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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:SRRM1-SRRM1 (FusionGDB2 ID:86539)

Fusion Gene Summary for SRRM1-SRRM1

check button Fusion gene summary
Fusion gene informationFusion gene name: SRRM1-SRRM1
Fusion gene ID: 86539
HgeneTgene
Gene symbol

SRRM1

SRRM1

Gene ID

10250

10250

Gene nameserine and arginine repetitive matrix 1serine and arginine repetitive matrix 1
Synonyms160-KD|POP101|SRM160160-KD|POP101|SRM160
Cytomap

1p36.11

1p36.11

Type of geneprotein-codingprotein-coding
Descriptionserine/arginine repetitive matrix protein 1SR-related nuclear matrix protein of 160 kDaSer/Arg-related nuclear matrix proteinserine/arginine repetitive matrix protein 1SR-related nuclear matrix protein of 160 kDaSer/Arg-related nuclear matrix protein
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000479034, ENST00000323848, 
ENST00000374389, ENST00000447431, 
ENST00000537199, 		ENST00000323848, 
ENST00000374389, ENST00000447431, 
ENST00000479034, ENST00000537199, 
Fusion gene scores* DoF score8 X 11 X 3=2647 X 11 X 4=308
# samples 1011
** MAII scorelog2(10/264*10)=-1.40053792958373
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(11/308*10)=-1.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SRRM1 [Title/Abstract] AND SRRM1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSRRM1(24969771)-SRRM1(24972475), # samples:1
SRRM1(24979027)-SRRM1(24979402), # samples:1
SRRM1(24973215)-SRRM1(24995935), # samples:1
Anticipated loss of major functional domain due to fusion event.SRRM1-SRRM1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
SRRM1-SRRM1 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
* 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 buttonFusion gene breakpoints across SRRM1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across SRRM1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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/AAA380469SRRM1chr1

24969771

-SRRM1chr1

24972475

+
ChiTaRS5.0N/ABF946590SRRM1chr1

24979027

-SRRM1chr1

24979402

+
ChiTaRS5.0N/ABM678067SRRM1chr1

24973215

-SRRM1chr1

24995935

-


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Fusion Gene ORF analysis for SRRM1-SRRM1

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-3CDSENST00000479034ENST00000323848SRRM1chr1

24979027

-SRRM1chr1

24979402

+
3UTR-3CDSENST00000479034ENST00000323848SRRM1chr1

24973215

-SRRM1chr1

24995935

-
3UTR-3CDSENST00000479034ENST00000374389SRRM1chr1

24973215

-SRRM1chr1

24995935

-
3UTR-3CDSENST00000479034ENST00000447431SRRM1chr1

24979027

-SRRM1chr1

24979402

+
3UTR-3CDSENST00000479034ENST00000447431SRRM1chr1

24973215

-SRRM1chr1

24995935

-
3UTR-3UTRENST00000479034ENST00000479034SRRM1chr1

24979027

-SRRM1chr1

24979402

+
3UTR-3UTRENST00000479034ENST00000479034SRRM1chr1

24973215

-SRRM1chr1

24995935

-
3UTR-3UTRENST00000479034ENST00000537199SRRM1chr1

24979027

-SRRM1chr1

24979402

+
3UTR-intronENST00000479034ENST00000374389SRRM1chr1

24979027

-SRRM1chr1

24979402

+
3UTR-intronENST00000479034ENST00000537199SRRM1chr1

24973215

-SRRM1chr1

24995935

-
5CDS-3UTRENST00000323848ENST00000479034SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-3UTRENST00000323848ENST00000479034SRRM1chr1

24973215

-SRRM1chr1

24995935

-
5CDS-3UTRENST00000323848ENST00000537199SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-3UTRENST00000374389ENST00000479034SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-3UTRENST00000374389ENST00000479034SRRM1chr1

24973215

-SRRM1chr1

24995935

-
5CDS-3UTRENST00000374389ENST00000537199SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-3UTRENST00000447431ENST00000479034SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-3UTRENST00000447431ENST00000479034SRRM1chr1

24973215

-SRRM1chr1

24995935

-
5CDS-3UTRENST00000447431ENST00000537199SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-3UTRENST00000537199ENST00000479034SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-3UTRENST00000537199ENST00000537199SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-intronENST00000323848ENST00000374389SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-intronENST00000323848ENST00000537199SRRM1chr1

24973215

-SRRM1chr1

24995935

-
5CDS-intronENST00000374389ENST00000374389SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-intronENST00000374389ENST00000537199SRRM1chr1

24973215

-SRRM1chr1

24995935

-
5CDS-intronENST00000447431ENST00000374389SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5CDS-intronENST00000447431ENST00000537199SRRM1chr1

24973215

-SRRM1chr1

24995935

-
5CDS-intronENST00000537199ENST00000374389SRRM1chr1

24979027

-SRRM1chr1

24979402

+
5UTR-3CDSENST00000323848ENST00000323848SRRM1chr1

24969771

-SRRM1chr1

24972475

+
5UTR-3CDSENST00000323848ENST00000374389SRRM1chr1

24969771

-SRRM1chr1

24972475

+
5UTR-3CDSENST00000323848ENST00000447431SRRM1chr1

24969771

-SRRM1chr1

24972475

+
5UTR-3UTRENST00000323848ENST00000479034SRRM1chr1

24969771

-SRRM1chr1

24972475

+
5UTR-intronENST00000323848ENST00000537199SRRM1chr1

24969771

-SRRM1chr1

24972475

+
Frame-shiftENST00000323848ENST00000323848SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000323848ENST00000374389SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000323848ENST00000447431SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000374389ENST00000323848SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000374389ENST00000374389SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000374389ENST00000447431SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000447431ENST00000323848SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000447431ENST00000374389SRRM1chr1

