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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:NR1H2-ZNF610 (FusionGDB2 ID:60082)

Fusion Gene Summary for NR1H2-ZNF610

check button Fusion gene summary
Fusion gene informationFusion gene name: NR1H2-ZNF610
Fusion gene ID: 60082
HgeneTgene
Gene symbol

NR1H2

ZNF610

Gene ID

7376

162963

Gene namenuclear receptor subfamily 1 group H member 2zinc finger protein 610
SynonymsLXR-b|LXRB|NER|NER-I|RIP15|UNR-
Cytomap

19q13.33

19q13.41

Type of geneprotein-codingprotein-coding
Descriptionoxysterols receptor LXR-betaLX receptor betaliver X nuclear receptor betanuclear orphan receptor LXR-betanuclear receptor NERsteroid hormone-nuclear receptor NERubiquitously-expressed nuclear receptorzinc finger protein 610zink finger protein
Modification date2020031320200313
UniProtAcc

P55055

.
Ensembl transtripts involved in fusion geneENST00000600978, ENST00000542413, 
ENST00000253727, ENST00000411902, 
ENST00000593926, ENST00000598168, 
ENST00000599105, 		ENST00000321287, 
ENST00000327920, ENST00000403906, 
ENST00000601151, 
Fusion gene scores* DoF score6 X 7 X 4=1684 X 4 X 3=48
# samples 84
** MAII scorelog2(8/168*10)=-1.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NR1H2 [Title/Abstract] AND ZNF610 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNR1H2(50833052)-ZNF610(52850960), # 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
HgeneNR1H2

GO:0032376

positive regulation of cholesterol transport

16141411

HgeneNR1H2

GO:0045892

negative regulation of transcription, DNA-templated

12393874

HgeneNR1H2

GO:0045893

positive regulation of transcription, DNA-templated

25661920

HgeneNR1H2

GO:0045944

positive regulation of transcription by RNA polymerase II

9013544|16141411|20219900


check buttonFusion gene breakpoints across NR1H2 (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 ZNF610 (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
ChimerDB4BRCATCGA-E9-A1RF-01ANR1H2chr19

50833052

+ZNF610chr19

52850960

+


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Fusion Gene ORF analysis for NR1H2-ZNF610

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
3UTR-5UTRENST00000600978ENST00000321287NR1H2chr19

50833052

+ZNF610chr19

52850960

+
3UTR-5UTRENST00000600978ENST00000327920NR1H2chr19

50833052

+ZNF610chr19

52850960

+
3UTR-5UTRENST00000600978ENST00000403906NR1H2chr19

50833052

+ZNF610chr19

52850960

+
3UTR-5UTRENST00000600978ENST00000601151NR1H2chr19

50833052

+ZNF610chr19

52850960

+
5UTR-5UTRENST00000542413ENST00000321287NR1H2chr19

50833052

+ZNF610chr19

52850960

+
5UTR-5UTRENST00000542413ENST00000327920NR1H2chr19

50833052

+ZNF610chr19

52850960

+
5UTR-5UTRENST00000542413ENST00000403906NR1H2chr19

50833052

+ZNF610chr19

52850960

+
5UTR-5UTRENST00000542413ENST00000601151NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000253727ENST00000321287NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000253727ENST00000327920NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000253727ENST00000403906NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000253727ENST00000601151NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000411902ENST00000321287NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000411902ENST00000327920NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000411902ENST00000403906NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000411902ENST00000601151NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000593926ENST00000321287NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000593926ENST00000327920NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000593926ENST00000403906NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000593926ENST00000601151NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000598168ENST00000321287NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000598168ENST00000327920NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000598168ENST00000403906NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000598168ENST00000601151NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000599105ENST00000321287NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000599105ENST00000327920NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000599105ENST00000403906NR1H2chr19

50833052

+ZNF610chr19

52850960

+
intron-5UTRENST00000599105ENST00000601151NR1H2chr19

50833052

+ZNF610chr19

52850960

+

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 NR1H2-ZNF610


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)
NR1H2chr1950833052+ZNF610chr1952850959+0.57948280.4205172
NR1H2chr1950833052+ZNF610chr1952850959+0.57948280.4205172

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 NR1H2-ZNF610


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/:50833052/:52850960)
- 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
NR1H2

P55055

.
FUNCTION: Nuclear receptor that exhibits a ligand-dependent transcriptional activation activity (PubMed:25661920). Binds preferentially to double-stranded oligonucleotide direct repeats having the consensus half-site sequence 5'-AGGTCA-3' and 4-nt spacing (DR-4). Regulates cholesterol uptake through MYLIP-dependent ubiquitination of LDLR, VLDLR and LRP8; DLDLR and LRP8. Interplays functionally with RORA for the regulation of genes involved in liver metabolism (By similarity). Induces LPCAT3-dependent phospholipid remodeling in endoplasmic reticulum (ER) membranes of hepatocytes, driving SREBF1 processing and lipogenesis (By similarity). Via LPCAT3, triggers the incorporation of arachidonate into phosphatidylcholines of ER membranes, increasing membrane dynamics and enabling triacylglycerols transfer to nascent very low-density lipoprotein (VLDL) particles (By similarity). Via LPCAT3 also counteracts lipid-induced ER stress response and inflammation, likely by modulating SRC kinase membrane compartmentalization and limiting the synthesis of lipid inflammatory mediators (By similarity). Plays an anti-inflammatory role during the hepatic acute phase response by acting as a corepressor: inhibits the hepatic acute phase response by preventing dissociation of the N-Cor corepressor complex (PubMed:20159957). {ECO:0000250|UniProtKB:Q60644, ECO:0000269|PubMed:20159957, ECO:0000269|PubMed:25661920}.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 NR1H2-ZNF610


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 NR1H2-ZNF610


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 NR1H2-ZNF610


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 NR1H2-ZNF610


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