Fusion Gene Studies
in Kim Lab

FusionBase FusionGDB FusionGDB2 FusionPDB FusionNeoAntigen FusionAI FusionNW FGviewer Publication Contact
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:B4GALT1-GPR125 (FusionGDB2 ID:HG2683TG166647)

Fusion Gene Summary for B4GALT1-GPR125

check button Fusion gene summary
Fusion gene informationFusion gene name: B4GALT1-GPR125
Fusion gene ID: hg2683tg166647
HgeneTgene
Gene symbol

B4GALT1

GPR125

Gene ID

2683

166647

Gene namebeta-1,4-galactosyltransferase 1adhesion G protein-coupled receptor A3
SynonymsB4GAL-T1|CDG2D|GGTB2|GT1|GTB|beta4Gal-T1GPR125|PGR21|TEM5L
Cytomap('B4GALT1')('GPR125')

9p21.1

4p15.2

Type of geneprotein-codingprotein-coding
Descriptionbeta-1,4-galactosyltransferase 1N-acetyllactosamine synthaseUDP-Gal:beta-GlcNAc beta-1,4-galactosyltransferase 1UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 1UDP-galactose:beta-N-acetylglucosamine beta-1,4-galactosyltransferase 1beadhesion G protein-coupled receptor A3G-protein coupled receptor 125probable G-protein coupled receptor 125
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000379731, ENST00000535206, 
ENST00000541851, 
Fusion gene scores* DoF score15 X 9 X 8=10803 X 3 X 3=27
# samples 203
** MAII scorelog2(20/1080*10)=-2.43295940727611
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: B4GALT1 [Title/Abstract] AND GPR125 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointB4GALT1(33166756)-GPR125(22475466), # samples:1
Anticipated loss of major functional domain due to fusion event.B4GALT1-GPR125 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene 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
HgeneB4GALT1

GO:0006487

protein N-linked glycosylation

16157350

HgeneB4GALT1

GO:0009312

oligosaccharide biosynthetic process

2120039



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
ChimerDB4OVTCGA-24-1436-01AB4GALT1chr9

33166756

-GPR125chr4

22475466

-


Top

Fusion Gene ORF analysis for B4GALT1-GPR125

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-intronENST00000379731ENST00000282943B4GALT1chr9

33166756

-GPR125chr4

22475466

-
5CDS-intronENST00000379731ENST00000502482B4GALT1chr9

33166756

-GPR125chr4

22475466

-
5CDS-intronENST00000379731ENST00000508133B4GALT1chr9

33166756

-GPR125chr4

22475466

-
5CDS-intronENST00000535206ENST00000282943B4GALT1chr9

33166756

-GPR125chr4

22475466

-
5CDS-intronENST00000535206ENST00000502482B4GALT1chr9

33166756

-GPR125chr4

22475466

-
5CDS-intronENST00000535206ENST00000508133B4GALT1chr9

33166756

-GPR125chr4

22475466

-
Frame-shiftENST00000379731ENST00000334304B4GALT1chr9

33166756

-GPR125chr4

22475466

-
Frame-shiftENST00000535206ENST00000334304B4GALT1chr9

33166756

-GPR125chr4

22475466

-
intron-3CDSENST00000541851ENST00000334304B4GALT1chr9

33166756

-GPR125chr4

22475466

-
intron-intronENST00000541851ENST00000282943B4GALT1chr9

33166756

-GPR125chr4

22475466

-
intron-intronENST00000541851ENST00000502482B4GALT1chr9

33166756

-GPR125chr4

22475466

-
intron-intronENST00000541851ENST00000508133B4GALT1chr9

33166756

-GPR125chr4

22475466

-

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 B4GALT1-GPR125


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)


Top

Fusion Protein Features for B4GALT1-GPR125


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/:33166756/:22475466)
- 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
..
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}.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


Top

Fusion Gene Sequence for B4GALT1-GPR125


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 B4GALT1-GPR125


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 B4GALT1-GPR125


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 B4GALT1-GPR125


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneB4GALT1C2931009Congenital disorder of glycosylation type 2D3CTD_human;GENOMICS_ENGLAND