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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:GALNT1-TAF4B (FusionGDB2 ID:HG2589TG6875)

Fusion Gene Summary for GALNT1-TAF4B

check button Fusion gene summary
Fusion gene informationFusion gene name: GALNT1-TAF4B
Fusion gene ID: hg2589tg6875
HgeneTgene
Gene symbol

GALNT1

TAF4B

Gene ID

2589

6875

Gene namepolypeptide N-acetylgalactosaminyltransferase 1TATA-box binding protein associated factor 4b
SynonymsGALNAC-T1SPGF13|TAF2C2|TAFII105
Cytomap('GALNT1')('TAF4B')

18q12.2

18q11.2

Type of geneprotein-codingprotein-coding
Descriptionpolypeptide N-acetylgalactosaminyltransferase 1GalNAc transferase 1UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase 1UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 1 (GalNAc-T1)polypeptide GalNAc transferase 1transcription initiation factor TFIID subunit 4BTAF(II)105TAF4b RNA polymerase II, TATA box binding protein (TBP)-associated factor, 105kDaTATA box binding protein (TBP)-associated factor 4BTATA box binding protein (TBP)-associated factor, RNA polymer
Modification date2020031320200313
UniProtAcc

Q10472

.
Ensembl transtripts involved in fusion geneENST00000269195, ENST00000591081, 
ENST00000537549, ENST00000586725, 
Fusion gene scores* DoF score2 X 2 X 2=89 X 11 X 7=693
# samples 312
** MAII scorelog2(3/8*10)=1.90689059560852log2(12/693*10)=-2.5298209465287
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GALNT1 [Title/Abstract] AND TAF4B [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGALNT1(33234765)-TAF4B(23937654), # samples:3
Anticipated loss of major functional domain due to fusion event.GALNT1-TAF4B seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
GALNT1-TAF4B seems lost the major protein functional domain in Hgene partner, which is a essential 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
HgeneGALNT1

GO:0006493

protein O-linked glycosylation

22186971

HgeneGALNT1

GO:0018242

protein O-linked glycosylation via serine

9295285

HgeneGALNT1

GO:0018243

protein O-linked glycosylation via threonine

9295285



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
ChimerDB4LGGTCGA-TM-A84I-01AGALNT1chr18

33234765

-TAF4Bchr18

23937654

+
ChimerDB4LGGTCGA-TM-A84I-01AGALNT1chr18

33234765

+TAF4Bchr18

23937654

+
ChimerDB4LGGTCGA-TM-A84IGALNT1chr18

33234765

+TAF4Bchr18

23937653

+
ChimerDB4LGGTCGA-TM-A84IGALNT1chr18

33234765

+TAF4Bchr18

23937654

+


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Fusion Gene ORF analysis for GALNT1-TAF4B

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-intronENST00000269195ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
5CDS-intronENST00000269195ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
5CDS-intronENST00000269195ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
5CDS-intronENST00000269195ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
5CDS-intronENST00000591081ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
5CDS-intronENST00000591081ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
5CDS-intronENST00000591081ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
5CDS-intronENST00000591081ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
5UTR-3CDSENST00000537549ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
5UTR-3CDSENST00000537549ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
5UTR-intronENST00000537549ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
5UTR-intronENST00000537549ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
5UTR-intronENST00000537549ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
5UTR-intronENST00000537549ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
Frame-shiftENST00000269195ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
Frame-shiftENST00000269195ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
Frame-shiftENST00000591081ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
Frame-shiftENST00000591081ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
intron-3CDSENST00000586725ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
intron-3CDSENST00000586725ENST00000269142GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
intron-intronENST00000586725ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
intron-intronENST00000586725ENST00000400466GALNT1chr18

33234765

+TAF4Bchr18

23937653

+
intron-intronENST00000586725ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937654

+
intron-intronENST00000586725ENST00000578121GALNT1chr18

33234765

+TAF4Bchr18

23937653

+

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 GALNT1-TAF4B


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)
GALNT1chr1833234765+TAF4Bchr1823937653+3.71E-060.9999963
GALNT1chr1833234765+TAF4Bchr1823937653+3.71E-060.9999963
GALNT1chr1833234765+TAF4Bchr1823937653+3.71E-060.9999963
GALNT1chr1833234765+TAF4Bchr1823937653+3.71E-060.9999963


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 GALNT1-TAF4B


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/:33234765/:23937654)
- 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
GALNT1

Q10472

.
FUNCTION: Catalyzes the initial reaction in O-linked oligosaccharide biosynthesis, the transfer of an N-acetyl-D-galactosamine residue to a serine or threonine residue on the protein receptor. Has a broad spectrum of substrates for peptides such as EA2, Muc5AC, Muc1a, Muc1b and Muc7. {ECO:0000269|PubMed:9295285}.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 GALNT1-TAF4B


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 GALNT1-TAF4B


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 GALNT1-TAF4B


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 GALNT1-TAF4B


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC4014449SPERMATOGENIC FAILURE 131CTD_human;GENOMICS_ENGLAND