Home

Download

Statistics

Examples

Help

Contact

	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:GLI3-HIBADH (FusionGDB2 ID:33276)

Fusion Gene Summary for GLI3-HIBADH

Fusion gene summary

Fusion gene information	Fusion gene name: GLI3-HIBADH
	Fusion gene ID: 33276
		Hgene	Tgene
	Gene symbol	GLI3	HIBADH
	Gene ID	2737	11112
	Gene name	GLI family zinc finger 3	3-hydroxyisobutyrate dehydrogenase
	Synonyms	ACLS\|GCPS\|GLI3-190\|GLI3FL\|PAP-A\|PAPA\|PAPA1\|PAPB\|PHS\|PPDIV	NS5ATP1
	Cytomap	7p14.1	7p15.2
	Type of gene	protein-coding	protein-coding
	Description	transcriptional activator GLI3GLI-Kruppel family member GLI3glioma-associated oncogene family zinc finger 3oncogene GLI3zinc finger protein GLI3	3-hydroxyisobutyrate dehydrogenase, mitochondrial3'-hydroxyisobutyrate dehydrogenaseepididymis secretory sperm binding protein
	Modification date	20200313	20200313
	UniProtAcc	.	P31937
	Ensembl transtripts involved in fusion gene	ENST00000479210, ENST00000395925, ENST00000437480,	ENST00000265395,
Fusion gene scores	* DoF score	11 X 11 X 8=968	9 X 8 X 7=504
	# samples	14	11
	** MAII score	log2(14/968*10)=-2.78958022032963 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(11/504*10)=-2.19592020997526 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: GLI3 [Title/Abstract] AND HIBADH [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	GLI3(42187825)-HIBADH(27672064), # 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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	GLI3	GO:0000122	negative regulation of transcription by RNA polymerase II	10693759\|12435627\|19084012
Hgene	GLI3	GO:0045892	negative regulation of transcription, DNA-templated	12435627\|16254602\|19084012
Hgene	GLI3	GO:0045944	positive regulation of transcription by RNA polymerase II	17000779
Hgene	GLI3	GO:0090090	negative regulation of canonical Wnt signaling pathway	17331723
Tgene	HIBADH	GO:0006574	valine catabolic process	16466957

Fusion gene breakpoints across GLI3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across HIBADH (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	LUAD	TCGA-50-6591-01A	GLI3	chr7	42187825	-	HIBADH	chr7	27672045	-
ChimerDB4	LUAD	TCGA-50-6591-01A	GLI3	chr7	42187825	-	HIBADH	chr7	27672064	-

Top

Fusion Gene ORF analysis for GLI3-HIBADH

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.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
5UTR-3CDS	ENST00000479210	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672045	-
5UTR-3CDS	ENST00000479210	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672064	-
In-frame	ENST00000395925	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672045	-
In-frame	ENST00000395925	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672064	-
intron-3CDS	ENST00000437480	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672045	-
intron-3CDS	ENST00000437480	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672064	-

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000395925	GLI3	chr7	42187825	-	ENST00000265395	HIBADH	chr7	27672064	-	1983	452	356	1210	284
ENST00000395925	GLI3	chr7	42187825	-	ENST00000265395	HIBADH	chr7	27672045	-	1964	452	85	687	200

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000395925	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672064	-	0.001299302	0.9987006
ENST00000395925	ENST00000265395	GLI3	chr7	42187825	-	HIBADH	chr7	27672045	-	0.009334123	0.99066585

Top

Fusion Genomic Features for GLI3-HIBADH

FusionAI 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.

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

Distribution 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.

Distribution 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.

Top

Fusion Protein Features for GLI3-HIBADH

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr7:42187825/chr7:27672064)
- 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.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
.	HIBADH P31937
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}.

