UTHEALTH HOME    ABOUT SBMI    A-Z    WEBMAIL    INSIDE THE UNIVERSITY
FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact

Terms of Use

Center for Computational Systems Medicine level1
leaf

Fusion Gene Summary

leaf

Fusion Gene Sample Information

leaf

Fusion ORF Analysis

leaf

Fusion Amino Acid Sequences

leaf

Fusion Protein Functional Features

leaf

Fusion Protein-Protein Interaction

leaf

Related drugs with this fusion protein

leaf

Related disease with this fusion protein

Fusion Protein:SF3B2-RPL11

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: SF3B2-RPL11
FusionPDB ID: 81057
FusionGDB2.0 ID: 81057
HgeneTgene
Gene symbol

SF3B2

RPL11

Gene ID

10992

6135

Gene namesplicing factor 3b subunit 2ribosomal protein L11
SynonymsCus1|SAP145|SF3B145|SF3b1|SF3b150DBA7|GIG34|L11|uL5
Cytomap

11q13.1

1p36.11

Type of geneprotein-codingprotein-coding
Descriptionsplicing factor 3B subunit 2SAP 145pre-mRNA splicing factor SF3b 145 kDa subunitspliceosome associated protein 145splicing factor 3b, subunit 2, 145kDsplicing factor 3b, subunit 2, 145kDa60S ribosomal protein L11CLL-associated antigen KW-12cell growth-inhibiting protein 34large ribosomal subunit protein uL5
Modification date2020031320200327
UniProtAcc..
Ensembl transtripts involved in fusion geneENST idsENST00000322535, ENST00000528302, 
ENST00000534307, 
ENST00000482370, 
ENST00000374550, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score11 X 14 X 5=77016 X 16 X 9=2304
# samples 1522
** MAII scorelog2(15/770*10)=-2.35989594508638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(22/2304*10)=-3.38856528791765
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: SF3B2 [Title/Abstract] AND RPL11 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)SF3B2(65828202)-RPL11(24022288), # samples:1
Anticipated loss of major functional domain due to fusion event.SF3B2-RPL11 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.
SF3B2-RPL11 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.
SF3B2-RPL11 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.
SF3B2-RPL11 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.
* 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
HgeneSF3B2

GO:0000398

mRNA splicing, via spliceosome

29360106

TgeneRPL11

GO:0002181

cytoplasmic translation

25957688

TgeneRPL11

GO:0010628

positive regulation of gene expression

18560357

TgeneRPL11

GO:2000435

negative regulation of protein neddylation

18560357


check buttonFusion gene breakpoints across SF3B2 (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 RPL11 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


Top

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-IN-7808-01ASF3B2chr11

65828202

+RPL11chr1

24022288

+


Top

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)
ENST00000528302SF3B2chr1165828202+ENST00000374550RPL11chr124022288+1975178231922639
ENST00000322535SF3B2chr1165828202+ENST00000374550RPL11chr124022288+2021182841968654

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
ENST00000528302ENST00000374550SF3B2chr1165828202+RPL11chr124022288+0.0235539580.97644603
ENST00000322535ENST00000374550SF3B2chr1165828202+RPL11chr124022288+0.0223845110.97761554

Top

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

>81057_81057_1_SF3B2-RPL11_SF3B2_chr11_65828202_ENST00000322535_RPL11_chr1_24022288_ENST00000374550_length(amino acids)=654AA_BP=608
MAPASGLVARLPAAKMATEHPEPPKAELQLPPPPPPGHYGAWAAQELQAKLAEIGAPIQGNREELVERLQSYTRQTGIVLNRPVLRGEDG
DKAAPPPMSAQLPGIPMPPPPLGLPPLQPPPPPPPPPPGLGLGFPMAHPPNLGPPPPLRVGEPVALSEEERLKLAQQQAALLMQQEERAK
QQGDHSLKEHELLEQQKRAAVLLEQERQQEIAKMGTPVPRPPQDMGQIGVRTPLGPRVAAPVGPVGPTPTVLPMGAPVPRPRGPPPPPGD
ENREMDDPSVGPKIPQALEKILQLKESRQEEMNSQQEEEEMETDARSSLGQSASETEEDTVSVSKKEKNRKRRNRKKKKKPQRVRGVSSE
SSGDREKDSTRSRGSDSPAADVEIEYVTEEPEIYEPNFIFFKRIFEAFKLTDDVKKEKEKEPEKLDKLENSAAPKKKGFEEEHKDSDDDS
SDDEQEKKPEAPKLSKKKLRRMNRFTVAELKQLVARPDVVEMHDVTAQDPKLLVHLKATRNSVPVPRHWCFKRKYLQGKRGIEKPPFELP
DFIKRTGIQEMREALQEKEEQKTMKSKMREKVRPKMGKIDIDYQKLHDAFFKWQTKPKLTIHGDLYYEVLGRPGFSIADKKRRTGCIGAK

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

>81057_81057_2_SF3B2-RPL11_SF3B2_chr11_65828202_ENST00000528302_RPL11_chr1_24022288_ENST00000374550_length(amino acids)=639AA_BP=593
MRLAPASGLVARLPAAKMATEHPEPPKAELQLPPPPPPGHYGAWAAQELQAKLAEIGAPIQGNREELVERLQSYTRQTGIVLNRPVLRGE
DGDKAAPPPMSAQLPGIPMPPPPLGLPPLQPPPPPPPPPPGLGLGFPMAHPPNLGPPPPLRVGEPVALSEEERLKLAQQQAALLMQQEER
AKQAAVLLEQERQQEIAKMGTPVPRPPQDMGQIGVRTPLGPRVAAPVGPVGPTPTVLPMGAPVPRPRGPPPPPGDENREMDDPSVGPKIP
QALEKILQLKESRQEEMNSQQEEEEMETDARSSLGQSASETEEDTVSVSKKEKNRKRRNRKKKKKPQRVRGVSSESSGDREKDSTRSRGS
DSPAADVEIEYVTEEPEIYEPNFIFFKRIFEAFKLTDDVKKEKEKEPEKLDKLENSAAPKKKGFEEEHKDSDDDSSDDEQEKKPEAPKLS
KKKLRRMNRFTVAELKQLVARPDVVEMHDVTAQDPKLLVHLKATRNSVPVPRHWCFKRKYLQGKRGIEKPPFELPDFIKRTGIQEMREAL
QEKEEQKTMKSKMREKVRPKMGKIDIDYQKLHDAFFKWQTKPKLTIHGDLYYEVLGRPGFSIADKKRRTGCIGAKHRISKEEAMRWFQQK

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

Top

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/chr11:65828202/chr1:24022288)
- 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: 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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422140_199593.0896.0Coiled coilOntology_term=ECO:0000255
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422104_113593.0896.0Compositional biasNote=Poly-Pro
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422129_132593.0896.0Compositional biasNote=Poly-Pro
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+142216_21593.0896.0Compositional biasNote=Poly-Pro
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422249_253593.0896.0Compositional biasNote=Poly-Pro
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422292_297593.0896.0Compositional biasNote=Poly-Glu
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422331_335593.0896.0Compositional biasNote=Poly-Lys
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+142291_96593.0896.0Compositional biasNote=Poly-Pro
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+142224_58593.0896.0DomainSAP

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422699_702593.0896.0Compositional biasNote=Poly-Glu
HgeneSF3B2chr11:65828202chr1:24022288ENST00000322535+1422720_726593.0896.0Compositional biasNote=Poly-Glu


Top

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


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
SF3B2
RPL11


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


Top

Related Drugs to SF3B2-RPL11


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

Top

Related Diseases to SF3B2-RPL11


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