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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: 15499

FusionGeneSummary for GRTP1_SH3PXD2A

check button Fusion gene summary
Fusion gene informationFusion gene name: GRTP1_SH3PXD2A
Fusion gene ID: 15499
HgeneTgene
Gene symbol

GRTP1

SH3PXD2A

Gene ID

79774

9644

Gene namegrowth hormone regulated TBC protein 1SH3 and PX domains 2A
SynonymsTBC1D6FISH|SH3MD1|TKS5
Cytomap

13q34

10q24.33

Type of geneprotein-codingprotein-coding
Descriptiongrowth hormone-regulated TBC protein 1TBC1 domain family member 6SH3 and PX domain-containing protein 2ASH3 multiple domains 1adapter protein TKS5adaptor protein TKS5five SH3 domain-containing proteintyrosine kinase substrate with five SH3 domains
Modification date2018052320180523
UniProtAcc

Q5TC63

Q5TCZ1

Ensembl transtripts involved in fusion geneENST00000375431, ENST00000326039, 
ENST00000375430, ENST00000476439, 
ENST00000427662, ENST00000369774, 
ENST00000355946, ENST00000315994, 
ENST00000540321, ENST00000538130, 
Fusion gene scores* DoF score5 X 4 X 4=8010 X 11 X 4=440
# samples 511
** MAII scorelog2(5/80*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(11/440*10)=-2
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GRTP1 [Title/Abstract] AND SH3PXD2A [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
TgeneSH3PXD2A

GO:0006801

superoxide metabolic process

19755710


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
TCGALDSARCTCGA-FX-A76Y-01AGRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
* 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-intronENST00000375431ENST00000427662GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375431ENST00000369774GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375431ENST00000355946GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375431ENST00000315994GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375431ENST00000540321GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375431ENST00000538130GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000326039ENST00000427662GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000326039ENST00000369774GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000326039ENST00000355946GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000326039ENST00000315994GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000326039ENST00000540321GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000326039ENST00000538130GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375430ENST00000427662GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375430ENST00000369774GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375430ENST00000355946GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375430ENST00000315994GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375430ENST00000540321GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
5CDS-intronENST00000375430ENST00000538130GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
intron-intronENST00000476439ENST00000427662GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
intron-intronENST00000476439ENST00000369774GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
intron-intronENST00000476439ENST00000355946GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
intron-intronENST00000476439ENST00000315994GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
intron-intronENST00000476439ENST00000540321GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-
intron-intronENST00000476439ENST00000538130GRTP1chr13

113999178

-SH3PXD2Achr10

105526927

-

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FusionProtFeatures for GRTP1_SH3PXD2A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
GRTP1

Q5TC63

SH3PXD2A

Q5TCZ1

May act as a GTPase-activating protein for Rab familyprotein(s). Adapter protein involved in invadopodia and podosomeformation, extracellular matrix degradation and invasiveness ofsome cancer cells. Binds matrix metalloproteinases (ADAMs), NADPHoxidases (NOXs) and phosphoinositides. Acts as an organizerprotein that allows NOX1- or NOX3-dependent reactive oxygenspecies (ROS) generation and ROS localization. In association withADAM12, mediates the neurotoxic effect of amyloid-beta peptide.{ECO:0000269|PubMed:12615925, ECO:0000269|PubMed:15710328,ECO:0000269|PubMed:15710903, ECO:0000269|PubMed:19755710,ECO:0000269|PubMed:20609497}.

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 GRTP1_SH3PXD2A


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 GRTP1_SH3PXD2A


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
GRTP1NES, PCDHGC3, GJB7, FAM63A, UBB, ATP2A1SH3PXD2APRKAA2, PRKAB2, SVIL, ELAVL1, KHDRBS1, CTTN, FASLG, ADAM15, GRB2, YWHAB, RTN4, NTRK1, FGD1, PRSS12, KIAA0368, TRAF6, ZNF764, KCTD3, KIF13B, ZBTB21, KSR1, GIGYF1, LRFN1, DENND1A, SRGAP2, EIF4E2, SIPA1L1, RTKN, MAST3, LIMA1, CGN, MAGI1, DENND4C, TESK2, DCLK1, PPM1H, ZNF638, SRSF12, SYDE1, MAPKAP1, AGAP1, CDC25B, CDK16, HDAC4, FAM110B, USP21, ANKRD34A, FAM53C, NF1, CBY1, LPIN3, NADK, FAM110A, TIAM1, CDC25C, KIAA1804, PHLDB2, RASAL2, CAMSAP2, GIGYF2, SH3RF3, PLEKHA7, MELK, GAB2, KIF1C, TBC1D25, NAV1, DENND4A, RPTOR, TANC2, PTPN13, RALGPS2, DEPDC1B, PTPN14, STARD13, OSBPL6, MLLT4, HDAC7, PLEKHA5, LARP1, EDC3, SH3BP4, RAB11FIP2, CHEK1, KIF1B, INPP5E, RAB3IP, TRIM25


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 GRTP1_SH3PXD2A


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 GRTP1_SH3PXD2A


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSH3PXD2AC0036341Schizophrenia1PSYGENET