24973215

-SRRM1chr1

24995935

-
Frame-shiftENST00000447431ENST00000447431SRRM1chr1

24973215

-SRRM1chr1

24995935

-
In-frameENST00000323848ENST00000323848SRRM1chr1

24979027

-SRRM1chr1

24979402

+
In-frameENST00000323848ENST00000447431SRRM1chr1

24979027

-SRRM1chr1

24979402

+
In-frameENST00000374389ENST00000323848SRRM1chr1

24979027

-SRRM1chr1

24979402

+
In-frameENST00000374389ENST00000447431SRRM1chr1

24979027

-SRRM1chr1

24979402

+
In-frameENST00000447431ENST00000323848SRRM1chr1

24979027

-SRRM1chr1

24979402

+
In-frameENST00000447431ENST00000447431SRRM1chr1

24979027

-SRRM1chr1

24979402

+
In-frameENST00000537199ENST00000323848SRRM1chr1

24979027

-SRRM1chr1

24979402

+
In-frameENST00000537199ENST00000447431SRRM1chr1

24979027

-SRRM1chr1

24979402

+
intron-3CDSENST00000374389ENST00000323848SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000374389ENST00000374389SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000374389ENST00000447431SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000447431ENST00000323848SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000447431ENST00000374389SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000447431ENST00000447431SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000479034ENST00000323848SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000479034ENST00000374389SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000479034ENST00000447431SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000537199ENST00000323848SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000537199ENST00000323848SRRM1chr1

24973215

-SRRM1chr1

24995935

-
intron-3CDSENST00000537199ENST00000374389SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000537199ENST00000374389SRRM1chr1

24973215

-SRRM1chr1

24995935

-
intron-3CDSENST00000537199ENST00000447431SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3CDSENST00000537199ENST00000447431SRRM1chr1

24973215

-SRRM1chr1

24995935

-
intron-3UTRENST00000374389ENST00000479034SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3UTRENST00000447431ENST00000479034SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3UTRENST00000479034ENST00000479034SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3UTRENST00000537199ENST00000479034SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-3UTRENST00000537199ENST00000479034SRRM1chr1

24973215

-SRRM1chr1

24995935

-
intron-intronENST00000374389ENST00000537199SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-intronENST00000447431ENST00000537199SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-intronENST00000479034ENST00000537199SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-intronENST00000537199ENST00000537199SRRM1chr1

24969771

-SRRM1chr1

24972475

+
intron-intronENST00000537199ENST00000537199SRRM1chr1

24973215

-SRRM1chr1

24995935

-

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 SRRM1-SRRM1


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)
SRRM1chr124969774-SRRM1chr124972474+4.53E-070.9999995
SRRM1chr124969774-SRRM1chr124972474+4.53E-070.9999995

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.
genomic feature

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.
genomic feature of top 1%

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Fusion Protein Features for SRRM1-SRRM1


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr1:24969771/chr1:24972475)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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
TgeneSRRM1chr1:24979027chr1:24979402ENST00000323848617550_799306905.0Compositional biasNote=Pro-rich
TgeneSRRM1chr1:24979027chr1:24979402ENST00000323848617809_835306905.0Compositional biasNote=Lys-rich
TgeneSRRM1chr1:24979027chr1:24979402ENST00000323848617836_865306905.0Compositional biasNote=Ala-rich

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-117163_7260905.0Compositional biasNote=Arg-rich
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-117210_4170905.0Compositional biasNote=Pro-rich
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-117278_7560905.0Compositional biasNote=Ser-rich
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-117550_7990905.0Compositional biasNote=Pro-rich
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-117809_8350905.0Compositional biasNote=Lys-rich
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-117836_8650905.0Compositional biasNote=Ala-rich
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-11727_1260905.0DomainPWI
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-1171_1510905.0RegionNote=Necessary for DNA and RNA-binding
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-1171_1560905.0RegionNote=Necessary for mRNA 3'-end cleavage and cytoplasmic accumulation
HgeneSRRM1chr1:24979027chr1:24979402ENST00000323848-117300_6880905.0RegionNote=Necessary for speckles and matrix localization
TgeneSRRM1chr1:24979027chr1:24979402ENST00000323848617163_726306905.0Compositional biasNote=Arg-rich
TgeneSRRM1chr1:24979027chr1:24979402ENST00000323848617210_417306905.0Compositional biasNote=Pro-rich
TgeneSRRM1chr1:24979027chr1:24979402ENST00000323848617278_756306905.0Compositional biasNote=Ser-rich
TgeneSRRM1chr1:24979027chr1:24979402ENST0000032384861727_126306905.0DomainPWI
TgeneSRRM1chr1:24979027chr1:24979402ENST000003238486171_151306905.0RegionNote=Necessary for DNA and RNA-binding
TgeneSRRM1chr1:24979027chr1:24979402ENST000003238486171_156306905.0RegionNote=Necessary for mRNA 3'-end cleavage and cytoplasmic accumulation
TgeneSRRM1chr1:24979027chr1:24979402ENST00000323848617300_688306905.0RegionNote=Necessary for speckles and matrix localization


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Fusion Gene Sequence for SRRM1-SRRM1


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 SRRM1-SRRM1


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 SRRM1-SRRM1


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 SRRM1-SRRM1


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