FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact
Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:LRRFIP1-NR3C1 (FusionGDB2 ID:50082)

Fusion Gene Summary for LRRFIP1-NR3C1

check button Fusion gene summary
Fusion gene informationFusion gene name: LRRFIP1-NR3C1
Fusion gene ID: 50082
HgeneTgene
Gene symbol

LRRFIP1

NR3C1

Gene ID

9208

2908

Gene nameLRR binding FLII interacting protein 1nuclear receptor subfamily 3 group C member 1
SynonymsFLAP-1|FLAP1|FLIIAP1|GCF-2|GCF2|HUFI-1|TRIPGCCR|GCR|GCRST|GR|GRL
Cytomap

2q37.3

5q31.3

Type of geneprotein-codingprotein-coding
Descriptionleucine-rich repeat flightless-interacting protein 1GC-binding factor 2LRR FLII-interacting protein 1NEDD8-conjugating enzymeTAR RNA-interacting proteinleucine rich repeat (in FLII) interacting protein 1glucocorticoid receptorglucocorticoid nuclear receptor variant 1nuclear receptor subfamily 3 group C member 1 variant hGR-B(54)nuclear receptor subfamily 3 group C member 1 variant hGR-B(77)nuclear receptor subfamily 3 group C member 1 variant hGR-B(9
Modification date2020031320200327
UniProtAcc

Q32MZ4

P04150

Ensembl transtripts involved in fusion geneENST00000244815, ENST00000289175, 
ENST00000308482, ENST00000392000, 
ENST00000468950, 		ENST00000231509, 
ENST00000343796, ENST00000394464, 
ENST00000394466, ENST00000415690, 
ENST00000424646, ENST00000503201, 
ENST00000504572, ENST00000416954, 
ENST00000504336, 
Fusion gene scores* DoF score16 X 12 X 9=17287 X 11 X 3=231
# samples 2012
** MAII scorelog2(20/1728*10)=-3.11103131238874
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(12/231*10)=-0.944858445807539
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LRRFIP1 [Title/Abstract] AND NR3C1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointLRRFIP1(238592138)-NR3C1(142780419), # 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
HgeneLRRFIP1

GO:0000122

negative regulation of transcription by RNA polymerase II

14522076

TgeneNR3C1

GO:0000122

negative regulation of transcription by RNA polymerase II

1894621

TgeneNR3C1

GO:0006351

transcription, DNA-templated

17081986

TgeneNR3C1

GO:0006355

regulation of transcription, DNA-templated

19141540

TgeneNR3C1

GO:0045892

negative regulation of transcription, DNA-templated

1894621

TgeneNR3C1

GO:0045944

positive regulation of transcription by RNA polymerase II

15769988|16728402|23823477

TgeneNR3C1

GO:0071383

cellular response to steroid hormone stimulus

15769988|17635946

TgeneNR3C1

GO:0071385

cellular response to glucocorticoid stimulus

9353307

TgeneNR3C1

GO:0071560

cellular response to transforming growth factor beta stimulus

12902338

TgeneNR3C1

GO:1902895

positive regulation of pri-miRNA transcription by RNA polymerase II

27334923


check buttonFusion gene breakpoints across LRRFIP1 (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 NR3C1 (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
ChiTaRS5.0N/ADW412083LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-


Top

Fusion Gene ORF analysis for LRRFIP1-NR3C1

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
intron-5UTRENST00000244815ENST00000231509LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000244815ENST00000343796LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000244815ENST00000394464LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000244815ENST00000394466LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000244815ENST00000415690LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000244815ENST00000424646LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000244815ENST00000503201LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000244815ENST00000504572LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000231509LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000343796LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000394464LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000394466LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000415690LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000424646LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000503201LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000289175ENST00000504572LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000231509LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000343796LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000394464LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000394466LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000415690LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000424646LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000503201LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000308482ENST00000504572LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000231509LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000343796LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000394464LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000394466LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000415690LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000424646LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000503201LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000392000ENST00000504572LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000231509LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000343796LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000394464LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000394466LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000415690LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000424646LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000503201LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-5UTRENST00000468950ENST00000504572LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000244815ENST00000416954LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000244815ENST00000504336LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000289175ENST00000416954LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000289175ENST00000504336LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000308482ENST00000416954LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000308482ENST00000504336LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000392000ENST00000416954LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000392000ENST00000504336LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000468950ENST00000416954LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-
intron-intronENST00000468950ENST00000504336LRRFIP1chr2

238592138

+NR3C1chr5

142780419

-

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

Top

Fusion Genomic Features for LRRFIP1-NR3C1


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.

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.

