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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: 29412

FusionGeneSummary for PTPN12_CKAP5

check button Fusion gene summary
Fusion gene informationFusion gene name: PTPN12_CKAP5
Fusion gene ID: 29412
HgeneTgene
Gene symbol

PTPN12

CKAP5

Gene ID

5782

9793

Gene nameprotein tyrosine phosphatase, non-receptor type 12cytoskeleton associated protein 5
SynonymsPTP-PEST|PTPG1CHTOG|MSPS|TOG|TOGp|ch-TOG
Cytomap

7q11.23

11p11.2

Type of geneprotein-codingprotein-coding
Descriptiontyrosine-protein phosphatase non-receptor type 12protein-tyrosine phosphatase G1cytoskeleton-associated protein 5colonic and hepatic tumor over-expressed gene proteincolonic and hepatic tumor overexpressed gene protein
Modification date2018052220180523
UniProtAcc

Q05209

Q14008

Ensembl transtripts involved in fusion geneENST00000248594, ENST00000415482, 
ENST00000435495, 		ENST00000529230, 
ENST00000415402, ENST00000312055, 
ENST00000354558, ENST00000532321, 
Fusion gene scores* DoF score9 X 8 X 5=3608 X 8 X 5=320
# samples 1110
** MAII scorelog2(11/360*10)=-1.71049338280502
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/320*10)=-1.67807190511264
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PTPN12 [Title/Abstract] AND CKAP5 [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
HgenePTPN12

GO:0006470

protein dephosphorylation

27134172

HgenePTPN12

GO:0035335

peptidyl-tyrosine dephosphorylation

27134172


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
ChiTaRS3.1BE466787PTPN12chr7

77166725

-CKAP5chr11

46765654

+
ChiTaRS3.1BF056903PTPN12chr7

77166725

-CKAP5chr11

46765654

+
ChiTaRS3.1AI341063PTPN12chr7

77166725

-CKAP5chr11

46765654

+
* 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
5UTR-3CDSENST00000248594ENST00000529230PTPN12chr7

77166725

-CKAP5chr11

46765654

+
5UTR-3CDSENST00000248594ENST00000415402PTPN12chr7

77166725

-CKAP5chr11

46765654

+
5UTR-3CDSENST00000248594ENST00000312055PTPN12chr7

77166725

-CKAP5chr11

46765654

+
5UTR-3CDSENST00000248594ENST00000354558PTPN12chr7

77166725

-CKAP5chr11

46765654

+
5UTR-intronENST00000248594ENST00000532321PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000415482ENST00000529230PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000415482ENST00000415402PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000415482ENST00000312055PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000415482ENST00000354558PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-intronENST00000415482ENST00000532321PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000435495ENST00000529230PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000435495ENST00000415402PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000435495ENST00000312055PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-3CDSENST00000435495ENST00000354558PTPN12chr7

77166725

-CKAP5chr11

46765654

+
intron-intronENST00000435495ENST00000532321PTPN12chr7

77166725

-CKAP5chr11

46765654

+

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FusionProtFeatures for PTPN12_CKAP5


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PTPN12

Q05209

CKAP5

Q14008

Binds to the plus end of microtubules and regulatesmicrotubule dynamics and microtubule organization. Acts asprocessive microtubule polymerase. Promotes cytoplasmicmicrotubule nucleation and elongation. Plays a major role inorganizing spindle poles. In spindle formation protectskinetochore microtubules from depolymerization by KIF2C and has anessential role in centrosomal microtubule assembly independentlyof KIF2C activity. Contributes to centrosome integrity. Acts ascomponent of the TACC3/ch-TOG/clathrin complex proposed tocontribute to stabilization of kinetochore fibers of the mitoticspindle by acting as inter-microtubule bridge. The TACC3/ch-TOG/clathrin complex is required for the maintenance ofkinetochore fiber tension (PubMed:23532825). Enhances the strengthof NDC80 complex-mediated kinetochore-tip microtubule attachments(PubMed:27156448). {ECO:0000269|PubMed:12569123,ECO:0000269|PubMed:18809577, ECO:0000269|PubMed:21297582,ECO:0000269|PubMed:21646404, ECO:0000269|PubMed:23532825,ECO:0000269|PubMed:27156448, ECO:0000269|PubMed:9570755}.

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 PTPN12_CKAP5


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 PTPN12_CKAP5


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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RelatedDrugs for PTPN12_CKAP5


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 PTPN12_CKAP5


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneCKAP5C0002938Aneuploidy1CTD_human
TgeneCKAP5C1257806Chromosomal Instability1CTD_human