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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: 36918

FusionGeneSummary for SYNE2_RTN1

check button Fusion gene summary
Fusion gene informationFusion gene name: SYNE2_RTN1
Fusion gene ID: 36918
HgeneTgene
Gene symbol

SYNE2

RTN1

Gene ID

23224

6252

Gene namespectrin repeat containing nuclear envelope protein 2reticulon 1
SynonymsEDMD5|KASH2|NUA|NUANCE|Nesp2|Nesprin-2|SYNE-2|TROPHNSP
Cytomap

14q23.2

14q23.1

Type of geneprotein-codingprotein-coding
Descriptionnesprin-2KASH domain-containing protein 2nesprin 2nuclear envelope spectrin repeat protein 2nucleus and actin connecting element proteinpolytrophinspectrin repeat containing, nuclear envelope 2synaptic nuclear envelope protein 2synaptic nuclei expreticulon-1neuroendocrine-specific protein
Modification date2018052320180522
UniProtAcc

Q8WXH0

Q16799

Ensembl transtripts involved in fusion geneENST00000357395, ENST00000358025, 
ENST00000344113, ENST00000341472, 
ENST00000356081, ENST00000554584, 
ENST00000555002, ENST00000394768, 
ENST00000556725, ENST00000553455, 
ENST00000555022, ENST00000554805, 
ENST00000458046, ENST00000441438, 
ENST00000267484, ENST00000395090, 
ENST00000342503, ENST00000557422, 
Fusion gene scores* DoF score13 X 12 X 6=9364 X 3 X 4=48
# samples 154
** MAII scorelog2(15/936*10)=-2.64154602908752
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SYNE2 [Title/Abstract] AND RTN1 [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
HgeneSYNE2

GO:0090286

cytoskeletal anchoring at nuclear membrane

18396275


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-A7-A6VV-01ASYNE2chr14

64434564

+RTN1chr14

60213199

-
* 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
5UTR-3CDSENST00000357395ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
5UTR-intronENST00000357395ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
5UTR-intronENST00000357395ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
5UTR-intronENST00000357395ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
Frame-shitENST00000358025ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000358025ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000358025ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000358025ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
Frame-shitENST00000344113ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000344113ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000344113ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000344113ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000341472ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000341472ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000341472ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000341472ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000356081ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000356081ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000356081ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000356081ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
Frame-shitENST00000554584ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000554584ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000554584ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
5CDS-intronENST00000554584ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000555002ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000555002ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000555002ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000555002ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000394768ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000394768ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000394768ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000394768ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000556725ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000556725ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000556725ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000556725ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000553455ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000553455ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000553455ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000553455ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000555022ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000555022ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000555022ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000555022ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000554805ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000554805ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000554805ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000554805ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000458046ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000458046ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000458046ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000458046ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-3CDSENST00000441438ENST00000267484SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000441438ENST00000395090SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000441438ENST00000342503SYNE2chr14

64434564

+RTN1chr14

60213199

-
intron-intronENST00000441438ENST00000557422SYNE2chr14

64434564

+RTN1chr14

60213199

-

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FusionProtFeatures for SYNE2_RTN1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SYNE2

Q8WXH0

RTN1

Q16799

May be involved in neuroendocrine secretion or inmembrane trafficking in neuroendocrine cells.

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 SYNE2_RTN1


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 SYNE2_RTN1


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
SYNE2ACTC1, SLX4IP, TERF1, TERF2, CALM1, MAPK8IP2, SIRT7, SUN1, SUN2, MAPK1, MAPK3, PML, SDHA, NDUFB9, ICT1, UBC, HDAC11, CDC37, BRAP, CUL7, OBSL1, CEP170, THOP1, ARRB2, S100A4, SOD1, SUPT5H, PRPF4, MORC3, RNASEH2B, TBC1D16, GAN, BIN1, TMEM67, MKS1, CTDNEP1, CAPN6, VAPB, VAPA, MTNR1B, TRIM25, HEY1RTN1BCL2L1, UGCG, FAM160A2, PLEKHF2, HDAC8, SDCBP, RTN4, FGFR1, DYRK2, RTN2, PLSCR1, FAM210B, METTL7A, C4orf32, GYPB, SERPINE2, CYB5R3, TMEM43, TMEM70, SIGMAR1, SLC7A3, TMEM120B, TYMS, ARL6IP5, DERL2, NRAS, FAM213A, LMNA


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 SYNE2_RTN1


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 SYNE2_RTN1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSYNE2C0004238Atrial Fibrillation1CTD_human
HgeneSYNE2C0007134Renal Cell Carcinoma1CTD_human
HgeneSYNE2C2751805EMERY-DREIFUSS MUSCULAR DYSTROPHY 5, AUTOSOMAL DOMINANT1UNIPROT
TgeneRTN1C0151744Myocardial Ischemia1CTD_human