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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:URI1-IL29 (FusionGDB2 ID:HG8725TG282618)

Fusion Gene Summary for URI1-IL29

check button Fusion gene summary
Fusion gene informationFusion gene name: URI1-IL29
Fusion gene ID: hg8725tg282618
HgeneTgene
Gene symbol

URI1

IL29

Gene ID

8725

282618

Gene nameURI1 prefoldin like chaperoneinterferon lambda 1
SynonymsC19orf2|NNX3|PPP1R19|RMP|URIIL-29|IL29
Cytomap('C19orf2','URI1','URI1')('IL29','IFNL1','IL29')

19q12

19q13.2

Type of geneprotein-codingprotein-coding
Descriptionunconventional prefoldin RPB5 interactor 1RNA polymerase II subunit 5-mediating proteinRPB5-mediating proteinprotein phosphatase 1, regulatory subunit 19interferon lambda-1IFN-lambda-1cytokine Zcyto21interleukin 29 (interferon, lambda 1)interleukin-29
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000392271, ENST00000312051, 
ENST00000360605, ENST00000542441, 
ENST00000574176, 
Fusion gene scores* DoF score30 X 13 X 12=46804 X 1 X 3=12
# samples 404
** MAII scorelog2(40/4680*10)=-3.54843662469604
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/12*10)=1.73696559416621
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: URI1 [Title/Abstract] AND IL29 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointURI1(30462134)-IFNL1(39787445), # samples:2
C19orf2(30462134)-IL29(39787445), # samples:1
URI1(30433571)-IL29(39787444), # samples:1
Anticipated loss of major functional domain due to fusion event.URI1-IFNL1 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.
URI1-IFNL1 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.
URI1-IFNL1 seems lost the major protein functional domain in Hgene 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
HgeneURI1

GO:0000122

negative regulation of transcription by RNA polymerase II

12737519|15367675|21730289

HgeneURI1

GO:0001558

regulation of cell growth

21730289

HgeneURI1

GO:0071363

cellular response to growth factor stimulus

17936702

HgeneURI1

GO:0071383

cellular response to steroid hormone stimulus

21730289

TgeneIL29

GO:0002829

negative regulation of type 2 immune response

19346497

TgeneIL29

GO:0008285

negative regulation of cell proliferation

15166220|15899585

TgeneIL29

GO:0032696

negative regulation of interleukin-13 production

19346497

TgeneIL29

GO:0032714

negative regulation of interleukin-5 production

19346497

TgeneIL29

GO:0032729

positive regulation of interferon-gamma production

19346497

TgeneIL29

GO:0042531

positive regulation of tyrosine phosphorylation of STAT protein

15166220

TgeneIL29

GO:0043381

negative regulation of memory T cell differentiation

19346497

TgeneIL29

GO:0045345

positive regulation of MHC class I biosynthetic process

12483210

TgeneIL29

GO:0045581

negative regulation of T cell differentiation

19346497

TgeneIL29

GO:0045892

negative regulation of transcription, DNA-templated

19346497

TgeneIL29

GO:0045893

positive regulation of transcription, DNA-templated

12483210

TgeneIL29

GO:0046427

positive regulation of JAK-STAT cascade

12483210

TgeneIL29

GO:0051607

defense response to virus

12469119


check buttonFusion gene breakpoints across URI1 (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 IL29 (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
* 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
ChimerDB4BRCATCGA-A2-A3XX-01AURI1chr19

30433571

+IFNL1chr19

39787445

+
ChimerDB4BRCATCGA-A2-A3XX-01AURI1chr19

30462134

+IFNL1chr19

39787445

+
ChimerDB4BRCATCGA-A2-A3XX-01AC19orf2chr19

30462134

-IL29chr19

39787445

+
ChimerDB4BRCATCGA-A2-A3XXURI1chr19

30433571

+IL29chr19

39787444

+


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Fusion Gene ORF analysis for URI1-IL29

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
5UTR-3CDSENST00000392271ENST00000333625URI1chr19

30433571

+IFNL1chr19

39787445

+
5UTR-3CDSENST00000392271ENST00000333625URI1chr19

30462134

+IFNL1chr19

39787445

+
Frame-shiftENST00000312051ENST00000333625URI1chr19

30433571

+IFNL1chr19

39787445

+
Frame-shiftENST00000360605ENST00000333625URI1chr19

30462134

+IFNL1chr19

39787445

+
Frame-shiftENST00000542441ENST00000333625URI1chr19

30462134

+IFNL1chr19

39787445

+
In-frameENST00000542441ENST00000333625URI1chr19

30433571

+IFNL1chr19

39787445

+
intron-3CDSENST00000312051ENST00000333625URI1chr19

30462134

+IFNL1chr19

39787445

+
intron-3CDSENST00000360605ENST00000333625URI1chr19

30433571

+IFNL1chr19

39787445

+
intron-3CDSENST00000574176ENST00000333625URI1chr19

30433571

+IFNL1chr19

39787445

+
intron-3CDSENST00000574176ENST00000333625URI1chr19

30462134

+IFNL1chr19

39787445

+

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)
ENST00000542441URI1chr1930433571+ENST00000333625IFNL1chr1939787445+1003414297845182