Retention 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.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Tgene

HIBADH

chr7:42187825

chr7:27672045

ENST00000265395

103_104

337.0

Nucleotide binding

NAD

Tgene

HIBADH

chr7:42187825

chr7:27672045

ENST00000265395

40_68

337.0

Nucleotide binding

NAD

Tgene

HIBADH

chr7:42187825

chr7:27672064

ENST00000265395

103_104

337.0

Nucleotide binding

NAD

- In-frame and not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

GLI3

chr7:42187825

chr7:27672045

ENST00000395925

1492_1512

122

1581.0

Compositional bias

Note=Asp/Glu-rich (acidic)

Hgene

GLI3

chr7:42187825

chr7:27672064

ENST00000395925

1492_1512

122

1581.0

Compositional bias

Note=Asp/Glu-rich (acidic)

Hgene

GLI3

chr7:42187825

chr7:27672045

ENST00000395925

480_505

122

1581.0

Zinc finger

C2H2-type 1

Hgene

GLI3

chr7:42187825

chr7:27672045

ENST00000395925

513_540

122

1581.0

Zinc finger

C2H2-type 2

Hgene

GLI3

chr7:42187825

chr7:27672045

ENST00000395925

546_570

122

1581.0

Zinc finger

C2H2-type 3

Hgene

GLI3

chr7:42187825

chr7:27672045

ENST00000395925

576_601

122

1581.0

Zinc finger

C2H2-type 4

Hgene

GLI3

chr7:42187825

chr7:27672045

ENST00000395925

607_632

122

1581.0

Zinc finger

C2H2-type 5

Hgene

GLI3

chr7:42187825

chr7:27672064

ENST00000395925

480_505

122

1581.0

Zinc finger

C2H2-type 1

Hgene

GLI3

chr7:42187825

chr7:27672064

ENST00000395925

513_540

122

1581.0

Zinc finger

C2H2-type 2

Hgene

GLI3

chr7:42187825

chr7:27672064

ENST00000395925

546_570

122

1581.0

Zinc finger

C2H2-type 3

Hgene

GLI3

chr7:42187825

chr7:27672064

ENST00000395925

576_601

122

1581.0

Zinc finger

C2H2-type 4

Hgene

GLI3

chr7:42187825

chr7:27672064

ENST00000395925

607_632

122

1581.0

Zinc finger

C2H2-type 5

Tgene

HIBADH

chr7:42187825

chr7:27672064

ENST00000265395

40_68

337.0

Nucleotide binding

NAD

Top

Fusion Gene Sequence for GLI3-HIBADH

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.

