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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:DLK1-RPS11 (FusionGDB2 ID:23195)

Fusion Gene Summary for DLK1-RPS11

check button Fusion gene summary
Fusion gene informationFusion gene name: DLK1-RPS11
Fusion gene ID: 23195
HgeneTgene
Gene symbol

DLK1

RPS11

Gene ID

8788

6205

Gene namedelta like non-canonical Notch ligand 1ribosomal protein S11
SynonymsDLK|DLK-1|Delta1|FA1|PREF1|Pref-1|ZOG|pG2S11
Cytomap

14q32.2

19q13.33

Type of geneprotein-codingprotein-coding
Descriptionprotein delta homolog 1delta-like 1 homologfetal antigen 1preadipocyte factor 1secredeltin40S ribosomal protein S11small ribosomal subunit protein uS17
Modification date2020032920200327
UniProtAcc

P80370

.
Ensembl transtripts involved in fusion geneENST00000331224, ENST00000341267, 
ENST00000556051, 		ENST00000270625, 
ENST00000596873, ENST00000594493, 
ENST00000599561, 
Fusion gene scores* DoF score8 X 7 X 4=22414 X 51 X 16=11424
# samples 988
** MAII scorelog2(9/224*10)=-1.31550182572793
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(88/11424*10)=-3.69842055050444
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: DLK1 [Title/Abstract] AND RPS11 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointDLK1(101200728)-RPS11(50001254), # samples:1
DLK1(101201247)-RPS11(50000561), # samples:1
Anticipated loss of major functional domain due to fusion event.DLK1-RPS11 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
DLK1-RPS11 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
DLK1-RPS11 seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
DLK1-RPS11 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
HgeneDLK1

GO:0045746

negative regulation of Notch signaling pathway

25093684


check buttonFusion gene breakpoints across DLK1 (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 RPS11 (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
ChimerDB4ACCTCGA-OR-A5LC-01ADLK1chr14

101200728

+RPS11chr19

50001254

+
ChiTaRS5.0N/AAA368503DLK1chr14

101201247

-RPS11chr19

50000561

+


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Fusion Gene ORF analysis for DLK1-RPS11

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-3CDSENST00000331224ENST00000270625DLK1chr14

101201247

-RPS11chr19

50000561

+
3UTR-3CDSENST00000331224ENST00000596873DLK1chr14

101201247

-RPS11chr19

50000561

+
3UTR-3CDSENST00000341267ENST00000270625DLK1chr14

101201247

-RPS11chr19

50000561

+
3UTR-3CDSENST00000341267ENST00000596873DLK1chr14

101201247

-RPS11chr19

50000561

+
3UTR-5UTRENST00000331224ENST00000594493DLK1chr14

101201247

-RPS11chr19

50000561

+
3UTR-5UTRENST00000341267ENST00000594493DLK1chr14

101201247

-RPS11chr19

50000561

+
3UTR-intronENST00000331224ENST00000599561DLK1chr14

101201247

-RPS11chr19

50000561

+
3UTR-intronENST00000341267ENST00000599561DLK1chr14

101201247

-RPS11chr19

50000561

+
Frame-shiftENST00000331224ENST00000270625DLK1chr14

101200728

+RPS11chr19

50001254

+
Frame-shiftENST00000331224ENST00000594493DLK1chr14

101200728

+RPS11chr19

50001254

+
Frame-shiftENST00000331224ENST00000599561DLK1chr14

101200728

+RPS11chr19

50001254

+
Frame-shiftENST00000341267ENST00000270625DLK1chr14

101200728

+RPS11chr19

50001254

+
Frame-shiftENST00000341267ENST00000594493DLK1chr14

101200728

+RPS11chr19

50001254

+
Frame-shiftENST00000341267ENST00000599561DLK1chr14

101200728

+RPS11chr19

50001254

+
In-frameENST00000331224ENST00000596873DLK1chr14

101200728

+RPS11chr19

50001254

+
In-frameENST00000341267ENST00000596873DLK1chr14

101200728

+RPS11chr19

50001254

+
intron-3CDSENST00000556051ENST00000270625DLK1chr14

101200728

+RPS11chr19

50001254

+
intron-3CDSENST00000556051ENST00000270625DLK1chr14

101201247

-RPS11chr19

50000561

+
intron-3CDSENST00000556051ENST00000594493DLK1chr14

101200728

+RPS11chr19

50001254

+
intron-3CDSENST00000556051ENST00000596873DLK1chr14

101200728

+RPS11chr19

50001254

+
intron-3CDSENST00000556051ENST00000596873DLK1chr14

101201247

-RPS11chr19

50000561

+
intron-3CDSENST00000556051ENST00000599561DLK1chr14

101200728

+RPS11chr19

50001254

+
intron-5UTRENST00000556051ENST00000594493DLK1chr14

101201247

-RPS11chr19

50000561

+
intron-intronENST00000556051ENST00000599561DLK1chr14

101201247

-RPS11chr19

50000561

+

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)
ENST00000341267DLK1chr14101200728+ENST00000596873RPS11chr1950001254+171114572421150302
ENST00000331224DLK1chr14101200728+ENST00000596873RPS11chr1950001254+855601160723187

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
ENST00000341267ENST00000596873DLK1chr14101200728+RPS11chr1950001254+0.0051688440.99483114
ENST00000331224ENST00000596873DLK1chr14101200728+RPS11chr1950001254+0.041801490.9581985

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Fusion Genomic Features for DLK1-RPS11


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.
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.

