ATATATAAAAATACAAAATTCAGTGTACTTTACCATATTAATACTGAGGAAAAATCTGTTGGAGACATAGGTCTAGGATGTGTGAAGTTT
GGAAAAATATGCTATTTAATTATAATGTTCCCTAGACTGCTGTAAACAGAAGTGAATCAGACTTTTCTCCAGCTACCTTTCAAAATAATA
AATTATTTGTCTCAAATATACCTTGATGGAGGACTTTTTTATTCTTATGGAAATAGTGAATTCCAACAACTATGATGAACTATGTTCTTT
GCTATTTCTTCACTATATTTTTTAAGGTTTTATTAAAAAGCCTTAGAAAGTTACATATTGGTTTAGAGGCTAAAATTGTGTTGATGCTGT
TTACTCACCTAATTACATAGTTTTAATCATTTGTACATAATTTTAAAAACTTACTTTGTATTGATTTTGAATACAGTGAAAATCTTATTG

>82284_82284_1_SLC16A10-PEX3_SLC16A10_chr6_111409298_ENST00000368851_PEX3_chr6_143792098_ENST00000367591_length(amino acids)=384AA_BP=121
MRGPPRAMVLSQEEPDSARGTSEAQPLGPAPTGAAPPPGPGPSDSPEAAVEKVEVELAGPATAEPHEPPEPPEGGWGWLVMLAAMWCNGS
VFGIQNACGVLFVSMLETFGSKDDDKMVFKTGFTRSTVAVYSTCMLVVLLRVQLNIIGGYIYLDNAAVGKNGTTILAPPDVQQQYLSSIQ
HLLGDGLTELITVIKQAVQKVLGSVSLKHSLSLLDLEQKLKEIRNLVEQHKSSSWINKDGSKPLLCHYMMPDEETPLAVQACGLSPRDIT
TIKLLNETRDMLESPDFSTVLNTCLNRGFSRLLDNMAEFFRPTEQDLQHGNSMNSLSSVSLPLAKIIPIVNGQIHSVCSETPSHFVQDLL

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

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Fusion Gene PPI Analysis for SLC16A10-PEX3


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
TgenePEX3chr6:111409298chr6:143792098ENST00000367591312120_136110.33333333333333374.0PEX19


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 SLC16A10-PEX3


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 SLC16A10-PEX3


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