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
ENST00000542441ENST00000333625URI1chr1930433571+IFNL1chr1939787445+0.106206070.8937939

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Fusion Genomic Features for URI1-IL29


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)
URI1chr1930462134+IFNL1chr1939787444+3.82E-070.99999964
URI1chr1930433571+IFNL1chr1939787444+8.57E-121
URI1chr1930462134+IFNL1chr1939787444+3.82E-070.99999964
URI1chr1930433571+IFNL1chr1939787444+8.57E-121

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 URI1-IL29


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/:30462134/:39787445)
- 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

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneURI1chr19:30433571chr19:39787445ENST00000360605+111299_3110476.0Compositional biasNote=Poly-Asp
HgeneURI1chr19:30433571chr19:39787445ENST00000360605+111314_3210476.0Compositional biasNote=Poly-Asp
HgeneURI1chr19:30433571chr19:39787445ENST00000392271+111299_3110460.0Compositional biasNote=Poly-Asp
HgeneURI1chr19:30433571chr19:39787445ENST00000392271+111314_3210460.0Compositional biasNote=Poly-Asp
HgeneURI1chr19:30433571chr19:39787445ENST00000542441+111299_31139536.0Compositional biasNote=Poly-Asp
HgeneURI1chr19:30433571chr19:39787445ENST00000542441+111314_32139536.0Compositional biasNote=Poly-Asp


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Fusion Gene Sequence for URI1-IL29


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.
>97073_97073_1_URI1-IFNL1_URI1_chr19_30433571_ENST00000542441_IFNL1_chr19_39787445_ENST00000333625_length(transcript)=1003nt_BP=414nt
GCGGCCGCCACGCGACGCCTGGCTGGGCCCGCACCGGAGAGGCGTCTCGGTACCTGGCAGGCGGCCTGCTACTCGGAGCCCGCTGCGGGG
CGGCGGCGGCGGGGACATGCACGTGTGAGATGCGGCAGCGGGCGGCGCGGACGCGAACAGCAGCGGCGGCGGCGGGCGCGGCCTCCTGGG
CGCGGGGCGCGCGGTGCCTGAGGGCGGGCGCGCGGGCGCTGGGCAACTGCCGGCCGCGCCGCCTGCGCAGGCGCTGGTTCAGGACTCACA
CGCCGCGCTGAGGCCCGCGGGCCCGTCATGGAGGCGCCCACCGTGGAGACGCCCCCCGACCCCTCGCCCCCTTCGGCCCCGGCCCCTGCC
CTGGTTCCGTTGCGCGCCCCGGATGTGGCGCGGCTGCGCGAGGAGCAGGAAAAGGAAGAGTCACTCAAGCTGAAAAACTGGAGTTGCAGC
TCTCCTGTCTTCCCCGGGAATTGGGACCTGAGGCTTCTCCAGGTGAGGGAGCGCCCTGTGGCCTTGGAGGCTGAGCTGGCCCTGACGCTG
AAGGTCCTGGAGGCCGCTGCTGGCCCAGCCCTGGAGGACGTCCTAGACCAGCCCCTTCACACCCTGCACCACATCCTCTCCCAGCTCCAG
GCCTGTATCCAGCCTCAGCCCACAGCAGGGCCCAGGCCCCGGGGCCGCCTCCACCACTGGCTGCACCGGCTCCAGGAGGCCCCCAAAAAG
GAGTCCGCTGGCTGCCTGGAGGCATCTGTCACCTTCAACCTCTTCCGCCTCCTCACGCGAGACCTCAAATATGTGGCCGATGGGAACCTG
TGTCTGAGAACGTCAACCCACCCTGAGTCCACCTGACACCCCACACCTTATTTATGCGCTGAGCCCTACTCCTTCCTTAATTTATTTCCT
CTCACCCTTTATTTATGAAGCTGCAGCCCTGACTGAGACATAGGGCTGAGTTTATTGTTTTACTTTTATACATTATGCACAAATAAACAA

>97073_97073_1_URI1-IFNL1_URI1_chr19_30433571_ENST00000542441_IFNL1_chr19_39787445_ENST00000333625_length(amino acids)=182AA_BP=64
MEAPTVETPPDPSPPSAPAPALVPLRAPDVARLREEQEKEESLKLKNWSCSSPVFPGNWDLRLLQVRERPVALEAELALTLKVLEAAAGP
ALEDVLDQPLHTLHHILSQLQACIQPQPTAGPRPRGRLHHWLHRLQEAPKKESAGCLEASVTFNLFRLLTRDLKYVADGNLCLRTSTHPE

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

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Fusion Gene PPI Analysis for URI1-IL29


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 URI1-IL29


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 URI1-IL29


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneURI1C0007097Carcinoma1CTD_human
HgeneURI1C0027659Neoplasms, Experimental1CTD_human
HgeneURI1C0205696Anaplastic carcinoma1CTD_human
HgeneURI1C0205697Carcinoma, Spindle-Cell1CTD_human
HgeneURI1C0205698Undifferentiated carcinoma1CTD_human
HgeneURI1C0205699Carcinomatosis1CTD_human
HgeneURI1C0919267ovarian neoplasm1CTD_human
HgeneURI1C1140680Malignant neoplasm of ovary1CTD_human