Top

Fusion Protein Features for LRRFIP1-NR3C1


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/:238592138/:142780419)
- 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
LRRFIP1

Q32MZ4

NR3C1

P04150

FUNCTION: Transcriptional repressor which preferentially binds to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. May control smooth muscle cells proliferation following artery injury through PDGFA repression. May also bind double-stranded RNA. Positively regulates Toll-like receptor (TLR) signaling in response to agonist probably by competing with the negative FLII regulator for MYD88-binding. {ECO:0000269|PubMed:10364563, ECO:0000269|PubMed:14522076, ECO:0000269|PubMed:16199883, ECO:0000269|PubMed:19265123, ECO:0000269|PubMed:9705290}.FUNCTION: Receptor for glucocorticoids (GC) (PubMed:27120390). Has a dual mode of action: as a transcription factor that binds to glucocorticoid response elements (GRE), both for nuclear and mitochondrial DNA, and as a modulator of other transcription factors. Affects inflammatory responses, cellular proliferation and differentiation in target tissues. Involved in chromatin remodeling (PubMed:9590696). Plays a role in rapid mRNA degradation by binding to the 5' UTR of target mRNAs and interacting with PNRC2 in a ligand-dependent manner which recruits the RNA helicase UPF1 and the mRNA-decapping enzyme DCP1A, leading to RNA decay (PubMed:25775514). Could act as a coactivator for STAT5-dependent transcription upon growth hormone (GH) stimulation and could reveal an essential role of hepatic GR in the control of body growth (By similarity). {ECO:0000250|UniProtKB:P06537, ECO:0000269|PubMed:25775514, ECO:0000269|PubMed:27120390, ECO:0000269|PubMed:9590696}.; FUNCTION: [Isoform Alpha]: Has transcriptional activation and repression activity (PubMed:15866175, PubMed:19248771, PubMed:20484466, PubMed:23820903, PubMed:11435610, PubMed:15769988, PubMed:17635946, PubMed:19141540, PubMed:21664385). Mediates glucocorticoid-induced apoptosis (PubMed:23303127). Promotes accurate chromosome segregation during mitosis (PubMed:25847991). May act as a tumor suppressor (PubMed:25847991). May play a negative role in adipogenesis through the regulation of lipolytic and antilipogenic gene expression (By similarity). {ECO:0000250|UniProtKB:P06537, ECO:0000269|PubMed:11435610, ECO:0000269|PubMed:15769988, ECO:0000269|PubMed:15866175, ECO:0000269|PubMed:17635946, ECO:0000269|PubMed:19141540, ECO:0000269|PubMed:19248771, ECO:0000269|PubMed:20484466, ECO:0000269|PubMed:21664385, ECO:0000269|PubMed:23303127, ECO:0000269|PubMed:23820903, ECO:0000269|PubMed:25847991}.; FUNCTION: [Isoform Beta]: Acts as a dominant negative inhibitor of isoform Alpha (PubMed:7769088, PubMed:8621628, PubMed:20484466). Has intrinsic transcriptional activity independent of isoform Alpha when both isoforms are coexpressed (PubMed:19248771, PubMed:26711253). Loses this transcription modulator function on its own (PubMed:20484466). Has no hormone-binding activity (PubMed:8621628). May play a role in controlling glucose metabolism by maintaining insulin sensitivity (By similarity). Reduces hepatic gluconeogenesis through down-regulation of PEPCK in an isoform Alpha-dependent manner (PubMed:26711253). Directly regulates STAT1 expression in isoform Alpha-independent manner (PubMed:26711253). {ECO:0000250|UniProtKB:P06537, ECO:0000269|PubMed:19248771, ECO:0000269|PubMed:20484466, ECO:0000269|PubMed:26711253, ECO:0000269|PubMed:7769088, ECO:0000269|PubMed:8621628}.; FUNCTION: [Isoform Alpha-2]: Has lower transcriptional activation activity than isoform Alpha. Exerts a dominant negative effect on isoform Alpha trans-repression mechanism (PubMed:20484466).; FUNCTION: [Isoform GR-P]: Increases activity of isoform Alpha. {ECO:0000269|PubMed:11358809}.; FUNCTION: [Isoform Alpha-B]: More effective than isoform Alpha in transcriptional activation, but not repression activity. {ECO:0000269|PubMed:11435610, ECO:0000269|PubMed:15866175}.; FUNCTION: [Isoform 10]: Has transcriptional activation activity. {ECO:0000269|PubMed:20484466}.; FUNCTION: [Isoform Alpha-C1]: Has transcriptional activation activity. {ECO:0000269|PubMed:15866175}.; FUNCTION: [Isoform Alpha-C2]: Has transcriptional activation activity. {ECO:0000269|PubMed:15866175}.; FUNCTION: [Isoform Alpha-C3]: Has highest transcriptional activation activity of all isoforms created by alternative initiation (PubMed:15866175, PubMed:23820903). Has transcriptional repression activity (PubMed:23303127). Mediates glucocorticoid-induced apoptosis (PubMed:23303127, PubMed:23820903). {ECO:0000269|PubMed:15866175, ECO:0000269|PubMed:23303127, ECO:0000269|PubMed:23820903}.; FUNCTION: [Isoform Alpha-D1]: Has transcriptional activation activity. {ECO:0000269|PubMed:15866175}.; FUNCTION: [Isoform Alpha-D2]: Has transcriptional activation activity. {ECO:0000269|PubMed:15866175}.; FUNCTION: [Isoform Alpha-D3]: Has lowest transcriptional activation activity of all isoforms created by alternative initiation (PubMed:15866175, PubMed:23820903). Has transcriptional repression activity (PubMed:23303127). {ECO:0000269|PubMed:15866175, ECO:0000269|PubMed:23303127, ECO:0000269|PubMed:23820903}.

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


Top

Fusion Gene Sequence for LRRFIP1-NR3C1


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.

Top

Fusion Gene PPI Analysis for LRRFIP1-NR3C1


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


Top

Related Drugs for LRRFIP1-NR3C1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

Related Diseases for LRRFIP1-NR3C1


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