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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:SSR1-SRPK2 (FusionGDB2 ID:86232)

Fusion Gene Summary for SSR1-SRPK2

check button Fusion gene summary
Fusion gene informationFusion gene name: SSR1-SRPK2
Fusion gene ID: 86232
HgeneTgene
Gene symbol

SSR1

SRPK2

Gene ID

6745

6733

Gene namesignal sequence receptor subunit 1SRSF protein kinase 2
SynonymsTRAPASFRSK2
Cytomap

6p24.3

7q22.3

Type of geneprotein-codingprotein-coding
Descriptiontranslocon-associated protein subunit alphaSSR alpha subunitSSR-alphaTRAP alphasignal sequence receptor subunit alphasignal sequence receptor, alphatranslocon-associated protein alpha subunitSRSF protein kinase 2SFRS protein kinase 2SR protein kinase 2SR-protein-specific kinase 2serine kinase SRPK2serine/arginine-rich protein-specific kinase 2serine/arginine-rich splicing factor kinase 2serine/threonine-protein kinase SRPK2
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000488834, ENST00000474597, 
ENST00000244763, ENST00000397511, 
ENST00000534851, ENST00000489567, 
ENST00000479365, ENST00000462112, 
ENST00000393651, ENST00000357311, 
ENST00000489828, ENST00000493638, 
Fusion gene scores* DoF score15 X 18 X 8=216013 X 13 X 5=845
# samples 1813
** MAII scorelog2(18/2160*10)=-3.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/845*10)=-2.70043971814109
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SSR1 [Title/Abstract] AND SRPK2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSSR1(7288657)-SRPK2(104783707), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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
TgeneSRPK2

GO:0000245

spliceosomal complex assembly

9472028

TgeneSRPK2

GO:0006468

protein phosphorylation

9472028

TgeneSRPK2

GO:0008284

positive regulation of cell proliferation

18559500

TgeneSRPK2

GO:0008380

RNA splicing

9472028

TgeneSRPK2

GO:0035556

intracellular signal transduction

9472028

TgeneSRPK2

GO:0045070

positive regulation of viral genome replication

20498328

TgeneSRPK2

GO:0045071

negative regulation of viral genome replication

12417631


check buttonFusion gene breakpoints across SSR1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across SRPK2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS5.0N/AAW392218SSR1chr6

7288657

+SRPK2chr7

104783707

+


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Fusion Gene ORF analysis for SSR1-SRPK2

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-3CDSENST00000488834ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000488834ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000488834ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000488834ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000474597ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000474597ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000474597ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000474597ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000244763ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000244763ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000244763ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000244763ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000397511ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000397511ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000397511ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000397511ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000534851ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000534851ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000534851ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000534851ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000489567ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000489567ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000489567ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000489567ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000479365ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000479365ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000479365ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000479365ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000462112ENST00000393651SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000462112ENST00000357311SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-3CDSENST00000462112ENST00000489828SSR1chr6

7288657

+SRPK2chr7

104783707

+
intron-intronENST00000462112ENST00000493638SSR1chr6

7288657

+SRPK2chr7

104783707

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for SSR1-SRPK2


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for SSR1-SRPK2


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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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Fusion Gene Sequence for SSR1-SRPK2


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for SSR1-SRPK2


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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Related Drugs for SSR1-SRPK2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for SSR1-SRPK2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSRPK2C0005586Bipolar Disorder1CTD_human
TgeneSRPK2C0005587Depression, Bipolar1CTD_human
TgeneSRPK2C0024713Manic Disorder1CTD_human
TgeneSRPK2C0338831Manic1CTD_human