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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: 32353

FusionGeneSummary for RTN3_HELLS

check button Fusion gene summary
Fusion gene informationFusion gene name: RTN3_HELLS
Fusion gene ID: 32353
HgeneTgene
Gene symbol

RTN3

HELLS

Gene ID

10313

3070

Gene namereticulon 3helicase, lymphoid specific
SynonymsASYIP|HAP|NSPL2|NSPLII|RTN3-A1ICF4|LSH|Nbla10143|PASG|SMARCA6
Cytomap

11q13.1

10q23.33

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 IIlymphoid-specific helicaseSWI/SNF2-related, matrix-associated, actin-dependent regulator of chromatin, subfamily A, member 6proliferation-associated SNF2-like protein
Modification date2018052220180522
UniProtAcc

O95197

Q9NRZ9

Ensembl transtripts involved in fusion geneENST00000341307, ENST00000356000, 
ENST00000538995, ENST00000377819, 
ENST00000339997, ENST00000540798, 
ENST00000537981, ENST00000354497, 
ENST00000394036, ENST00000394045, 
ENST00000348459, ENST00000371332, 
ENST00000239026, ENST00000394044, 
ENST00000462057, 
Fusion gene scores* DoF score7 X 3 X 4=845 X 4 X 3=60
# samples 87
** MAII scorelog2(8/84*10)=-0.070389327891398
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(7/60*10)=0.222392421336448
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: RTN3 [Title/Abstract] AND HELLS [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


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
ChiTaRS3.1CN480729RTN3chr11

63526457

-HELLSchr10

96313882

+
* 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-3CDSENST00000341307ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000341307ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000341307ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000341307ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000341307ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000341307ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000341307ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000356000ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000356000ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000356000ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000356000ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000356000ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000356000ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000356000ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000538995ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000538995ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000538995ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000538995ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000538995ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000538995ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000538995ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000377819ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000377819ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000377819ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000377819ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000377819ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000377819ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000377819ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000339997ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000339997ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000339997ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000339997ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000339997ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000339997ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000339997ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000540798ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000540798ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000540798ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000540798ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000540798ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000540798ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
intron-3CDSENST00000540798ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000537981ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000537981ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000537981ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000537981ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000537981ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000537981ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000537981ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000354497ENST00000394036RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000354497ENST00000394045RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000354497ENST00000348459RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000354497ENST00000371332RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000354497ENST00000239026RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000354497ENST00000394044RTN3chr11

63526457

-HELLSchr10

96313882

+
3UTR-3CDSENST00000354497ENST00000462057RTN3chr11

63526457

-HELLSchr10

96313882

+

Top

FusionProtFeatures for RTN3_HELLS


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

O95197

HELLS

Q9NRZ9


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


Top

FusionGeneSequence for RTN3_HELLS


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).

Top

FusionGenePPI for RTN3_HELLS


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


Top

RelatedDrugs for RTN3_HELLS


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

RelatedDiseases for RTN3_HELLS


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneHELLSC0023893Liver Cirrhosis, Experimental1CTD_human
TgeneHELLSC0032460Polycystic Ovary Syndrome1CTD_human