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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 41135

FusionGeneSummary for USP42_SLC46A2

check button Fusion gene summary
Fusion gene informationFusion gene name: USP42_SLC46A2
Fusion gene ID: 41135
HgeneTgene
Gene symbol

USP42

SLC46A2

Gene ID

84132

57864

Gene nameubiquitin specific peptidase 42solute carrier family 46 member 2
Synonyms-Ly110|TSCOT
Cytomap

7p22.1

9q32

Type of geneprotein-codingprotein-coding
Descriptionubiquitin carboxyl-terminal hydrolase 42deubiquitinating enzyme 42ubiquitin specific protease 42ubiquitin thioesterase 42ubiquitin thiolesterase 42ubiquitin-specific-processing protease 42thymic stromal cotransporter homologthymic stromal co-transporter
Modification date2018052320180330
UniProtAcc

Q9H9J4

Q9BY10

Ensembl transtripts involved in fusion geneENST00000306177, ENST00000374228, 
Fusion gene scores* DoF score4 X 4 X 2=321 X 1 X 1=1
# samples 51
** MAII scorelog2(5/32*10)=0.643856189774725
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(1/1*10)=3.32192809488736
Context

PubMed: USP42 [Title/Abstract] AND SLC46A2 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
HgeneUSP42

GO:0016579

protein deubiquitination

14715245


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVBRCATCGA-BH-A1FN-01AUSP42chr7

6155154

+SLC46A2chr9

115649693

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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-frameENST00000306177ENST00000374228USP42chr7

6155154

+SLC46A2chr9

115649693

-

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FusionProtFeatures for USP42_SLC46A2


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
USP42

Q9H9J4

SLC46A2

Q9BY10

Deubiquitinating enzyme which may play an important roleduring spermatogenesis. {ECO:0000250}. May act as a transporter. {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
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04392_406376476Topological domainCytoplasmic
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04428_435376476Topological domainExtracellular
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04457_475376476Topological domainCytoplasmic
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04407_427376476TransmembraneHelical%3B Name%3D11
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04436_456376476TransmembraneHelical%3B Name%3D12

- In-frame and not-retained protein feature among the 13 regional features.
>>>>
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneUSP42chr7:6155154chr9:115649693ENST00000306177+3181176_12461471604Compositional biasNote=Lys-rich
HgeneUSP42chr7:6155154chr9:115649693ENST00000306177+318742_9371471604Compositional biasNote=Pro-rich
HgeneUSP42chr7:6155154chr9:115649693ENST00000306177+318946_11181471604Compositional biasNote=Arg-rich
HgeneUSP42chr7:6155154chr9:115649693ENST00000306177+318111_4121471604DomainNote=USP
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04100_108376476Topological domainCytoplasmic
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04130_138376476Topological domainExtracellular
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04160_172376476Topological domainCytoplasmic
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04194_205376476Topological domainExtracellular
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-041_23376476Topological domainCytoplasmic
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04227_282376476Topological domainCytoplasmic
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04304_320376476Topological domainExtracellular
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04342_347376476Topological domainCytoplasmic
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04369_370376476Topological domainExtracellular
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-0445_78376476Topological domainExtracellular
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04109_129376476TransmembraneHelical%3B Name%3D3
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04139_159376476TransmembraneHelical%3B Name%3D4
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04173_193376476TransmembraneHelical%3B Name%3D5
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04206_226376476TransmembraneHelical%3B Name%3D6
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-0424_44376476TransmembraneHelical%3B Name%3D1
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04283_303376476TransmembraneHelical%3B Name%3D7
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04321_341376476TransmembraneHelical%3B Name%3D8
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04348_368376476TransmembraneHelical%3B Name%3D9
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-04371_391376476TransmembraneHelical%3B Name%3D10
TgeneSLC46A2chr7:6155154chr9:115649693ENST00000374228-0479_99376476TransmembraneHelical%3B Name%3D2


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FusionGeneSequence for USP42_SLC46A2


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.
>In-frame_USP42_ENST00000306177_chr7_6155154_+_SLC46A2_ENST00000374228_chr9_115649693_-_247aa
MTIVDKASESSDPSAYQNQPGSSEAVSPGDMDAGSASWGAVSSLNDVSNHTLSLGPVPGAVVYSSSSVPDKSKPSPQKDQALGDGIAPPQ
KVLFPSEKICLKWQQTHRVGAGLQNLGNTCFANAALQCLTYTPPLANYMLSHEHSKTSRAVMLFALIPVTTIRSAMSKLIKGSSYGKVFV


* Fusion transcript sequences (only coding sequence (CDS) region).
>In-frame_USP42_ENST00000306177_chr7_6155154_+_SLC46A2_ENST00000374228_chr9_115649693_-_741nt
ATGACCATAGTTGACAAAGCTTCTGAATCTTCAGACCCATCAGCCTATCAGAATCAGCCTGGCAGCTCCGAGGCAGTCTCACCTGGAGAC
ATGGATGCAGGTTCTGCCAGCTGGGGTGCTGTGTCTTCATTGAATGATGTGTCAAATCACACACTTTCTTTAGGACCAGTACCTGGTGCT
GTAGTTTATTCGAGTTCATCTGTACCTGATAAATCAAAACCATCACCACAAAAGGATCAAGCCCTAGGTGATGGCATCGCTCCTCCACAG
AAAGTTCTTTTCCCATCTGAGAAGATTTGTCTTAAGTGGCAACAAACTCATAGAGTTGGAGCTGGGCTCCAGAATTTGGGCAATACCTGT
TTTGCCAATGCAGCACTGCAGTGTTTAACCTACACACCACCTCTTGCCAATTACATGCTATCACATGAACACTCCAAAACATCTCGAGCC
GTCATGCTGTTTGCTCTCATCCCCGTCACAACCATCCGATCAGCTATGTCCAAACTCATAAAGGGCTCCTCTTATGGAAAGGTGTTCGTC
ATACTGCAGCTGTCCTTGGCTCTGACCGGCGTGGTGACATCCACCTTGTACAACAAGATCTACCAGCTCACCATGGACATGTTTGTGGGC
TCCTGCTTTGCTCTCTCCTCCTTTCTCTCCTTCCTGGCCATCATTCCAATTAGCATCGTGGCCTATAAACAAGTCCCATTGTCACCATAT


