Home

Download

Statistics

Examples

Help

Contact

Fusion Protein:IL4R-RBBP6

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: IL4R-RBBP6
	FusionPDB ID: 39565
	FusionGDB2.0 ID: 39565
		Hgene	Tgene
	Gene symbol	IL4R	RBBP6
	Gene ID	3566	5930
	Gene name	interleukin 4 receptor	RB binding protein 6, ubiquitin ligase
	Synonyms	CD124\|IL-4RA\|IL4RA	MY038\|P2P-R\|PACT\|RBQ-1\|SNAMA
	Cytomap	16p12.1	16p12.1
	Type of gene	protein-coding	protein-coding
	Description	interleukin-4 receptor subunit alphaIL-4 receptor subunit alphaIL4R nirs variant 1interleukin 13 receptorinterleukin-4 receptor alpha chain	E3 ubiquitin-protein ligase RBBP6RB-binding Q-protein 1RING-type E3 ubiquitin transferase RBBP6p53-associated cellular protein of testisproliferation potential-related proteinprotein P2P-Rretinoblastoma binding protein 6retinoblastoma-binding Q pro
	Modification date	20200322	20200313
	UniProtAcc	P24394 Main function of 5'-partner protein: FUNCTION: Receptor for both interleukin 4 and interleukin 13. Couples to the JAK1/2/3-STAT6 pathway. The IL4 response is involved in promoting Th2 differentiation. The IL4/IL13 responses are involved in regulating IgE production and, chemokine and mucus production at sites of allergic inflammation. In certain cell types, can signal through activation of insulin receptor substrates, IRS1/IRS2. {ECO:0000269\|PubMed:8124718}.; FUNCTION: Soluble IL4R (sIL4R) inhibits IL4-mediated cell proliferation and IL5 up-regulation by T-cells. {ECO:0000269\|PubMed:8124718}.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000380922, ENST00000170630, ENST00000395762, ENST00000449195, ENST00000543915, ENST00000565915,	ENST00000319715, ENST00000348022, ENST00000381039, ENST00000452655,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	9 X 8 X 5=360	6 X 6 X 5=180
	# samples	10	6
	** MAII score	log2(10/360*10)=-1.84799690655495 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(6/180*10)=-1.58496250072116 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: IL4R [Title/Abstract] AND RBBP6 [Title/Abstract] AND fusion [Title/Abstract]
Fusion neoantigen context	PubMed: IL4R [Title/Abstract] AND RBBP6 [Title/Abstract] AND neoantigen [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	IL4R(27351594)-RBBP6(24557483), # samples:1
Anticipated loss of major functional domain due to fusion event.	IL4R-RBBP6 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. IL4R-RBBP6 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. IL4R-RBBP6 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. IL4R-RBBP6 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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Tgene	RBBP6	GO:0006511	ubiquitin-dependent protein catabolic process	18851979

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr16:27351594/chr16:24557483)
- 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.

Retention analysis results 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, are available here.

Fusion gene breakpoints across IL4R (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across RBBP6 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Top

Fusion Amino Acid Sequences

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000395762	IL4R	chr16	27351594	+	ENST00000319715	RBBP6	chr16	24557483	+	5960	329	238	5541	1767
ENST00000395762	IL4R	chr16	27351594	+	ENST00000452655	RBBP6	chr16	24557483	+	886	329	238	519	93
ENST00000395762	IL4R	chr16	27351594	+	ENST00000381039	RBBP6	chr16	24557483	+	3440	329	238	3021	927
ENST00000395762	IL4R	chr16	27351594	+	ENST00000348022	RBBP6	chr16	24557483	+	5858	329	238	5439	1733
ENST00000543915	IL4R	chr16	27351594	+	ENST00000319715	RBBP6	chr16	24557483	+	5814	183	113	5395	1760
ENST00000543915	IL4R	chr16	27351594	+	ENST00000452655	RBBP6	chr16	24557483	+	740	183	270	1	90
ENST00000543915	IL4R	chr16	27351594	+	ENST00000381039	RBBP6	chr16	24557483	+	3294	183	113	2875	920
ENST00000543915	IL4R	chr16	27351594	+	ENST00000348022	RBBP6	chr16	24557483	+	5712	183	113	5293	1726
ENST00000449195	IL4R	chr16	27351594	+	ENST00000319715	RBBP6	chr16	24557483	+	5943	312	221	5524	1767
ENST00000449195	IL4R	chr16	27351594	+	ENST00000452655	RBBP6	chr16	24557483	+	869	312	221	502	93
ENST00000449195	IL4R	chr16	27351594	+	ENST00000381039	RBBP6	chr16	24557483	+	3423	312	221	3004	927
ENST00000449195	IL4R	chr16	27351594	+	ENST00000348022	RBBP6	chr16	24557483	+	5841	312	221	5422	1733
ENST00000170630	IL4R	chr16	27351594	+	ENST00000319715	RBBP6	chr16	24557483	+	5722	91	21	5303	1760
ENST00000170630	IL4R	chr16	27351594	+	ENST00000452655	RBBP6	chr16	24557483	+	648	91	21	281	86
ENST00000170630	IL4R	chr16	27351594	+	ENST00000381039	RBBP6	chr16	24557483	+	3202	91	21	2783	920
ENST00000170630	IL4R	chr16	27351594	+	ENST00000348022	RBBP6	chr16	24557483	+	5620	91	21	5201	1726

