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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:ARHGEF3-LTF (FusionGDB2 ID:HG50650TG4057)

Fusion Gene Summary for ARHGEF3-LTF

check button Fusion gene summary
Fusion gene informationFusion gene name: ARHGEF3-LTF
Fusion gene ID: hg50650tg4057
HgeneTgene
Gene symbol

ARHGEF3

LTF

Gene ID

50650

4057

Gene nameRho guanine nucleotide exchange factor 3lactotransferrin
SynonymsGEF3|STA3|XPLNGIG12|HEL110|HLF2|LF
Cytomap('ARHGEF3')('LTF')

3p14.3

3p21.31

Type of geneprotein-codingprotein-coding
Descriptionrho guanine nucleotide exchange factor 359.8 kDA proteinRho guanine nucleotide exchange factor (GEF) 3RhoGEF proteinexchange factor found in platelets and leukemic and neuronal tissues, XPLNlactotransferrinepididymis luminal protein 110growth-inhibiting protein 12kaliocin-1lactoferricinlactoferroxinneutrophil lactoferrintalalactoferrin
Modification date2020032720200313
UniProtAcc

Q9NR81

.
Ensembl transtripts involved in fusion geneENST00000296315, ENST00000495373, 
ENST00000338458, ENST00000413728, 
ENST00000496106, ENST00000497267, 
ENST00000498517, 
Fusion gene scores* DoF score19 X 17 X 8=25846 X 8 X 4=192
# samples 236
** MAII scorelog2(23/2584*10)=-3.48990030374955
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(6/192*10)=-1.67807190511264
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ARHGEF3 [Title/Abstract] AND LTF [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointARHGEF3(56835731)-LTF(46501309), # samples:2
ARHGEF3(56835731)-LTF(46509809), # samples:2
Anticipated loss of major functional domain due to fusion event.ARHGEF3-LTF seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
ARHGEF3-LTF seems lost the major protein functional domain in Tgene partner, which is a transcription factor due to the frame-shifted ORF.
ARHGEF3-LTF seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor 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
TgeneLTF

GO:0001817

regulation of cytokine production

20345905

TgeneLTF

GO:0002227

innate immune response in mucosa

12037568

TgeneLTF

GO:0019731

antibacterial humoral response

1599934|18714013

TgeneLTF

GO:0019732

antifungal humoral response

11083624

TgeneLTF

GO:0031640

killing of cells of other organism

9727055

TgeneLTF

GO:0031665

negative regulation of lipopolysaccharide-mediated signaling pathway

20345905

TgeneLTF

GO:0032680

regulation of tumor necrosis factor production

20345905

TgeneLTF

GO:0033690

positive regulation of osteoblast proliferation

15166119

TgeneLTF

GO:0043123

positive regulation of I-kappaB kinase/NF-kappaB signaling

20345905

TgeneLTF

GO:0045669

positive regulation of osteoblast differentiation

15166119

TgeneLTF

GO:0051092

positive regulation of NF-kappaB transcription factor activity

20345905

TgeneLTF

GO:0060349

bone morphogenesis

15166119

TgeneLTF

GO:0071902

positive regulation of protein serine/threonine kinase activity

20345905

TgeneLTF

GO:1900229

negative regulation of single-species biofilm formation in or on host organism

12037568

TgeneLTF

GO:1902732

positive regulation of chondrocyte proliferation

15166119

TgeneLTF

GO:2000117

negative regulation of cysteine-type endopeptidase activity

12788072



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-5L-AAT0-01AARHGEF3chr3

56835731

-LTFchr3

46501309

-
ChimerDB4BRCATCGA-5L-AAT0-01AARHGEF3chr3

56835731

-LTFchr3

46509809

-
ChimerDB4BRCATCGA-5L-AAT0-01AARHGEF3chr3

56835731

-LTFchr3

46511956

-


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Fusion Gene ORF analysis for ARHGEF3-LTF

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
5CDS-5UTRENST00000296315ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46501309

-
5CDS-5UTRENST00000296315ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46501309

-
5CDS-5UTRENST00000495373ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46501309

-
5CDS-5UTRENST00000495373ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46501309

-
5CDS-intronENST00000296315ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000296315ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46511956

-
5CDS-intronENST00000296315ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000296315ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46511956

-
5CDS-intronENST00000296315ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000296315ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46511956

-
5CDS-intronENST00000296315ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46501309

-
5CDS-intronENST00000296315ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000296315ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46511956