* Fusion transcript sequences (Full-length transcript).
>In-frame_USP42_ENST00000306177_chr7_6155154_+_SLC46A2_ENST00000374228_chr9_115649693_-_1741nt
AGGGGCGCGGCGGGCGCGGCGCTGACCCGGAGGCGGCGGCGGCGGTGCCCGGATGGAGGCACGTCATTGTCCCCCGCCGGGCGGCTGGGC
TGTGTGCGGCGGCGGCGGCGGCGGCCGAGGGGGATGGAGCGAGCGCCGAGCCGGGTCAGAGTTGAACAATGACCATAGTTGACAAAGCTT
CTGAATCTTCAGACCCATCAGCCTATCAGAATCAGCCTGGCAGCTCCGAGGCAGTCTCACCTGGAGACATGGATGCAGGTTCTGCCAGCT
GGGGTGCTGTGTCTTCATTGAATGATGTGTCAAATCACACACTTTCTTTAGGACCAGTACCTGGTGCTGTAGTTTATTCGAGTTCATCTG
TACCTGATAAATCAAAACCATCACCACAAAAGGATCAAGCCCTAGGTGATGGCATCGCTCCTCCACAGAAAGTTCTTTTCCCATCTGAGA
AGATTTGTCTTAAGTGGCAACAAACTCATAGAGTTGGAGCTGGGCTCCAGAATTTGGGCAATACCTGTTTTGCCAATGCAGCACTGCAGT
GTTTAACCTACACACCACCTCTTGCCAATTACATGCTATCACATGAACACTCCAAAACATCTCGAGCCGTCATGCTGTTTGCTCTCATCC
CCGTCACAACCATCCGATCAGCTATGTCCAAACTCATAAAGGGCTCCTCTTATGGAAAGGTGTTCGTCATACTGCAGCTGTCCTTGGCTC
TGACCGGCGTGGTGACATCCACCTTGTACAACAAGATCTACCAGCTCACCATGGACATGTTTGTGGGCTCCTGCTTTGCTCTCTCCTCCT
TTCTCTCCTTCCTGGCCATCATTCCAATTAGCATCGTGGCCTATAAACAAGTCCCATTGTCACCATATGGAGACATCATAGAGAAATGAA
GATGCTTACCTGCAGGAACTGAAAACATCAGCCATGGCCAGGCCCCCAGAAGACAAAAGAAGGGACCAGGGAACTGGTGACCTAAGCAAC
CCACTGCTTAAGAAACCTGCGTTCCAGCCAGAGTTGGCCTCAGAATGACCTGCTCTGGCTCAGGGATCCCTGGTGGATGGGGAAAAGCAC
TTTCCTGGTGATGGAAAAACGTTCTCAGCTTTAAGACACCCCCATTAGGCAGACACTGGGTTCTGTGACAGCAGAGCATGACCTTAAGGG
TTACAGGCAGGCTGCACACAGCAGTCCCAGGCCCTGTGAGGGGCTTCAGACTCCAGCTACAGCGAGCCTGCCCCTTTTCTTCAAGGGACT
GTCTTGAGGGCTCCAAAGTATAGCTAACTAGTCACCTGGGTGCTGTGCTGAAAGTCCCATGGGAGAACTCAAAGCGTGCATTATCACAGC
CTGAGGGGAATGTGGAAGGGATGTTTTGTAAGAACTACCAACAGTTTTGCACGAACAATGTCTTTTAAATTAAAATAAAACCTTGAAAAA
AGTCAGCTTTCTTTCCTGAGTCTTCCTTACCTACAAACACTCAGGAGGGGGATGGAGCTCAGGCCCTTGTCTTCTGGGTAGTTTTGTTAC
TACTGTTGCTTTTAAGAAGCAAATGTCACAAGGCTTTCTTCAATGGGATGTTCAATTGAGTACTTCCAGTCAACAGTGCTTCCCAAAGTG
GGTGGTGTGAAGGAAGAGGAGGTACATTAAGAGCTATTTTATTTGAGGTAGTCATTTTTATAACCTTGTTTACTTGGATTTATAAAAGCA


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FusionGenePPI for USP42_SLC46A2


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
USP42CA2, FECH, KPNA3, PLRG1, CPNE3, HERC2, BMS1, RANBP9, RAD50, MRPS31, AHCYL1, SRRM2, DIMT1, MRPS21, TEX10, WDR18, LRRC47, MRPS35, MRPS14, YTHDC2, MRPS26, MRPS34, C14orf169, AMOT, YWHAQ, TP53, MDM2, SPP1, HIST2H2BE, CEP192, PCGF1, DPPA4, BCOR, NANOG, POU5F1, JMJD6, ZEB1SLC46A2


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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RelatedDrugs for USP42_SLC46A2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for USP42_SLC46A2


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