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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:SSBP2-RPS23

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: SSBP2-RPS23
FusionPDB ID: 86717
FusionGDB2.0 ID: 86717
HgeneTgene
Gene symbol

SSBP2

RPS23

Gene ID

23635

6228

Gene namesingle stranded DNA binding protein 2ribosomal protein S23
SynonymsHSPC116|SOSS-B2BTDD|MABAS|MCINS|PAMAS|S23|uS12
Cytomap

5q14.1

5q14.2

Type of geneprotein-codingprotein-coding
Descriptionsingle-stranded DNA-binding protein 2sequence-specific single-stranded-DNA-binding protein 240S ribosomal protein S23homolog of yeast ribosomal protein S28small ribosomal subunit protein uS12
Modification date2020031320200313
UniProtAcc

P81877

.
Ensembl transtripts involved in fusion geneENST idsENST00000320672, ENST00000505980, 
ENST00000509053, ENST00000514493, 
ENST00000515395, ENST00000510060, 
ENST00000503605, ENST00000511844, 
ENST00000296674, ENST00000507980, 
ENST00000510019, ENST00000512493, 
ENST00000510210, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score12 X 13 X 6=9369 X 8 X 3=216
# samples 149
** MAII scorelog2(14/936*10)=-2.74108170263844
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(9/216*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: SSBP2 [Title/Abstract] AND RPS23 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)SSBP2(81046800)-RPS23(81573671), # samples:2
Anticipated loss of major functional domain due to fusion event.SSBP2-RPS23 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
SSBP2-RPS23 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
SSBP2-RPS23 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
SSBP2-RPS23 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
SSBP2-RPS23 seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
SSBP2-RPS23 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
TgeneRPS23

GO:0002181

cytoplasmic translation

25957688


check buttonFusion gene breakpoints across SSBP2 (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 RPS23 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4STADTCGA-BR-4187-01ASSBP2chr5

81046800

-RPS23chr5

81573671

-


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000320672SSBP2chr581046800-ENST00000510210RPS23chr581573671-1309273194673159
ENST00000509053SSBP2chr581046800-ENST00000510210RPS23chr581573671-110468525169118
ENST00000514493SSBP2chr581046800-ENST00000510210RPS23chr581573671-1306270191670159
ENST00000505980SSBP2chr581046800-ENST00000510210RPS23chr581573671-110367524168118
ENST00000515395SSBP2chr581046800-ENST00000510210RPS23chr581573671-115311738517159

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
ENST00000320672ENST00000510210SSBP2chr581046800-RPS23chr581573671-0.81068770.18931231
ENST00000509053ENST00000510210SSBP2chr581046800-RPS23chr581573671-0.728785750.27121428
ENST00000514493ENST00000510210SSBP2chr581046800-RPS23chr581573671-0.77311470.22688529
ENST00000505980ENST00000510210SSBP2chr581046800-RPS23chr581573671-0.70845650.29154348
ENST00000515395ENST00000510210SSBP2chr581046800-RPS23chr581573671-0.64347390.35652608

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>86717_86717_1_SSBP2-RPS23_SSBP2_chr5_81046800_ENST00000320672_RPS23_chr5_81573671_ENST00000510210_length(amino acids)=159AA_BP=27
MLSAQACTAKARVTAAPSRPTARPGRSKCRGLRTARKLRSHRRDQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSA

--------------------------------------------------------------

>86717_86717_2_SSBP2-RPS23_SSBP2_chr5_81046800_ENST00000505980_RPS23_chr5_81573671_ENST00000510210_length(amino acids)=118AA_BP=
MLLIYLLTGVSYIRFKAEGSQLHFNHATVSMKTLKADSRNITNSMTFATKSSNQNFIIFLNKVQATVIGYKGCDFLAILDQLDPYTLPNG

--------------------------------------------------------------

>86717_86717_3_SSBP2-RPS23_SSBP2_chr5_81046800_ENST00000509053_RPS23_chr5_81573671_ENST00000510210_length(amino acids)=118AA_BP=
MLLIYLLTGVSYIRFKAEGSQLHFNHATVSMKTLKADSRNITNSMTFATKSSNQNFIIFLNKVQATVIGYKGCDFLAILDQLDPYTLPNG

