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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: 26233

FusionGeneSummary for PCID2_GRTP1

check button Fusion gene summary
Fusion gene informationFusion gene name: PCID2_GRTP1
Fusion gene ID: 26233
HgeneTgene
Gene symbol

PCID2

GRTP1

Gene ID

55795

79774

Gene namePCI domain containing 2growth hormone regulated TBC protein 1
SynonymsF10TBC1D6
Cytomap

13q34

13q34

Type of geneprotein-codingprotein-coding
DescriptionPCI domain-containing protein 2CSN12-like proteingrowth hormone-regulated TBC protein 1TBC1 domain family member 6
Modification date2018052320180523
UniProtAcc

Q5JVF3

Q5TC63

Ensembl transtripts involved in fusion geneENST00000337344, ENST00000375477, 
ENST00000375479, ENST00000493650, 
ENST00000375459, ENST00000246505, 
ENST00000375457, 
ENST00000375431, 
ENST00000326039, ENST00000375430, 
ENST00000476439, 
Fusion gene scores* DoF score5 X 3 X 4=601 X 1 X 1=1
# samples 41
** MAII scorelog2(4/60*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(1/1*10)=3.32192809488736
Context

PubMed: PCID2 [Title/Abstract] AND GRTP1 [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
TCGALDLUSCTCGA-56-A4ZK-01APCID2chr13

113862913

-GRTP1chr13

114018225

-
* 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-shiftENST00000337344ENST00000375431PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000337344ENST00000326039PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000337344ENST00000375430PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-5UTRENST00000337344ENST00000476439PCID2chr13

113862913

-GRTP1chr13

114018225

-
Frame-shiftENST00000375477ENST00000375431PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000375477ENST00000326039PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000375477ENST00000375430PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-5UTRENST00000375477ENST00000476439PCID2chr13

113862913

-GRTP1chr13

114018225

-
Frame-shiftENST00000375479ENST00000375431PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000375479ENST00000326039PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000375479ENST00000375430PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-5UTRENST00000375479ENST00000476439PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-3CDSENST00000493650ENST00000375431PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-intronENST00000493650ENST00000326039PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-intronENST00000493650ENST00000375430PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-5UTRENST00000493650ENST00000476439PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-3CDSENST00000375459ENST00000375431PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-intronENST00000375459ENST00000326039PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-intronENST00000375459ENST00000375430PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-5UTRENST00000375459ENST00000476439PCID2chr13

113862913

-GRTP1chr13

114018225

-
Frame-shiftENST00000246505ENST00000375431PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000246505ENST00000326039PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-intronENST00000246505ENST00000375430PCID2chr13

113862913

-GRTP1chr13

114018225

-
5CDS-5UTRENST00000246505ENST00000476439PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-3CDSENST00000375457ENST00000375431PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-intronENST00000375457ENST00000326039PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-intronENST00000375457ENST00000375430PCID2chr13

113862913

-GRTP1chr13

114018225

-
intron-5UTRENST00000375457ENST00000476439PCID2chr13

113862913

-GRTP1chr13

114018225

-

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FusionProtFeatures for PCID2_GRTP1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PCID2

Q5JVF3

GRTP1

Q5TC63

May act as a GTPase-activating protein for Rab familyprotein(s).

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 PCID2_GRTP1


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 PCID2_GRTP1


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
PCID2SHFM1, NEK6, UBC, CUL3, SMAD2, EID1, TUBGCP3, IKZF3, SHMT2, MOV10, NXF1, CAPZB, DDX3X, IMPDH2, LSM1, ADPRHL2, TTC4, PSMD6, SNX2, SNX6, UBE4B, VPS35, IFI16, KIF11, TMEM63B, ZFC3H1, CETN1, TRIM25GRTP1NES, PCDHGC3, GJB7, FAM63A, UBB, ATP2A1


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 PCID2_GRTP1


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 PCID2_GRTP1


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