>33276_33276_1_GLI3-HIBADH_GLI3_chr7_42187825_ENST00000395925_HIBADH_chr7_27672045_ENST00000265395_length(transcript)=1964nt_BP=452nt
GTCTATGGGAAGTTCGGGGACTTGACAGCCGCTGCCGCCGCAGGGCATTTTTGGTCGAAGAGAGCTGAAGTAATGAGAAGACATCATGGA
GGCCCAGTCCCACAGCTCCACGACCACTGAAAAGAAAAAAGTTGAGAATTCCATAGTGAAGTGCTCCACTCGAACAGATGTGAGCGAGAA
AGCCGTTGCCTCCAGCACCACTTCTAATGAGGATGAAAGTCCTGGACAGACTTATCACAGAGAGAGAAGAAACGCAATCACTATGCAGCC
ACAGAATGTCCAGGGGCTCAGCAAAGTCAGTGAGGAACCTTCAACATCGAGTGACGAGAGGGCCTCATTGATCAAGAAAGAGATCCATGG
GTCCCTGCCACACGTGGCGGAGCCCTCTGTGCCGTACCGCGGGACGGTGTTTGCCATGGACCCCAGGAATGGTTACATGGAGCCCCACTA
CCGATCTGGGATTGGCACAAGACTCTGCTACCAGCACAAAGAGCCCAATCCTTCTTGGCAGTCTGGCCCATCAGATCTACAGGATGATGT
GTGCAAAGGGCTACTCAAAGAAAGACTTCTCATCCGTGTTCCAGTTCCTACGAGAGGAGGAGACCTTCTGAGTGTGCCCTTTGGCCACGG
ACACTGTTGGGAACCAAACTCTGTCTTGGAGCCTCCTTTTAGCTCACTCCACAAGTAAATGGATTTAATCAAAGGTCACCTATCTGCTTT
TGATTGTCTAGGTCACAGTAATCCCTAGGATTTTTCACCGCTTATTCTTTTTGTCTTTTTAACAAACATATTATCCGAATTTTTTTTCTG
CAAGCCACTGATAGTCTCTGCTAACTAGCTTAATTGACCTTTTTACAAAGTTTGATCCCCAAGCATCCTCAACTAAATCATTGAATACTT
CAATCAGGATATTATCTGCTTTACTTTACAAATAAAACCAAATCTTTTGTCAACAGGATGAAACCCATCTTAAAGGAAAGAAAAGGAATT
GGTGTGAAGAGAGAAGTTAGAGAAGGGAAATGCAGTGAATTACTATCTGTGTCCATCAGGAAGTTTGTCCTGTTAACCAAATGGTTACTG
CACTACCAGGGTTACTGGTTTATTTTCCAGGGAGCTGATAAAGCAGGAGAACTGTTGCTGCATGTTTTCTATTTGGACTCCGTCACAATA
TGGTAGGATATCCCTCACCAACTCCCGACACTCAGCAGACTTGTTTTTATATTTTTTTCTTTCTTGTTCATTCTTACTACGTATTTTTTG
ACTTAAGAATGACATCTTTAGATGCATTTCAGAGCCAATGATGATATTTGCTTTAGATAATTATTATATTATTATAAATATAGCCATATT
ATTTTGAATTCAAATAAATTTCTATACTGGTAAGTTAGGGCTTGACCCAAAACTACTGGCTAAAATCCTAAATATGAGCTCAGGACGGTG
TTGGTCAAGTGACACTTATAATCCTGTACCTGGAGTGATGGATGGCGTTCCCTCGGCTAATAACTATCAGGGTGGATTTGGAACAACACT
CATGGCTAAGGCGGCAAAGATCTGCAACAACATGCTGTTAGCTATTAGTATGATTGGAACTGCTGAAGCTATGAATCTTGGAATCAGGTG
TAGGAGCTGCACGATCTGGGAACCTCACGTTTATGGTGGGAGGAGTTGAAGATGAATTTGCTGCTGCCCAAGAGTTGCTGGGGTGCATGG
GCTCCAACGTGGTGTACTGTGGAGCTGTTGGGACTGGGCAGAAAAGTGAAGAAGGGCTCATTATTAATAGATTCCAGCACTATTGATCCT
GCAGTTTCAAAAGAATTGGCCAAAGAAGTTGAGAAAATGGGAGCAGTTTTCATGGATGCCCCTGTTTCTGGTGATGTTGCTGAAAAAGCT

