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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: 19943

FusionGeneSummary for LOH12CR1_PTPRR

check button Fusion gene summary
Fusion gene informationFusion gene name: LOH12CR1_PTPRR
Fusion gene ID: 19943
HgeneTgene
Gene symbol

LOH12CR1

PTPRR

Gene ID

118426

5801

Gene nameBLOC-1 related complex subunit 5protein tyrosine phosphatase, receptor type R
SynonymsLOH12CR1|LOH1CR12EC-PTP|PCPTP1|PTP-SL|PTPBR7|PTPRQ
Cytomap

12p13.2

12q15

Type of geneprotein-codingprotein-coding
DescriptionBLOC-1-related complex subunit 5loss of heterozygosity 12 chromosomal region 1 proteinloss of heterozygosity, 12, chromosomal region 1myristoylated lysosomal proteinmyrlysinreceptor-type tyrosine-protein phosphatase RCh-1 PTPaseNC-PTPCOM1R-PTP-Rch-1PTPaseprotein tyrosine phosphatase Cr1PTPaseprotein-tyrosine phosphatase NC-PTPCOM1protein-tyrosine phosphatase PCPTP1
Modification date2018051920180519
UniProtAcc

Q15256

Ensembl transtripts involved in fusion geneENST00000542728, ENST00000314565, 
ENST00000298571, 
ENST00000283228, 
ENST00000440835, ENST00000537619, 
ENST00000378778, ENST00000342084, 
ENST00000549308, 
Fusion gene scores* DoF score3 X 2 X 3=1833 X 13 X 10=4290
# samples 331
** MAII scorelog2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(31/4290*10)=-3.79063752711267
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LOH12CR1 [Title/Abstract] AND PTPRR [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

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
TCGARVLUSCTCGA-85-6175-01ALOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
* 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-shitENST00000542728ENST00000283228LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
Frame-shitENST00000542728ENST00000440835LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000542728ENST00000537619LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000542728ENST00000378778LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000542728ENST00000342084LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000542728ENST00000549308LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
Frame-shitENST00000314565ENST00000283228LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
Frame-shitENST00000314565ENST00000440835LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000314565ENST00000537619LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000314565ENST00000378778LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000314565ENST00000342084LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
5CDS-intronENST00000314565ENST00000549308LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
intron-3CDSENST00000298571ENST00000283228LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
intron-3CDSENST00000298571ENST00000440835LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
intron-intronENST00000298571ENST00000537619LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
intron-intronENST00000298571ENST00000378778LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
intron-intronENST00000298571ENST00000342084LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-
intron-intronENST00000298571ENST00000549308LOH12CR1chr12

12514283

+PTPRRchr12

71095103

-

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FusionProtFeatures for LOH12CR1_PTPRR


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LOH12CR1

PTPRR

Q15256

Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. Sequesters mitogen-activated protein kinases (MAPKs)such as MAPK1, MAPK3 and MAPK14 in the cytoplasm in an inactiveform. The MAPKs bind to a dephosphorylated kinase interactingmotif, phosphorylation of which by the protein kinase A complexreleases the MAPKs for activation and translocation into thenucleus (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

- 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 LOH12CR1_PTPRR


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 LOH12CR1_PTPRR


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
LOH12CR1PUF60, FBXO25, TEX35, FGL1, C17orf59, BCAS4, TRIML2, IKBIP, STX11PTPRRMAPK1, MAPK3, MAPK7, MAPK14, NTRK1, CEP290, EGFR, ERBB2, IGF1R, RET, MST1R, ERBB4, FGFR2, FGFR4, KDR, TEK, INSR, ALDH18A1, DHPS, PNMA2, TRIM11, KIAA0196, TBC1D5, DNAJC13, SNX6, PTPRR, MAPK1IP1L, MAPKAPK3, MAD2L1BP, CBS, MAPK11, CCT8L1P, HSPA4L, LMTK2, AATK, ERBB3, RYK, ROR1, ROR2, PTK7, EPHA2


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 LOH12CR1_PTPRR


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 LOH12CR1_PTPRR


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgenePTPRRC0041696Unipolar Depression1PSYGENET
TgenePTPRRC1269683Major Depressive Disorder1PSYGENET