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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:GABPB1-GALK2 (FusionGDB2 ID:32090)

Fusion Gene Summary for GABPB1-GALK2

check button Fusion gene summary
Fusion gene informationFusion gene name: GABPB1-GALK2
Fusion gene ID: 32090
HgeneTgene
Gene symbol

GABPB1

GALK2

Gene ID

2553

2585

Gene nameGA binding protein transcription factor subunit beta 1galactokinase 2
SynonymsBABPB2|E4TF1|E4TF1-47|E4TF1-53|E4TF1B|GABPB|GABPB-1|GABPB2|NRF2B1|NRF2B2GK2
Cytomap

15q21.2

15q21.1-q21.2

Type of geneprotein-codingprotein-coding
DescriptionGA-binding protein subunit beta-1GA binding protein transcription factor beta subunit 1 transcript variant gamma-2GABP subunit beta-2nuclear respiratory factor 2transcription factor E4TF1-47transcription factor E4TF1-53N-acetylgalactosamine kinasegalNAc kinase
Modification date2020031320200313
UniProtAcc

Q06547

Q01415

Ensembl transtripts involved in fusion geneENST00000220429, ENST00000359031, 
ENST00000380877, ENST00000396464, 
ENST00000429662, ENST00000543881, 
ENST00000560825, 		ENST00000327171, 
ENST00000396509, ENST00000560031, 
ENST00000543495, ENST00000544523, 
ENST00000559454, ENST00000561014, 
Fusion gene scores* DoF score8 X 5 X 6=2409 X 8 X 5=360
# samples 910
** MAII scorelog2(9/240*10)=-1.41503749927884
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/360*10)=-1.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GABPB1 [Title/Abstract] AND GALK2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGABPB1(50647182)-GALK2(49611801), # samples:3
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
HgeneGABPB1

GO:0045944

positive regulation of transcription by RNA polymerase II

9857059


check buttonFusion gene breakpoints across GABPB1 (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 GALK2 (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-C8-A12T-01AGABPB1chr15

50647182

-GALK2chr15

49611801

+
ChimerDB4BRCATCGA-C8-A12TGABPB1chr15

50647181

-GALK2chr15

49611800

+


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Fusion Gene ORF analysis for GABPB1-GALK2

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-3CDSENST00000220429ENST00000327171GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000220429ENST00000327171GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000220429ENST00000396509GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000220429ENST00000396509GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000220429ENST00000560031GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000220429ENST00000560031GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000359031ENST00000327171GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000359031ENST00000327171GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000359031ENST00000396509GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000359031ENST00000396509GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000359031ENST00000560031GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000359031ENST00000560031GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000380877ENST00000327171GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000380877ENST00000327171GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000380877ENST00000396509GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000380877ENST00000396509GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000380877ENST00000560031GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000380877ENST00000560031GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000396464ENST00000327171GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000396464ENST00000327171GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000396464ENST00000396509GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000396464ENST00000396509GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000396464ENST00000560031GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000396464ENST00000560031GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000429662ENST00000327171GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000429662ENST00000327171GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000429662ENST00000396509GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000429662ENST00000396509GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000429662ENST00000560031GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000429662ENST00000560031GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000543881ENST00000327171GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000543881ENST00000327171GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000543881ENST00000396509GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000543881ENST00000396509GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000543881ENST00000560031GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000543881ENST00000560031GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000560825ENST00000327171GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000560825ENST00000327171GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000560825ENST00000396509GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000560825ENST00000396509GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3CDSENST00000560825ENST00000560031GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3CDSENST00000560825ENST00000560031GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000220429ENST00000543495GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000220429ENST00000543495GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000220429ENST00000544523GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000220429ENST00000544523GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000220429ENST00000559454GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000220429ENST00000559454GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000220429ENST00000561014GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000220429ENST00000561014GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000359031ENST00000543495GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000359031ENST00000543495GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000359031ENST00000544523GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000359031ENST00000544523GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000359031ENST00000559454GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000359031ENST00000559454GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000359031ENST00000561014GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000359031ENST00000561014GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000380877ENST00000543495GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000380877ENST00000543495GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000380877ENST00000544523GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000380877ENST00000544523GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000380877ENST00000559454GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000380877ENST00000559454GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000380877ENST00000561014GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000380877ENST00000561014GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000396464ENST00000543495GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000396464ENST00000543495GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000396464ENST00000544523GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000396464ENST00000544523GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000396464ENST00000559454GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000396464ENST00000559454GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000396464ENST00000561014GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000396464ENST00000561014GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000429662ENST00000543495GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000429662ENST00000543495GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000429662ENST00000544523GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000429662ENST00000544523GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000429662ENST00000559454GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000429662ENST00000559454GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000429662ENST00000561014GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000429662ENST00000561014GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000543881ENST00000543495GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000543881ENST00000543495GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000543881ENST00000544523GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000543881ENST00000544523GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000543881ENST00000559454GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000543881ENST00000559454GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000543881ENST00000561014GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000543881ENST00000561014GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000560825ENST00000543495GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000560825ENST00000543495GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000560825ENST00000544523GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000560825ENST00000544523GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000560825ENST00000559454GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000560825ENST00000559454GABPB1chr15

50647181

-GALK2chr15

49611800

+
5UTR-3UTRENST00000560825ENST00000561014GABPB1chr15

50647182

-GALK2chr15

49611801

+
5UTR-3UTRENST00000560825ENST00000561014GABPB1chr15

50647181

-GALK2chr15

49611800

+

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 GABPB1-GALK2


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)
GABPB1chr1550647181-GALK2chr1549611800+1.85E-060.9999982
GABPB1chr1550647181-GALK2chr1549611800+1.85E-060.9999982
GABPB1chr1550647181-GALK2chr1549611800+1.85E-060.9999982
GABPB1chr1550647181-GALK2chr1549611800+1.85E-060.9999982

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 GABPB1-GALK2


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/:50647182/:49611801)
- 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
GABPB1

Q06547

GALK2

Q01415

FUNCTION: Transcription factor capable of interacting with purine rich repeats (GA repeats) (PubMed:8441384, PubMed:10675337, PubMed:8816484). Acts as a a master regulator of nuclear-encoded mitochondrial genes (By similarity). {ECO:0000250|UniProtKB:Q00420, ECO:0000269|PubMed:10675337, ECO:0000269|PubMed:8441384, ECO:0000269|PubMed:8816484}.; FUNCTION: (Microbial infection) Necessary for the expression of the Adenovirus E4 gene. {ECO:0000269|PubMed:8441384}.FUNCTION: Acts on GalNAc. Also acts as a galactokinase when galactose is present at high concentrations. May be involved in a salvage pathway for the reutilization of free GalNAc derived from the degradation of complex carbohydrates. {ECO:0000269|PubMed:16006554}.

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 GABPB1-GALK2


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 GABPB1-GALK2


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 GABPB1-GALK2


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 GABPB1-GALK2


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