>33276_33276_1_GLI3-HIBADH_GLI3_chr7_42187825_ENST00000395925_HIBADH_chr7_27672045_ENST00000265395_length(amino acids)=200AA_BP=
MEAQSHSSTTTEKKKVENSIVKCSTRTDVSEKAVASSTTSNEDESPGQTYHRERRNAITMQPQNVQGLSKVSEEPSTSSDERASLIKKEI
HGSLPHVAEPSVPYRGTVFAMDPRNGYMEPHYRSGIGTRLCYQHKEPNPSWQSGPSDLQDDVCKGLLKERLLIRVPVPTRGGDLLSVPFG

--------------------------------------------------------------
>33276_33276_2_GLI3-HIBADH_GLI3_chr7_42187825_ENST00000395925_HIBADH_chr7_27672064_ENST00000265395_length(transcript)=1983nt_BP=452nt
GTCTATGGGAAGTTCGGGGACTTGACAGCCGCTGCCGCCGCAGGGCATTTTTGGTCGAAGAGAGCTGAAGTAATGAGAAGACATCATGGA
GGCCCAGTCCCACAGCTCCACGACCACTGAAAAGAAAAAAGTTGAGAATTCCATAGTGAAGTGCTCCACTCGAACAGATGTGAGCGAGAA
AGCCGTTGCCTCCAGCACCACTTCTAATGAGGATGAAAGTCCTGGACAGACTTATCACAGAGAGAGAAGAAACGCAATCACTATGCAGCC
ACAGAATGTCCAGGGGCTCAGCAAAGTCAGTGAGGAACCTTCAACATCGAGTGACGAGAGGGCCTCATTGATCAAGAAAGAGATCCATGG
GTCCCTGCCACACGTGGCGGAGCCCTCTGTGCCGTACCGCGGGACGGTGTTTGCCATGGACCCCAGGAATGGTTACATGGAGCCCCACTA
CCGTAGTATCTTCCCCAGCAGATGTTGCTGAAAAAGCTGACAGAATTATTACAATGCTGCCCACCAGTATCAATGCAATAGAAGCTTATT
CCGGAGCAAATGGGATTCTAAAAAAAGTGAAGAAGGGCTCATTATTAATAGATTCCAGCACTATTGATCCTGCAGTTTCAAAAGAATTGG
CCAAAGAAGTTGAGAAAATGGGAGCAGTTTTCATGGATGCCCCTGTTTCTGGTGGTGTAGGAGCTGCACGATCTGGGAACCTCACGTTTA
TGGTGGGAGGAGTTGAAGATGAATTTGCTGCTGCCCAAGAGTTGCTGGGGTGCATGGGCTCCAACGTGGTGTACTGTGGAGCTGTTGGGA
CTGGGCAGGCGGCAAAGATCTGCAACAACATGCTGTTAGCTATTAGTATGATTGGAACTGCTGAAGCTATGAATCTTGGAATCAGGTTAG
GGCTTGACCCAAAACTACTGGCTAAAATCCTAAATATGAGCTCAGGACGGTGTTGGTCAAGTGACACTTATAATCCTGTACCTGGAGTGA
TGGATGGCGTTCCCTCGGCTAATAACTATCAGGGTGGATTTGGAACAACACTCATGGCTAAGGATCTGGGATTGGCACAAGACTCTGCTA
CCAGCACAAAGAGCCCAATCCTTCTTGGCAGTCTGGCCCATCAGATCTACAGGATGATGTGTGCAAAGGGCTACTCAAAGAAAGACTTCT
CATCCGTGTTCCAGTTCCTACGAGAGGAGGAGACCTTCTGAGTGTGCCCTTTGGCCACGGACACTGTTGGGAACCAAACTCTGTCTTGGA
GCCTCCTTTTAGCTCACTCCACAAGTAAATGGATTTAATCAAAGGTCACCTATCTGCTTTTGATTGTCTAGGTCACAGTAATCCCTAGGA
TTTTTCACCGCTTATTCTTTTTGTCTTTTTAACAAACATATTATCCGAATTTTTTTTCTGCAAGCCACTGATAGTCTCTGCTAACTAGCT
TAATTGACCTTTTTACAAAGTTTGATCCCCAAGCATCCTCAACTAAATCATTGAATACTTCAATCAGGATATTATCTGCTTTACTTTACA
AATAAAACCAAATCTTTTGTCAACAGGATGAAACCCATCTTAAAGGAAAGAAAAGGAATTGGTGTGAAGAGAGAAGTTAGAGAAGGGAAA
TGCAGTGAATTACTATCTGTGTCCATCAGGAAGTTTGTCCTGTTAACCAAATGGTTACTGCACTACCAGGGTTACTGGTTTATTTTCCAG
GGAGCTGATAAAGCAGGAGAACTGTTGCTGCATGTTTTCTATTTGGACTCCGTCACAATATGGTAGGATATCCCTCACCAACTCCCGACA
CTCAGCAGACTTGTTTTTATATTTTTTTCTTTCTTGTTCATTCTTACTACGTATTTTTTGACTTAAGAATGACATCTTTAGATGCATTTC
AGAGCCAATGATGATATTTGCTTTAGATAATTATTATATTATTATAAATATAGCCATATTATTTTGAATTCAAATAAATTTCTATACTGG

>33276_33276_2_GLI3-HIBADH_GLI3_chr7_42187825_ENST00000395925_HIBADH_chr7_27672064_ENST00000265395_length(amino acids)=284AA_BP=32
MGPCHTWRSPLCRTAGRCLPWTPGMVTWSPTTVVSSPADVAEKADRIITMLPTSINAIEAYSGANGILKKVKKGSLLIDSSTIDPAVSKE
LAKEVEKMGAVFMDAPVSGGVGAARSGNLTFMVGGVEDEFAAAQELLGCMGSNVVYCGAVGTGQAAKICNNMLLAISMIGTAEAMNLGIR
LGLDPKLLAKILNMSSGRCWSSDTYNPVPGVMDGVPSANNYQGGFGTTLMAKDLGLAQDSATSTKSPILLGSLAHQIYRMMCAKGYSKKD

--------------------------------------------------------------

Top

Fusion Gene PPI Analysis for GLI3-HIBADH

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

Top

Related Drugs for GLI3-HIBADH

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

Top

Related Diseases for GLI3-HIBADH

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source