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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:FRYL-NKAIN3 (FusionGDB2 ID:HG285527TG286183)

Fusion Gene Summary for FRYL-NKAIN3

check button Fusion gene summary
Fusion gene informationFusion gene name: FRYL-NKAIN3
Fusion gene ID: hg285527tg286183
HgeneTgene
Gene symbol

FRYL

NKAIN3

Gene ID

285527

286183

Gene nameFRY like transcription coactivatorsodium/potassium transporting ATPase interacting 3
SynonymsAF4p12|KIAA0826|MOR2FAM77D|NKAIN3-IT1|UG0898H09
Cytomap('FRYL')('NKAIN3')

4p11

8q12.3

Type of geneprotein-codingprotein-coding
Descriptionprotein furry homolog-likeALL1-fused gene from chromosome 4p12 proteinFRY-likefurry homolog-likefurry-likemor2 cell polarity protein homologsodium/potassium-transporting ATPase subunit beta-1-interacting protein 3NKAIN3 intronic transcriptNa(+)/K(+)-transporting ATPase subunit beta-1-interacting protein 3Na+/K+ transporting ATPase interacting 3family with sequence similarity 77, member D
Modification date2020031320200313
UniProtAcc

O94915

.
Ensembl transtripts involved in fusion geneENST00000264319, ENST00000358350, 
ENST00000507711, ENST00000514783, 
ENST00000537810, ENST00000503238, 
ENST00000506685, ENST00000507873, 
Fusion gene scores* DoF score21 X 23 X 13=627911 X 7 X 4=308
# samples 3613
** MAII scorelog2(36/6279*10)=-4.12446600064719
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/308*10)=-1.24441872766645
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: FRYL [Title/Abstract] AND NKAIN3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointFRYL(48782095)-NKAIN3(63492098), # samples:2
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


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
ChimerDB4BLCATCGA-E7-A85H-01AFRYLchr4

48782095

-NKAIN3chr8

63492098

+


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Fusion Gene ORF analysis for FRYL-NKAIN3

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-3UTRENST00000264319ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000264319ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000264319ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000358350ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000358350ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000358350ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000507711ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000507711ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000507711ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000514783ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000514783ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000514783ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000537810ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000537810ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
5UTR-3UTRENST00000537810ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000503238ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000503238ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000503238ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000506685ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000506685ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000506685ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000507873ENST00000328472FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000507873ENST00000519049FRYLchr4

48782095

-NKAIN3chr8

63492098

+
intron-3UTRENST00000507873ENST00000523211FRYLchr4

48782095

-NKAIN3chr8

63492098

+

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 FRYL-NKAIN3


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)
FRYLchr448782094-NKAIN3chr863492097+7.42E-060.9999926
FRYLchr448782094-NKAIN3chr863492097+7.42E-060.9999926


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 FRYL-NKAIN3


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/:48782095/:63492098)
- 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
FRYL

O94915

.
FUNCTION: Plays a key role in maintaining the integrity of polarized cell extensions during morphogenesis, regulates the actin cytoskeleton and plays a key role in patterning sensory neuron dendritic fields by promoting avoidance between homologous dendrites as well as by limiting dendritic branching (By similarity). May function as a transcriptional activator. {ECO:0000250, ECO:0000269|PubMed:16061630}.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 FRYL-NKAIN3


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 FRYL-NKAIN3


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 FRYL-NKAIN3


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 FRYL-NKAIN3


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