--------------------------------------------------------------

>86717_86717_4_SSBP2-RPS23_SSBP2_chr5_81046800_ENST00000514493_RPS23_chr5_81573671_ENST00000510210_length(amino acids)=159AA_BP=27
MLSAQACTAKARVTAAPSRPTARPGRSKCRGLRTARKLRSHRRDQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSA

--------------------------------------------------------------

>86717_86717_5_SSBP2-RPS23_SSBP2_chr5_81046800_ENST00000515395_RPS23_chr5_81573671_ENST00000510210_length(amino acids)=159AA_BP=27
MLSAQACTAKARVTAAPSRPTARPGRSKCRGLRTARKLRSHRRDQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSA

--------------------------------------------------------------

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Fusion Protein Functional Features


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/chr5:81046800/chr5:81573671)
- 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
SSBP2

P81877

.
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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSSBP2chr5:81046800chr5:81573671ENST00000320672-117100_29320.666666666666668362.0Compositional biasNote=Pro-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000320672-117147_31220.666666666666668362.0Compositional biasNote=Gly-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000505980-116100_29320.666666666666668342.0Compositional biasNote=Pro-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000505980-116147_31220.666666666666668342.0Compositional biasNote=Gly-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000509053-115100_29320.666666666666668299.0Compositional biasNote=Pro-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000509053-115147_31220.666666666666668299.0Compositional biasNote=Gly-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000514493-116100_29320.666666666666668332.0Compositional biasNote=Pro-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000514493-116147_31220.666666666666668332.0Compositional biasNote=Gly-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000515395-116100_29320.666666666666668340.0Compositional biasNote=Pro-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000515395-116147_31220.666666666666668340.0Compositional biasNote=Gly-rich
HgeneSSBP2chr5:81046800chr5:81573671ENST00000320672-11718_5020.666666666666668362.0DomainLisH
HgeneSSBP2chr5:81046800chr5:81573671ENST00000505980-11618_5020.666666666666668342.0DomainLisH
HgeneSSBP2chr5:81046800chr5:81573671ENST00000509053-11518_5020.666666666666668299.0DomainLisH
HgeneSSBP2chr5:81046800chr5:81573671ENST00000514493-11618_5020.666666666666668332.0DomainLisH
HgeneSSBP2chr5:81046800chr5:81573671ENST00000515395-11618_5020.666666666666668340.0DomainLisH


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors
SSBP2EWSR1, LDB1, IL36RN, TAL1, LMO2, TRIM33, DYRK2, CDK6, BAG3, TOM1, LDB2, LMX1B, IDI2, ISL2, ISL1, SSBP4, SSBP3, CLEC18A, LMO4, LHX4, LHX6, PIN1, ARHGAP22, ARHGEF10, CAMK2A, FPR1, RRD1, CBFA2T3, NABP1, INTS3, MYH9, ACACA, PC, MCCC2, MCCC1, EP300, PYGO1, BCL9, ORC6, BCL9L, LHX3, MFAP4, LMO1, LMO3, PICK1, VIM, S100A7A, HLA-DRB1, HMOX1, NDRG2, LCP1, IGHG1, IGHG2, TYMP, HIST1H2AG, HLA-DRA, PPL, IL36G, HIST1H1B, NDRG1, IVL, TREX2, IL1RN, GLUL, EVPL, SERPINA1, MNDA, TF, TRIM29, SERPINB3, SERPINB4, SERPINB2, C3, HLA-DQB1, HLA-DPB1, LGALS7B, FGB, SERPINB7, CBR1, ALOX15, IGKC, STAT3, SULT2B1, CALML3, PYCARD, CALML5, IGLL5, H2AFY, T, GATA2, LHX1, LHX2, LHX8, TEAD1, TLX1,


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
SSBP2all structure
RPS23


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to SSBP2-RPS23


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to SSBP2-RPS23


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSSBP2C0005586Bipolar Disorder1CTD_human
HgeneSSBP2C0005587Depression, Bipolar1CTD_human
HgeneSSBP2C0024713Manic Disorder1CTD_human
HgeneSSBP2C0033578Prostatic Neoplasms1CTD_human
HgeneSSBP2C0338831Manic1CTD_human
HgeneSSBP2C0376358Malignant neoplasm of prostate1CTD_human