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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:CREBRF-ARHGEF28 (FusionGDB2 ID:19402)

Fusion Gene Summary for CREBRF-ARHGEF28

check button Fusion gene summary
Fusion gene informationFusion gene name: CREBRF-ARHGEF28
Fusion gene ID: 19402
HgeneTgene
Gene symbol

CREBRF

ARHGEF28

Gene ID

153222

64283

Gene nameCREB3 regulatory factorRho guanine nucleotide exchange factor 28
SynonymsC5orf41|LRFRGNEF|RIP2|p190RHOGEF
Cytomap

5q35.1

5q13.2

Type of geneprotein-codingprotein-coding
DescriptionCREB3 regulatory factorUPF0474 protein C5orf41adult retina proteinluman recruitment factorluman-recruiting factorluman/CREB3 recruitment factorrho guanine nucleotide exchange factor 28190 kDa guanine nucleotide exchange factorRho guanine nucleotide exchange factor (GEF) 28Rho interacting protein 2p190-RhoGEFrho-guanine nucleotide exchange factor
Modification date2020031320200313
UniProtAcc

Q8IUR6

Q8N1W1

Ensembl transtripts involved in fusion geneENST00000296953, ENST00000520420, 
ENST00000522692, ENST00000540014, 
ENST00000517882, 		ENST00000287898, 
ENST00000296794, ENST00000296799, 
ENST00000426542, ENST00000437974, 
ENST00000513042, ENST00000545377, 
ENST00000512883, ENST00000513841, 
Fusion gene scores* DoF score5 X 3 X 3=455 X 5 X 3=75
# samples 55
** MAII scorelog2(5/45*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(5/75*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CREBRF [Title/Abstract] AND ARHGEF28 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCREBRF(172483482)-ARHGEF28(73200047), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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
HgeneCREBRF

GO:0045944

positive regulation of transcription by RNA polymerase II

16940180


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

check buttonFusion gene breakpoints across ARHGEF28 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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-A44T-01ACREBRFchr5

172483482

+ARHGEF28chr5

73200047

+


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Fusion Gene ORF analysis for CREBRF-ARHGEF28

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-3CDSENST00000296953ENST00000287898CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000296953ENST00000296794CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000296953ENST00000296799CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000296953ENST00000426542CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000296953ENST00000437974CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000296953ENST00000513042CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000296953ENST00000545377CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000520420ENST00000287898CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000520420ENST00000296794CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000520420ENST00000296799CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000520420ENST00000426542CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000520420ENST00000437974CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000520420ENST00000513042CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000520420ENST00000545377CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000522692ENST00000287898CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000522692ENST00000296794CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000522692ENST00000296799CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000522692ENST00000426542CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000522692ENST00000437974CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000522692ENST00000513042CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000522692ENST00000545377CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000540014ENST00000287898CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000540014ENST00000296794CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000540014ENST00000296799CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000540014ENST00000426542CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000540014ENST00000437974CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000540014ENST00000513042CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-3CDSENST00000540014ENST00000545377CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000296953ENST00000512883CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000296953ENST00000513841CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000520420ENST00000512883CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000520420ENST00000513841CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000522692ENST00000512883CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000522692ENST00000513841CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000540014ENST00000512883CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
5UTR-intronENST00000540014ENST00000513841CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-3CDSENST00000517882ENST00000287898CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-3CDSENST00000517882ENST00000296794CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-3CDSENST00000517882ENST00000296799CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-3CDSENST00000517882ENST00000426542CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-3CDSENST00000517882ENST00000437974CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-3CDSENST00000517882ENST00000513042CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-3CDSENST00000517882ENST00000545377CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-intronENST00000517882ENST00000512883CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+
intron-intronENST00000517882ENST00000513841CREBRFchr5

172483482

+ARHGEF28chr5

73200047

+

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)

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

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Fusion Genomic Features for CREBRF-ARHGEF28


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)
CREBRFchr5172483482+ARHGEF28chr573200046+0.0094970190.99050295
CREBRFchr5172483482+ARHGEF28chr573200046+0.0094970190.99050295

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.

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 CREBRF-ARHGEF28


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/:172483482/:73200047)
- 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
CREBRF

Q8IUR6

ARHGEF28

Q8N1W1

FUNCTION: Acts as a negative regulator of the endoplasmic reticulum stress response or unfolded protein response (UPR). Represses the transcriptional activity of CREB3 during the UPR. Recruits CREB3 into nuclear foci. {ECO:0000269|PubMed:18391022}.FUNCTION: Functions as a RHOA-specific guanine nucleotide exchange factor regulating signaling pathways downstream of integrins and growth factor receptors. Functions in axonal branching, synapse formation and dendritic morphogenesis. Functions also in focal adhesion formation, cell motility and B-lymphocytes activation. May regulate NEFL expression and aggregation and play a role in apoptosis (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


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Fusion Gene Sequence for CREBRF-ARHGEF28


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.

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Fusion Gene PPI Analysis for CREBRF-ARHGEF28


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 CREBRF-ARHGEF28


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 CREBRF-ARHGEF28


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