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000395762	ENST00000319715	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000405838	0.99959415
ENST00000395762	ENST00000452655	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.30368245	0.69631755
ENST00000395762	ENST00000381039	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000357222	0.9996427
ENST00000395762	ENST00000348022	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.00040593	0.99959403
ENST00000543915	ENST00000319715	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000350743	0.9996493
ENST00000543915	ENST00000452655	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.22422813	0.7757719
ENST00000543915	ENST00000381039	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000365668	0.99963427
ENST00000543915	ENST00000348022	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000349356	0.9996506
ENST00000449195	ENST00000319715	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000398872	0.9996012
ENST00000449195	ENST00000452655	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.46997914	0.5300209
ENST00000449195	ENST00000381039	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000357793	0.99964225
ENST00000449195	ENST00000348022	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000399051	0.99960095
ENST00000170630	ENST00000319715	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000333485	0.9996666
ENST00000170630	ENST00000452655	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.26726127	0.7327387
ENST00000170630	ENST00000381039	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.000402489	0.9995975
ENST00000170630	ENST00000348022	IL4R	chr16	27351594	+	RBBP6	chr16	24557483	+	0.00032674	0.99967325

Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

Get the fusion protein sequences from here.

Fusion protein sequence information is available in the fasta format.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

Top

Fusion Protein Breakpoint Sequences for IL4R-RBBP6

+/-13 AA sequence from the breakpoints of the fusion protein sequences.

Hgene	Hchr	Hbp	Tgene	Tchr	Tbp	Length(fusion protein)	BP in fusion protein	Peptide
IL4R	chr16	27351594	RBBP6	chr16	24557483	183	1657	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	183	1691	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	183	851	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	312	1664	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	312	1698	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	312	18	LPMGWLCSGLLFPVSCLVLLQVASSE
IL4R	chr16	27351594	RBBP6	chr16	24557483	312	858	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	329	1664	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	329	1698	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	329	18	LPMGWLCSGLLFPVSCLVLLQVASSE
IL4R	chr16	27351594	RBBP6	chr16	24557483	329	858	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	91	1657	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	91	1691	TRSHSSSASSAESQDSKKKKKKKEKK
IL4R	chr16	27351594	RBBP6	chr16	24557483	91	851	TRSHSSSASSAESQDSKKKKKKKEKK

Top

Potential FusionNeoAntigen Information of IL4R-RBBP6 in HLA I

Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)

Fusion gene

Hchr

Hbp

Tgene

Tchr

Tbp

HLA I

FusionNeoAntigen peptide

Binding score

Immunogenic score

Neoantigen start (at BP 13)

Neoantigen end (at BP 13)

Top

Potential FusionNeoAntigen Information of IL4R-RBBP6 in HLA II

Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).

Fusion gene

Hchr

Hbp

Tgene

Tchr

Tbp

HLA II

FusionNeoAntigen peptide

Neoantigen start (at BP 13)

Neoantigen end (at BP 13)

Top

Fusion breakpoint peptide structures of IL4R-RBBP6

3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA.

Top

Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of IL4R-RBBP6

Virtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.

HLA allele

PDB ID

File name

BPseq

Docking score

Glide score

Top

Vaccine Design for the FusionNeoAntigens of IL4R-RBBP6

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.

Fusion gene

Hchr

Hbp

Tchr

Tbp

Start in +/-13AA

End in +/-13AA

FusionNeoAntigen peptide sequence

FusionNeoAntigen RNA sequence

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.

Fusion gene

Hchr

Hbp

Tchr

Tbp

Start in +/-13AA

End in +/-13AA

FusionNeoAntigen peptide

FusionNEoAntigen RNA sequence

Top

Information of the samples that have these potential fusion neoantigens of IL4R-RBBP6

These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.

Cancer type

Fusion gene

Hchr

Hbp

Henst

Tchr

Tbp

Tenst

Sample

Top

Potential target of CAR-T therapy development for IL4R-RBBP6

Predicted 3D structure. We used RoseTTAFold.

Retention 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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features

* Minus value of BPloci means that the break point is located before the CDS.

- In-frame and retained 'Transmembrane'.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Subcellular localization prediction of the transmembrane domain retained fusion proteins
* We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image.

Hgene

Hchr

Hbp

Henst

Tgene

Tchr

Tbp

Tenst

DeepLoc result

Top

Related Drugs to IL4R-RBBP6

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to IL4R-RBBP6

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

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source

	Fusion Gene and Fusion Protein Summary
	Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)
	Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)
	Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)
	Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)
	Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)
	Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)
	Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)
	Potential target of CAR-T therapy development
	Information on the samples that have these potential fusion neoantigens
	Fusion Protein Targeting Drugs - (Manual Curation)
	Fusion Protein Related diseases - (Manual Curation)