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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: 26195

FusionGeneSummary for PCDH7_RAP1A

check button Fusion gene summary
Fusion gene informationFusion gene name: PCDH7_RAP1A
Fusion gene ID: 26195
HgeneTgene
Gene symbol

PCDH7

RAP1A

Gene ID

5099

5906

Gene nameprotocadherin 7RAP1A, member of RAS oncogene family
SynonymsBH-Pcdh|BHPCDH|PPP1R120C21KG|G-22K|KREV-1|KREV1|RAP1|SMGP21
Cytomap

4p15.1

1p13.2

Type of geneprotein-codingprotein-coding
Descriptionprotocadherin-7BH-protocadherin (brain-heart)brain-heart protocadherinprotein phosphatase 1, regulatory subunit 120ras-related protein Rap-1AGTP-binding protein smg p21ARas-related protein Krev-1
Modification date2018052320180522
UniProtAcc

O60245

P62834

Ensembl transtripts involved in fusion geneENST00000543491, ENST00000509925, 
ENST00000361762, 
ENST00000356415, 
ENST00000436150, ENST00000369709, 
ENST00000545460, ENST00000494982, 
Fusion gene scores* DoF score4 X 5 X 1=205 X 6 X 3=90
# samples 57
** MAII scorelog2(5/20*10)=1.32192809488736
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(7/90*10)=-0.362570079384708
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PCDH7 [Title/Abstract] AND RAP1A [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
TgeneRAP1A

GO:0015031

protein transport

17916086

TgeneRAP1A

GO:0071320

cellular response to cAMP

21840392


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
ChiTaRS3.1BF948052PCDH7chr4

31144315

-RAP1Achr1

112237972

+
* 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
In-frameENST00000543491ENST00000356415PCDH7chr4

31144315

-RAP1Achr1

112237972

+
In-frameENST00000543491ENST00000436150PCDH7chr4

31144315

-RAP1Achr1

112237972

+
In-frameENST00000543491ENST00000369709PCDH7chr4

31144315

-RAP1Achr1

112237972

+
In-frameENST00000543491ENST00000545460PCDH7chr4

31144315

-RAP1Achr1

112237972

+
5CDS-3UTRENST00000543491ENST00000494982PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000509925ENST00000356415PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000509925ENST00000436150PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000509925ENST00000369709PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000509925ENST00000545460PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3UTRENST00000509925ENST00000494982PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000361762ENST00000356415PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000361762ENST00000436150PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000361762ENST00000369709PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3CDSENST00000361762ENST00000545460PCDH7chr4

31144315

-RAP1Achr1

112237972

+
intron-3UTRENST00000361762ENST00000494982PCDH7chr4

31144315

-RAP1Achr1

112237972

+

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FusionProtFeatures for PCDH7_RAP1A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PCDH7

O60245

RAP1A

P62834

Induces morphological reversion of a cell linetransformed by a Ras oncogene. Counteracts the mitogenic functionof Ras, at least partly because it can interact with Ras GAPs andRAF in a competitive manner. Together with ITGB1BP1, regulatesKRIT1 localization to microtubules and membranes. Plays a role innerve growth factor (NGF)-induced neurite outgrowth. Plays a rolein the regulation of embryonic blood vessel formation. Involved inthe establishment of basal endothelial barrier function. May beinvolved in the regulation of the vascular endothelial growthfactor receptor KDR expression at endothelial cell-cell junctions.{ECO:0000269|PubMed:17916086, ECO:0000269|PubMed:21840392}.

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 PCDH7_RAP1A


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.
>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000356415_chr1_112237972_+_0aa

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000436150_chr1_112237972_+_0aa

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000369709_chr1_112237972_+_0aa

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000545460_chr1_112237972_+_0aa


* Fusion transcript sequences (only coding sequence (CDS) region).
>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000356415_chr1_112237972_+_0nt

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000436150_chr1_112237972_+_0nt

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000369709_chr1_112237972_+_0nt

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000545460_chr1_112237972_+_0nt


* Fusion transcript sequences (Full-length transcript).
>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000356415_chr1_112237972_+_0nt

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000436150_chr1_112237972_+_0nt

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000369709_chr1_112237972_+_0nt

>In-frame_PCDH7_ENST00000543491_chr4_31144315_-_RAP1A_ENST00000545460_chr1_112237972_+_0nt


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FusionGenePPI for PCDH7_RAP1A


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 PCDH7_RAP1A


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 PCDH7_RAP1A


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