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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: 21048

FusionGeneSummary for MAPKBP1_VPS39

check button Fusion gene summary
Fusion gene informationFusion gene name: MAPKBP1_VPS39
Fusion gene ID: 21048
HgeneTgene
Gene symbol

MAPKBP1

VPS39

Gene ID

23005

23339

Gene namemitogen-activated protein kinase binding protein 1VPS39, HOPS complex subunit
SynonymsJNKBP-1|JNKBP1|NPHP20TLP|VAM6|hVam6p
Cytomap

15q15.1

15q15.1

Type of geneprotein-codingprotein-coding
Descriptionmitogen-activated protein kinase-binding protein 1JNK-binding protein 1vam6/Vps39-like proteinTRAP1-like proteinvacuolar protein sorting 39 homolog
Modification date2018051920180523
UniProtAcc

O60336

Q96JC1

Ensembl transtripts involved in fusion geneENST00000221214, ENST00000457542, 
ENST00000260357, ENST00000456763, 
ENST00000514566, ENST00000507762, 
ENST00000318006, ENST00000348544, 
ENST00000568357, 
Fusion gene scores* DoF score7 X 4 X 3=846 X 6 X 4=144
# samples 66
** MAII scorelog2(6/84*10)=-0.485426827170242
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(6/144*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: MAPKBP1 [Title/Abstract] AND VPS39 [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
TgeneVPS39

GO:0034058

endosomal vesicle fusion

23167963

TgeneVPS39

GO:1902774

late endosome to lysosome transport

23167963


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
TCGARVBLCATCGA-XF-AAMX-01AMAPKBP1chr15

42092112

+VPS39chr15

42455926

-
* 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
Frame-shiftENST00000221214ENST00000318006MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
Frame-shiftENST00000221214ENST00000348544MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
5CDS-intronENST00000221214ENST00000568357MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
Frame-shiftENST00000457542ENST00000318006MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
Frame-shiftENST00000457542ENST00000348544MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
5CDS-intronENST00000457542ENST00000568357MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
intron-3CDSENST00000260357ENST00000318006MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
intron-3CDSENST00000260357ENST00000348544MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
intron-intronENST00000260357ENST00000568357MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
Frame-shiftENST00000456763ENST00000318006MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
Frame-shiftENST00000456763ENST00000348544MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
5CDS-intronENST00000456763ENST00000568357MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
Frame-shiftENST00000514566ENST00000318006MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
Frame-shiftENST00000514566ENST00000348544MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
5CDS-intronENST00000514566ENST00000568357MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
3UTR-3CDSENST00000507762ENST00000318006MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
3UTR-3CDSENST00000507762ENST00000348544MAPKBP1chr15

42092112

+VPS39chr15

42455926

-
3UTR-intronENST00000507762ENST00000568357MAPKBP1chr15

42092112

+VPS39chr15

42455926

-

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FusionProtFeatures for MAPKBP1_VPS39


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
MAPKBP1

O60336

VPS39

Q96JC1

Negative regulator of NOD2 function. It down-regulatesNOD2-induced processes such as activation of NF-kappa-B signaling,IL8 secretion and antibacterial response (PubMed:22700971).Involved in JNK signaling pathway (By similarity).{ECO:0000250|UniProtKB:Q6NS57, ECO:0000269|PubMed:22700971}. Regulator of TGF-beta/activin signaling, inhibitingSMAD3- and activating SMAD2-dependent transcription. Acts byinterfering with SMAD3/SMAD4 complex formation, this would lead toinhibition of SMAD3-dependent transcription and relieve SMAD3inhibition of SMAD2-dependent promoters, thus increasing SMAD2-dependent transcription. Does not affect TGF-beta-induced SMAD2 orSMAD3 phosphorylation, nor SMAD2/SMAD4 complex formation.{ECO:0000269|PubMed:12941698}. Plays a role in vesicle-mediated protein trafficking tolysosomal compartments including the endocytic membrane transportand autophagic pathways. Believed to act in part as a component ofthe putative HOPS endosomal tethering complex which is proposed tobe involved in the Rab5-to-Rab7 endosome conversion probablyimplicating MON1A/B, and via binding SNAREs and SNARE complexes tomediate tethering and docking events during SNARE-mediatedmembrane fusion. The HOPS complex is proposed to be recruited toRab7 on the late endosomal membrane and to regulate lateendocytic, phagocytic and autophagic traffic towards lysosomes(PubMed:23351085). Involved in homotypic vesicle fusions betweenlate endosomes and in heterotypic fusions between late endosomesand lysosomes (PubMed:11448994, PubMed:23351085, PubMed:23167963).Required for fusion of endosomes and autophagosomes with lysosomes(PubMed:25783203). {ECO:0000269|PubMed:11448994,ECO:0000269|PubMed:23167963, ECO:0000269|PubMed:25783203,ECO:0000305|PubMed:23351085}.

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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FusionGeneSequence for MAPKBP1_VPS39


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.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for MAPKBP1_VPS39


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
MAPKBP1APTX, KRTAP5-9, KRT31, MDFI, MEOX2, TRIM27, SIAH1, TCF4, TCF12, TRIP6, RGS20, KEAP1, SPRY2, GLRX3, ADAMTSL4, TEX11, ALG13, KRTAP4-12, KRTAP3-2, KRTAP9-2, KRTAP9-4, KRT40, KRTAP10-7, KRTAP10-9, KRTAP10-1, KRTAP10-8, KRTAP10-3, NOTCH2NL, WDR62VPS39VPS39, CDK2, HOOK1, UVRAG, VPS11, VIPAS39, UBXN6, XPO6, UAP1, NOTCH1, EPN3, RILP, RAB7A, NTRK1, STAT3, AP3D1, STX17, PTAR1, RPS6KC1, ZNF263, SPATA1, USP54, NPAT


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 MAPKBP1_VPS39


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 MAPKBP1_VPS39


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneVPS39C0036341Schizophrenia1CTD_human
TgeneVPS39C1458155Mammary Neoplasms1CTD_human