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:HOXB6-LYRM1 (FusionGDB2 ID:37437)

Fusion Gene Summary for HOXB6-LYRM1

check button Fusion gene summary
Fusion gene informationFusion gene name: HOXB6-LYRM1
Fusion gene ID: 37437
HgeneTgene
Gene symbol

HOXB6

LYRM1

Gene ID

3216

57149

Gene namehomeobox B6LYR motif containing 1
SynonymsHOX2|HOX2B|HU-2|Hox-2.2A211C6.1
Cytomap

17q21.32

16p12.3

Type of geneprotein-codingprotein-coding
Descriptionhomeobox protein Hox-B6homeo box 2Bhomeo box B6homeobox protein Hox-2.2homeobox protein Hox-2Bhomeobox protein Hu-2LYR motif-containing protein 1
Modification date2020031320200313
UniProtAcc

P17509

O43325

Ensembl transtripts involved in fusion geneENST00000225648, ENST00000484302, 
ENST00000490419, 		ENST00000219168, 
ENST00000396052, ENST00000412082, 
ENST00000562740, ENST00000567954, 
ENST00000569023, ENST00000439021, 
ENST00000564457, ENST00000568663, 
Fusion gene scores* DoF score8 X 5 X 6=2401 X 1 X 1=1
# samples 91
** MAII scorelog2(9/240*10)=-1.41503749927884
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(1/1*10)=3.32192809488736
Context

PubMed: HOXB6 [Title/Abstract] AND LYRM1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointHOXB6(46681841)-LYRM1(20931443), # samples:1
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 buttonFusion gene breakpoints across HOXB6 (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 LYRM1 (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-BH-A0AWHOXB6chr17

46681841

-LYRM1chr16

20931443

+


Top

Fusion Gene ORF analysis for HOXB6-LYRM1

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-5UTRENST00000225648ENST00000219168HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000225648ENST00000396052HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000225648ENST00000412082HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000225648ENST00000562740HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000225648ENST00000567954HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000225648ENST00000569023HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000484302ENST00000219168HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000484302ENST00000396052HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000484302ENST00000412082HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000484302ENST00000562740HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000484302ENST00000567954HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-5UTRENST00000484302ENST00000569023HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-intronENST00000225648ENST00000439021HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-intronENST00000225648ENST00000564457HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-intronENST00000225648ENST00000568663HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-intronENST00000484302ENST00000439021HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-intronENST00000484302ENST00000564457HOXB6chr17

46681841

-LYRM1chr16

20931443

+
5UTR-intronENST00000484302ENST00000568663HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-5UTRENST00000490419ENST00000219168HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-5UTRENST00000490419ENST00000396052HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-5UTRENST00000490419ENST00000412082HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-5UTRENST00000490419ENST00000562740HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-5UTRENST00000490419ENST00000567954HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-5UTRENST00000490419ENST00000569023HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-intronENST00000490419ENST00000439021HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-intronENST00000490419ENST00000564457HOXB6chr17

46681841

-LYRM1chr16

20931443

+
intron-intronENST00000490419ENST00000568663HOXB6chr17

46681841

-LYRM1chr16

20931443

+

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 HOXB6-LYRM1


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)
HOXB6chr1746681841-LYRM1chr1620931443+3.68E-050.99996316
HOXB6chr1746681841-LYRM1chr1620931443+3.68E-050.99996316

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%

Top

Fusion Protein Features for HOXB6-LYRM1


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/:46681841/:20931443)
- 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
HOXB6

P17509

LYRM1

O43325

FUNCTION: Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.FUNCTION: May promote cell proliferation and inhibition of apoptosis of preadipocytes. {ECO:0000269|PubMed:19022914}.

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 HOXB6-LYRM1


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 HOXB6-LYRM1


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 HOXB6-LYRM1


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 HOXB6-LYRM1


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