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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: 32357

FusionGeneSummary for RTN3_TCERG1

check button Fusion gene summary
Fusion gene informationFusion gene name: RTN3_TCERG1
Fusion gene ID: 32357
HgeneTgene
Gene symbol

RTN3

TCERG1

Gene ID

10313

10915

Gene namereticulon 3transcription elongation regulator 1
SynonymsASYIP|HAP|NSPL2|NSPLII|RTN3-A1CA150|TAF2S|Urn1
Cytomap

11q13.1

5q32

Type of geneprotein-codingprotein-coding
Descriptionreticulon-3ASY interacting proteinNSP-like protein 2NSP-like protein IIhomolog of ASY proteinneuroendocrine-specific protein-like 2neuroendocrine-specific protein-like IItranscription elongation regulator 1TATA box binding protein (TBP)-associated factor, RNA polymerase II, S, 150kDTATA box-binding protein-associated factor 2Sco-activator of 150 kDatranscription factor CA150
Modification date2018052220180523
UniProtAcc

O95197

O14776

Ensembl transtripts involved in fusion geneENST00000341307, ENST00000356000, 
ENST00000538995, ENST00000377819, 
ENST00000339997, ENST00000540798, 
ENST00000537981, ENST00000354497, 
ENST00000296702, ENST00000394421, 
ENST00000509787, 
Fusion gene scores* DoF score7 X 3 X 4=845 X 6 X 2=60
# samples 86
** MAII scorelog2(8/84*10)=-0.070389327891398
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(6/60*10)=0
Context

PubMed: RTN3 [Title/Abstract] AND TCERG1 [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
HgeneRTN3

GO:0071787

endoplasmic reticulum tubular network formation

25612671

TgeneTCERG1

GO:0000122

negative regulation of transcription by RNA polymerase II

20956529


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
ChiTaRS3.1AA099776RTN3chr11

63527121

-TCERG1chr5

145882945

+
* 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
3UTR-3CDSENST00000341307ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000341307ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3UTRENST00000341307ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000356000ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000356000ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3UTRENST00000356000ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3CDSENST00000538995ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3CDSENST00000538995ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3UTRENST00000538995ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000377819ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000377819ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3UTRENST00000377819ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000339997ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000339997ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3UTRENST00000339997ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3CDSENST00000540798ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3CDSENST00000540798ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3UTRENST00000540798ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000537981ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3CDSENST00000537981ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
3UTR-3UTRENST00000537981ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3CDSENST00000354497ENST00000296702RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3CDSENST00000354497ENST00000394421RTN3chr11

63527121

-TCERG1chr5

145882945

+
intron-3UTRENST00000354497ENST00000509787RTN3chr11

63527121

-TCERG1chr5

145882945

+

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FusionProtFeatures for RTN3_TCERG1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
RTN3

O95197

TCERG1

O14776

Transcription factor that binds RNA polymerase II andinhibits the elongation of transcripts from target promoters.Regulates transcription elongation in a TATA box-dependent manner.Necessary for TAT-dependent activation of the humanimmunodeficiency virus type 1 (HIV-1) promoter.{ECO:0000269|PubMed:11604498, ECO:0000269|PubMed:9315662}.

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 RTN3_TCERG1


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 RTN3_TCERG1


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 RTN3_TCERG1


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 RTN3_TCERG1


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