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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: 26560

FusionGeneSummary for PDS5A_RBM47

check button Fusion gene summary
Fusion gene informationFusion gene name: PDS5A_RBM47
Fusion gene ID: 26560
HgeneTgene
Gene symbol

PDS5A

RBM47

Gene ID

23244

54502

Gene namePDS5 cohesin associated factor ARNA binding motif protein 47
SynonymsPIG54|SCC-112|SCC112NET18
Cytomap

4p14

4p14

Type of geneprotein-codingprotein-coding
Descriptionsister chromatid cohesion protein PDS5 homolog APDS5, regulator of cohesion maintenance, homolog Acell proliferation-inducing gene 54 proteinsister chromatid cohesion protein 112RNA-binding protein 47
Modification date2018052320180519
UniProtAcc

Q29RF7

A0AV96

Ensembl transtripts involved in fusion geneENST00000303538, ENST00000503396, 
ENST00000319592, ENST00000381793, 
ENST00000381795, ENST00000295971, 
ENST00000514014, ENST00000515809, 
Fusion gene scores* DoF score3 X 4 X 2=246 X 7 X 3=126
# samples 47
** MAII scorelog2(4/24*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(7/126*10)=-0.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PDS5A [Title/Abstract] AND RBM47 [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
TCGARVBRCATCGA-C8-A130-01APDS5Achr4

39978060

-RBM47chr4

40468716

-
* 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-5UTRENST00000303538ENST00000319592PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-5UTRENST00000303538ENST00000381793PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-5UTRENST00000303538ENST00000381795PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-5UTRENST00000303538ENST00000295971PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-intronENST00000303538ENST00000514014PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-intronENST00000303538ENST00000515809PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-5UTRENST00000503396ENST00000319592PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-5UTRENST00000503396ENST00000381793PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-5UTRENST00000503396ENST00000381795PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-5UTRENST00000503396ENST00000295971PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-intronENST00000503396ENST00000514014PDS5Achr4

39978060

-RBM47chr4

40468716

-
5CDS-intronENST00000503396ENST00000515809PDS5Achr4

39978060

-RBM47chr4

40468716

-

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FusionProtFeatures for PDS5A_RBM47


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PDS5A

Q29RF7

RBM47

A0AV96

Probable regulator of sister chromatid cohesion inmitosis which may stabilize cohesin complex association withchromatin. May couple sister chromatid cohesion during mitosis toDNA replication. Cohesion ensures that chromosome partitioning isaccurate in both meiotic and mitotic cells and plays an importantrole in DNA repair. {ECO:0000269|PubMed:15855230,ECO:0000269|PubMed:19907496}.

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 PDS5A_RBM47


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 PDS5A_RBM47


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
PDS5AAKTIP, MYC, STAG1, STAG2, SMC3, CDCA5, SRRM1, RAD21, SMC1A, WFDC5, PDS5B, WAPAL, TIRAP, MAVS, CSNK2B, SIRT7, NSMCE2, DDX21, NOTCH1, UBC, RPA1, RPA2, RPA3, EZH2, EED, EGFR, SIRT6, BCL2L1, BSG, NT5E, LYPD3, RP2, DLK1, SLC30A4, SCN2B, RFC1, NTRK1, SCARNA22, CCNB2, JUN, NFATC1, TEAD2, FOXB1, FOXE1, FOXG1, FOXH1, FOXI1, FOXI2, FOXL1, FOXL2, FOXQ1, MDM2, GYPB, VIPR2, CD70, MAS1, APLNR, SIGLECL1, LAMP3, SLC15A1, CD83, LPAR4, TRIM25, BRCA1RBM47ELAVL1, C1orf94, HSFY1, RNF2, ATM, 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 PDS5A_RBM47


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 PDS5A_RBM47


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneRBM47C3495559Juvenile arthritis1CTD_human