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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: 7356

FusionGeneSummary for CLDND1_SDE2

check button Fusion gene summary
Fusion gene informationFusion gene name: CLDND1_SDE2
Fusion gene ID: 7356
HgeneTgene
Gene symbol

CLDND1

SDE2

Gene ID

56650

163859

Gene nameclaudin domain containing 1SDE2 telomere maintenance homolog
SynonymsC3orf4|GENX-3745|Z38C1orf55|dJ671D7.1
Cytomap

3q11.2

1q42.12

Type of geneprotein-codingprotein-coding
Descriptionclaudin domain-containing protein 1claudin domain containing 1 proteinmembrane protein GENX-3745replication stress response regulator SDE2UPF0667 protein C1orf55protein SDE2 homolog
Modification date2018051920180523
UniProtAcc

Q9NY35

Q6IQ49

Ensembl transtripts involved in fusion geneENST00000502288, ENST00000507874, 
ENST00000341181, ENST00000437922, 
ENST00000394180, ENST00000503004, 
ENST00000394185, ENST00000394181, 
ENST00000510545, ENST00000511081, 
ENST00000513287, ENST00000508503, 
ENST00000272091, 
Fusion gene scores* DoF score3 X 3 X 2=181 X 1 X 1=1
# samples 31
** MAII scorelog2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(1/1*10)=3.32192809488736
Context

PubMed: CLDND1 [Title/Abstract] AND SDE2 [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
ChiTaRS3.1AW607405CLDND1chr3

98235940

-SDE2chr1

226176061

-
* 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-3CDSENST00000502288ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000507874ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000341181ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000437922ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000394180ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000503004ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000394185ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000394181ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000510545ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000511081ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000513287ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-
intron-3CDSENST00000508503ENST00000272091CLDND1chr3

98235940

-SDE2chr1

226176061

-

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FusionProtFeatures for CLDND1_SDE2


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CLDND1

Q9NY35

SDE2

Q6IQ49

Involved in both DNA replication and cell cycle control(PubMed:27906959). Unprocessed SDE2 interacts with PCNA via itsPIP-box. The interaction with PCNA prevents monoubiquitination ofthe latter thereby inhibiting translesion DNA synthesis. Thebinding of SDE2 to PCNA also leads to processing of SDE2 by anunidentified deubiquinating enzyme, cleaving off the N-terminalubiquitin-like domain. The resulting mature SDE2 is degraded bythe DCX(DTL) complex in a cell cycle- and DNA damage dependentmanner (PubMed:27906959). Binding of SDE2 to PCNA is necessary tocounteract damage due to ultraviolet light induced replicationstress. The complete degradation of SDE2 is necessary to allow S-phase progression (PubMed:27906959).{ECO:0000269|PubMed:27906959}.

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 CLDND1_SDE2


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 CLDND1_SDE2


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 CLDND1_SDE2


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 CLDND1_SDE2


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