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Fusion Protein Features for DLK1-RPS11


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/chr14:101200728/chr19:50001254)
- 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
DLK1

P80370

.
FUNCTION: May have a role in neuroendocrine differentiation.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

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+16127_1680311.0DomainEGF-like 4
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+16170_2060311.0DomainEGF-like 5
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+16208_2450311.0DomainEGF-like 6
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+1624_550311.0DomainEGF-like 1
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+1653_860311.0DomainEGF-like 2
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+1688_1250311.0DomainEGF-like 3
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+15127_1680384.0DomainEGF-like 4
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+15170_2060384.0DomainEGF-like 5
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+15208_2450384.0DomainEGF-like 6
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+1524_550384.0DomainEGF-like 1
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+1553_860384.0DomainEGF-like 2
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+1588_1250384.0DomainEGF-like 3
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+1624_3030311.0Topological domainExtracellular
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+16328_3830311.0Topological domainCytoplasmic
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+1524_3030384.0Topological domainExtracellular
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+15328_3830384.0Topological domainCytoplasmic
HgeneDLK1chr14:101200728chr19:50001254ENST00000331224+16304_3270311.0TransmembraneHelical
HgeneDLK1chr14:101200728chr19:50001254ENST00000341267+15304_3270384.0TransmembraneHelical


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Fusion Gene Sequence for DLK1-RPS11


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.
>23195_23195_1_DLK1-RPS11_DLK1_chr14_101200728_ENST00000331224_RPS11_chr19_50001254_ENST00000596873_length(transcript)=855nt_BP=601nt
GGCGGTGGAGAGCGCAGCGCGCAGCCCGGTGCAGCCCTGGCTTTCCCCTCGCTGCGCGCCCGCGCCCCCTTTCGCGTCCGCAACCAGAAG
CCCAGTGCGGCGCCAGGAGCCGGACCCGCGCCCGCACCGCTCCCGGGACCGCGACCCCGGCCGCCCAGAGATGACCGCGACCGAAGCCCT
CCTGCGCGTCCTCTTGCTCCTGCTGGCTTTCGGCCACAGCACCTATGGGGCTGAATGCTTCCCGGCCTGCAACCCCCAAAATGGATTCTG
CGAGGATGACAATGTTTGCAGGTGCCAGCCTGGCTGGCAGGGTCCCCTTTGTGACCAGTGCGTGACCTCTCCCGGCTGCCTTCACGGACT
CTGTGGAGAACCCGGGCAGTGCATTTGCACCGACGGCTGGGACGGGGAGCTCTGTGATAGAGATGTTCGGGCCTGCTCCTCGGCCCCCTG
TGCCAACAACAGGACCTGCGTGAGCCTGGACGATGGCCTCTATGAATGCTCCTGTGCCCCCGGGTACTCGGGAAAGGACTGCCAGAAAAA
GGACGGGCCCTGTGTGATCAACGGGTGCCAGAACGGGGGCACCTGCCTGCAGCACACCCAGTCGAGAAGCGCCACAAGAACATGTCTGTA
CACCTGTCCCCCTGCTTCAGGTGAGCGCAGTGGCCCATCAGGTTGCTCAGGCCACGCTCTCTCAGCCTTCAGATTCCAGATCGGACCAAT
TTAAGGCCAACTGAGGGAGGGAAAGACTGAGGTGGCATCTCTGGGAAGCCCCAGAATCTCAGGATTTGTATATCATATGTTCTTCAGAAT

>23195_23195_1_DLK1-RPS11_DLK1_chr14_101200728_ENST00000331224_RPS11_chr19_50001254_ENST00000596873_length(amino acids)=187AA_BP=145
MTATEALLRVLLLLLAFGHSTYGAECFPACNPQNGFCEDDNVCRCQPGWQGPLCDQCVTSPGCLHGLCGEPGQCICTDGWDGELCDRDVR
ACSSAPCANNRTCVSLDDGLYECSCAPGYSGKDCQKKDGPCVINGCQNGGTCLQHTQSRSATRTCLYTCPPASGERSGPSGCSGHALSAF

