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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: 29420

FusionGeneSummary for PTPN13_C4orf36

check button Fusion gene summary
Fusion gene informationFusion gene name: PTPN13_C4orf36
Fusion gene ID: 29420
HgeneTgene
Gene symbol

PTPN13

C4orf36

Gene ID

5783

132989

Gene nameprotein tyrosine phosphatase, non-receptor type 13chromosome 4 open reading frame 36
SynonymsFAP-1|PNP1|PTP-BAS|PTP-BL|PTP1E|PTPL1|PTPLE|hPTP1E-
Cytomap

4q21.3

4q21.3

Type of geneprotein-codingprotein-coding
Descriptiontyrosine-protein phosphatase non-receptor type 13fas-associated protein-tyrosine phosphatase 1hPTPE1protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase)protein-tyrosine phosphatase 1Eprotein-tyrosine phosphatasuncharacterized protein C4orf36
Modification date2018051920180409
UniProtAcc

Q12923

Q96KX1

Ensembl transtripts involved in fusion geneENST00000427191, ENST00000436978, 
ENST00000502971, ENST00000411767, 
ENST00000316707, ENST00000511467, 
ENST00000473559, ENST00000503001, 
ENST00000295898, 
Fusion gene scores* DoF score5 X 6 X 3=902 X 2 X 2=8
# samples 62
** MAII scorelog2(6/90*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/8*10)=1.32192809488736
Context

PubMed: PTPN13 [Title/Abstract] AND C4orf36 [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
HgenePTPN13

GO:0006470

protein dephosphorylation

17657516

HgenePTPN13

GO:0014066

regulation of phosphatidylinositol 3-kinase signaling

23604317


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
TCGALDCESCTCGA-VS-A8QC-01APTPN13chr4

87656899

+C4orf36chr4

87797596

-
* 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
5CDS-intronENST00000427191ENST00000473559PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000427191ENST00000503001PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-3UTRENST00000427191ENST00000295898PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000436978ENST00000473559PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000436978ENST00000503001PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-3UTRENST00000436978ENST00000295898PTPN13chr4

87656899

+C4orf36chr4

87797596

-
intron-intronENST00000502971ENST00000473559PTPN13chr4

87656899

+C4orf36chr4

87797596

-
intron-intronENST00000502971ENST00000503001PTPN13chr4

87656899

+C4orf36chr4

87797596

-
intron-3UTRENST00000502971ENST00000295898PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000411767ENST00000473559PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000411767ENST00000503001PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-3UTRENST00000411767ENST00000295898PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000316707ENST00000473559PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000316707ENST00000503001PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-3UTRENST00000316707ENST00000295898PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000511467ENST00000473559PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-intronENST00000511467ENST00000503001PTPN13chr4

87656899

+C4orf36chr4

87797596

-
5CDS-3UTRENST00000511467ENST00000295898PTPN13chr4

87656899

+C4orf36chr4

87797596

-

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FusionProtFeatures for PTPN13_C4orf36


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PTPN13

Q12923

C4orf36

Q96KX1


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 PTPN13_C4orf36


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 PTPN13_C4orf36


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
PTPN13PKN2, NFKBIA, EFNB1, ARHGAP29, FASLG, CTNNB1, GHR, FBXL2, LATS1, LATS2, YWHAB, RAPGEF2, RASSF10, WHSC1, FBXW11, DNM2, NINL, TMEM17, PLEKHA1, STXBP4, PTEN, RGS2, DFFB, KCTD3, KIF13B, CGN, ZBTB21, KSR1, GIGYF1, LPIN3, LRFN1, RTKN, DENND4C, MAST3, SH3RF3, DENND1A, SH3PXD2A, SRGAP2, PPM1H, TANC2, RALGPS2, EIF4E2, SIPA1L1, NF1, CDC25C, CBY1, GIGYF2, INPP5E, MTNR1A, HEY1C4orf36


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 PTPN13_C4orf36


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 PTPN13_C4orf36


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