-
5CDS-intronENST00000495373ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000495373ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46511956

-
5CDS-intronENST00000495373ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000495373ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46511956

-
5CDS-intronENST00000495373ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000495373ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46511956

-
5CDS-intronENST00000495373ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46501309

-
5CDS-intronENST00000495373ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46509809

-
5CDS-intronENST00000495373ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46511956

-
Frame-shiftENST00000296315ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46501309

-
Frame-shiftENST00000495373ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-3CDSENST00000338458ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-3CDSENST00000413728ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-3CDSENST00000496106ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-3CDSENST00000497267ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-3CDSENST00000498517ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000338458ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000338458ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000413728ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000413728ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000496106ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000496106ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000497267ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000497267ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000498517ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-5UTRENST00000498517ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-intronENST00000338458ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000338458ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000338458ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000338458ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000338458ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000338458ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000338458ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-intronENST00000338458ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000338458ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000413728ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000413728ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000413728ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000413728ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000413728ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000413728ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000413728ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-intronENST00000413728ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000413728ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000496106ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000496106ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000496106ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000496106ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000496106ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000496106ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000496106ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-intronENST00000496106ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000496106ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000497267ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000497267ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000497267ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000497267ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000497267ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000497267ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000497267ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-intronENST00000497267ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000497267ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000498517ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000498517ENST00000231751ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000498517ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000498517ENST00000417439ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000498517ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000498517ENST00000426532ARHGEF3chr3

56835731

-LTFchr3

46511956

-
intron-intronENST00000498517ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46501309

-
intron-intronENST00000498517ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46509809

-
intron-intronENST00000498517ENST00000493056ARHGEF3chr3

56835731

-LTFchr3

46511956

-

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 ARHGEF3-LTF


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)


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Fusion Protein Features for ARHGEF3-LTF


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/:56835731/:46501309)
- 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
ARHGEF3

Q9NR81

.
FUNCTION: Acts as guanine nucleotide exchange factor (GEF) for RhoA and RhoB GTPases. {ECO:0000269|PubMed:12221096}.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


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Fusion Gene Sequence for ARHGEF3-LTF


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 ARHGEF3-LTF


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 ARHGEF3-LTF


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 ARHGEF3-LTF


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC0001787Osteoporosis, Age-Related2CTD_human
TgeneC0029456Osteoporosis2CTD_human
TgeneC0029459Osteoporosis, Senile2CTD_human
TgeneC0751406Post-Traumatic Osteoporosis2CTD_human
TgeneC0006826Malignant Neoplasms1CTD_human
TgeneC0006849Oral candidiasis1CTD_human
TgeneC0006852Candidiasis of vagina1CTD_human
TgeneC0007102Malignant tumor of colon1CTD_human
TgeneC0009324Ulcerative Colitis1CTD_human
TgeneC0009375Colonic Neoplasms1CTD_human
TgeneC0011991Diarrhea1CTD_human
TgeneC0014175Endometriosis1CTD_human
TgeneC0017181Gastrointestinal Hemorrhage1CTD_human
TgeneC0018932Hematochezia1CTD_human
TgeneC0019193Hepatitis, Toxic1CTD_human
TgeneC0020538Hypertensive disease1CTD_human
TgeneC0020649Hypotension1CTD_human
TgeneC0021368Inflammation1CTD_human
TgeneC0022408Arthropathy1CTD_human
TgeneC0023903Liver neoplasms1CTD_human
TgeneC0027651Neoplasms1CTD_human
TgeneC0086692Benign Neoplasm1CTD_human
TgeneC0151526Premature Birth1CTD_human
TgeneC0269102Endometrioma1CTD_human
TgeneC0343863Candida infection of genital region1CTD_human
TgeneC0345904Malignant neoplasm of liver1CTD_human
TgeneC0392622Toxic effect of carbon tetrachloride1CTD_human
TgeneC0520459Necrotizing Enterocolitis1CTD_human
TgeneC0700345Candidiasis, Vulvovaginal1CTD_human
TgeneC0860029Vaginal Yeast Infections1CTD_human
TgeneC0860207Drug-Induced Liver Disease1CTD_human
TgeneC1262477Weight decreased1CTD_human
TgeneC1262760Hepatitis, Drug-Induced1CTD_human
TgeneC3658290Drug-Induced Acute Liver Injury1CTD_human
TgeneC4277682Chemical and Drug Induced Liver Injury1CTD_human
TgeneC4279912Chemically-Induced Liver Toxicity1CTD_human
TgeneC4704876Genital Vulvovaginal Candidiasis1CTD_human