--------------------------------------------------------------
>23195_23195_2_DLK1-RPS11_DLK1_chr14_101200728_ENST00000341267_RPS11_chr19_50001254_ENST00000596873_length(transcript)=1711nt_BP=1457nt
GGGGCGGGGGGCGGGGGCCGCGAGGGGGGAGGCGGTACGAAAAGGGCGGCGCGCGCGGCGGCGGCGGCAGCTCCCCGGCAGCGGCGGTGG
AGAGCGCAGCGCGCAGCCCGGTGCAGCCCTGGCTTTCCCCTCGCTGCGCGCCCGCGCCCCCTTTCGCGTCCGCAACCAGAAGCCCAGTGC
GGCGCCAGGAGCCGGACCCGCGCCCGCACCGCTCCCGGGACCGCGACCCCGGCCGCCCAGAGATGACCGCGACCGAAGCCCTCCTGCGCG
TCCTCTTGCTCCTGCTGGCTTTCGGCCACAGCACCTATGGGGCTGAATGCTTCCCGGCCTGCAACCCCCAAAATGGATTCTGCGAGGATG
ACAATGTTTGCAGGTGCCAGCCTGGCTGGCAGGGTCCCCTTTGTGACCAGTGCGTGACCTCTCCCGGCTGCCTTCACGGACTCTGTGGAG
AACCCGGGCAGTGCATTTGCACCGACGGCTGGGACGGGGAGCTCTGTGATAGAGATGTTCGGGCCTGCTCCTCGGCCCCCTGTGCCAACA
ACAGGACCTGCGTGAGCCTGGACGATGGCCTCTATGAATGCTCCTGTGCCCCCGGGTACTCGGGAAAGGACTGCCAGAAAAAGGACGGGC
CCTGTGTGATCAACGGGTGCCAGAACGGGGGCACCTGCCTGCAGCACACCCAGGTGAGCTACGAGTGTCTGTGCAAGCCCGAGTTCACAG
GTCTCACCTGTGTCAAGAAGCGCGCGCTGAGCCCCCAGCAGGTCACCCGTCTGCCCAGCGGCTATGGGCTGGCCTACCGCCTGACCCCTG
GGGTGCACGAGCTGCCGGTGCAGCAGCCGGAGCACCGCATCCTGAAGGTGTCCATGAAAGAGCTCAACAAGAAAACCCCTCTCCTCACCG
AGGGCCAGGCCATCTGCTTCACCATCCTGGGCGTGCTCACCAGCCTGGTGGTGCTGGGCACTGTGGGTATCGTCTTCCTCAACAAGTGCG
AGACCTGGGTGTCCAACCTGCGCTACAACCACATGCTGCGGAAGAAGAAGAACCTGCTGCTTCAGTACAACAGCGGGGAGGACCTGGCCG
TCAACATCATCTTCCCCGAGAAGATCGACATGACCACCTTCAGCAAGGAGGCCGGCGACGAGGAGATCTAAGCAGCGTTCCCACAGCCCC
CTCTAGATTCTTGGAGTTCCGCAGAGCTTACTATACGCGGTCTGTCCTAATCTTTGTGGTGTTCGCTATCTCTTGTGTCAAATCTGGTGA
ACGCTACGCTTACATATATTGTCTTTGTGCTGCTGTGTGACAAACGCAATGCAAAAACAATCCTCTTTCTCTCTCTTAATGCATGATACA
GAATAATAATAAGAATTTCATCTTTAAATGAGTAAGAGAAATAAGTATGTTATTCTAAAATCTAAACTCAAATGAAATTTCAAAAAAGAC
CAAAAAAAAACAAGGCATCGAGAAGCGCCACAAGAACATGTCTGTACACCTGTCCCCCTGCTTCAGGTGAGCGCAGTGGCCCATCAGGTT
GCTCAGGCCACGCTCTCTCAGCCTTCAGATTCCAGATCGGACCAATTTAAGGCCAACTGAGGGAGGGAAAGACTGAGGTGGCATCTCTGG
GAAGCCCCAGAATCTCAGGATTTGTATATCATATGTTCTTCAGAATCAAAGCGTTCTACAGGGTGAATATCTCTACCTGAAATGCTTGGA

>23195_23195_2_DLK1-RPS11_DLK1_chr14_101200728_ENST00000341267_RPS11_chr19_50001254_ENST00000596873_length(amino acids)=302AA_BP=
MTATEALLRVLLLLLAFGHSTYGAECFPACNPQNGFCEDDNVCRCQPGWQGPLCDQCVTSPGCLHGLCGEPGQCICTDGWDGELCDRDVR
ACSSAPCANNRTCVSLDDGLYECSCAPGYSGKDCQKKDGPCVINGCQNGGTCLQHTQVSYECLCKPEFTGLTCVKKRALSPQQVTRLPSG
YGLAYRLTPGVHELPVQQPEHRILKVSMKELNKKTPLLTEGQAICFTILGVLTSLVVLGTVGIVFLNKCETWVSNLRYNHMLRKKKNLLL

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

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Fusion Gene PPI Analysis for DLK1-RPS11


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 DLK1-RPS11


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 DLK1-RPS11


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