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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: 30208

FusionGeneSummary for RAD9A_SSH3

check button Fusion gene summary
Fusion gene informationFusion gene name: RAD9A_SSH3
Fusion gene ID: 30208
HgeneTgene
Gene symbol

RAD9A

SSH3

Gene ID

5883

54961

Gene nameRAD9 checkpoint clamp component Aslingshot protein phosphatase 3
SynonymsRAD9SSH3L
Cytomap

11q13.2

11q13.2

Type of geneprotein-codingprotein-coding
Descriptioncell cycle checkpoint control protein RAD9ADNA repair exonuclease rad9 homolog ARAD9 homolog AhRAD9protein phosphatase Slingshot homolog 3SSH-3LSSH-like protein 3hSSH-3Lslingshot 3slingshot homolog 3
Modification date2018052320180523
UniProtAcc

Q99638

Q8TE77

Ensembl transtripts involved in fusion geneENST00000307980, ENST00000535644, 
ENST00000308127, ENST00000308298, 
ENST00000376757, ENST00000532181, 
Fusion gene scores* DoF score8 X 6 X 7=3364 X 3 X 3=36
# samples 84
** MAII scorelog2(8/336*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: RAD9A [Title/Abstract] AND SSH3 [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
HgeneRAD9A

GO:0006974

cellular response to DNA damage stimulus

9872989

HgeneRAD9A

GO:0071479

cellular response to ionizing radiation

21659603


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
TCGALDBRCATCGA-E9-A3QA-01ARAD9Achr11

67088804

+SSH3chr11

67076868

+
* 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
intron-3CDSENST00000307980ENST00000308127RAD9Achr11

67088804

+SSH3chr11

67076868

+
intron-intronENST00000307980ENST00000308298RAD9Achr11

67088804

+SSH3chr11

67076868

+
intron-intronENST00000307980ENST00000376757RAD9Achr11

67088804

+SSH3chr11

67076868

+
intron-3UTRENST00000307980ENST00000532181RAD9Achr11

67088804

+SSH3chr11

67076868

+
intron-3CDSENST00000535644ENST00000308127RAD9Achr11

67088804

+SSH3chr11

67076868

+
intron-intronENST00000535644ENST00000308298RAD9Achr11

67088804

+SSH3chr11

67076868

+
intron-intronENST00000535644ENST00000376757RAD9Achr11

67088804

+SSH3chr11

67076868

+
intron-3UTRENST00000535644ENST00000532181RAD9Achr11

67088804

+SSH3chr11

67076868

+

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FusionProtFeatures for RAD9A_SSH3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
RAD9A

Q99638

SSH3

Q8TE77

Component of the 9-1-1 cell-cycle checkpoint responsecomplex that plays a major role in DNA repair. The 9-1-1 complexis recruited to DNA lesion upon damage by the RAD17-replicationfactor C (RFC) clamp loader complex. Acts then as a sliding clampplatform on DNA for several proteins involved in long-patch baseexcision repair (LP-BER). The 9-1-1 complex stimulates DNApolymerase beta (POLB) activity by increasing its affinity for the3'-OH end of the primer-template and stabilizes POLB to thosesites where LP-BER proceeds; endonuclease FEN1 cleavage activityon substrates with double, nick, or gap flaps of distinctsequences and lengths; and DNA ligase I (LIG1) on long-patch baseexcision repair substrates. The 9-1-1 complex is necessary for therecruitment of RHNO1 to sites of double-stranded breaks (DSB)occurring during the S phase. RAD9A possesses 3'->5' doublestranded DNA exonuclease activity. Its phosphorylation by PRKCDmay be required for the formation of the 9-1-1 complex.{ECO:0000269|PubMed:10713044, ECO:0000269|PubMed:21659603}. Protein phosphatase which may play a role in theregulation of actin filament dynamics. Can dephosphorylate andactivate the actin binding/depolymerizing factor cofilin, whichsubsequently binds to actin filaments and stimulates theirdisassembly (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 RAD9A_SSH3


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 RAD9A_SSH3


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
RAD9ABCL2L1, AR, NR3C1, RAD1, HUS1, RAD17, HUS1B, CLSPN, HDAC1, ABL1, DNAJC7, BCL2, TOPBP1, RPA1, RPA2, FEN1, ATR, SETMAR, DNMT1, SF3B3, PCNA, COPS5, FEM1B, MSH2, MSH6, MSH3, ATRX, RHNO1, C10orf2, TRIM25SSH3APP, SHMT2, SORT1, TMEM248, OTUB1, CDH1, SLC4A1AP, ZNF330, HERC1, RELA, CRYBG3, NBR1, CDK5RAP2, PFAS, BIRC6, KDM5C, C7orf55, KIAA0232, JMJD4, PSME3, MKS1, POLA2, YBEY, HSPA8, ANGEL1, SSH3, PCMT1, KEAP1, CALU, STIP1, SPATA5L1, CECR5, CCT8L1P, C2orf47


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 RAD9A_SSH3


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 RAD9A_SSH3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneRAD9AC0085183Neoplasms, Second Primary1CTD_human