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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:KANSL3-LMAN2L (FusionGDB2 ID:41164)

Fusion Gene Summary for KANSL3-LMAN2L

check button Fusion gene summary
Fusion gene informationFusion gene name: KANSL3-LMAN2L
Fusion gene ID: 41164
HgeneTgene
Gene symbol

KANSL3

LMAN2L

Gene ID

55683

81562

Gene nameKAT8 regulatory NSL complex subunit 3lectin, mannose binding 2 like
SynonymsKIAA1310|NSL3|Rcd1MRT52|VIPL
Cytomap

2q11.2

2q11.2

Type of geneprotein-codingprotein-coding
DescriptionKAT8 regulatory NSL complex subunit 3NSL complex protein NSL3non-specific lethal 3 homologserum inhibited-related proteintestis development protein PRTDVIP36-like proteinLMAN2-like protein
Modification date2020031320200313
UniProtAcc

Q9P2N6

Q9H0V9

Ensembl transtripts involved in fusion geneENST00000440133, ENST00000487070, 
ENST00000435669, ENST00000441706, 
ENST00000599854, ENST00000431828, 
ENST00000264963, ENST00000377079, 
ENST00000426463, ENST00000534882, 
ENST00000537039, 
Fusion gene scores* DoF score9 X 8 X 5=3604 X 5 X 2=40
# samples 114
** MAII scorelog2(11/360*10)=-1.71049338280502
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/40*10)=0
Context

PubMed: KANSL3 [Title/Abstract] AND LMAN2L [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointKANSL3(97297048)-LMAN2L(97377762), # samples:1
KANSL3(97297049)-LMAN2L(97377762), # samples:1
Anticipated loss of major functional domain due to fusion event.KANSL3-LMAN2L seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF.
KANSL3-LMAN2L 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
HgeneKANSL3

GO:0043981

histone H4-K5 acetylation

20018852

HgeneKANSL3

GO:0043982

histone H4-K8 acetylation

20018852

HgeneKANSL3

GO:0043984

histone H4-K16 acetylation

20018852


check buttonFusion gene breakpoints across KANSL3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across LMAN2L (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4OVTCGA-10-0934-01AKANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
ChimerDB4OVTCGA-10-0934KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-


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Fusion Gene ORF analysis for KANSL3-LMAN2L

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-3CDSENST00000440133ENST00000264963KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000264963KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000377079KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000377079KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000426463KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000426463KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000534882KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000534882KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000537039KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000440133ENST00000537039KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000264963KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000264963KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000377079KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000377079KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000426463KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000426463KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000534882KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000534882KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000537039KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
5UTR-3CDSENST00000487070ENST00000537039KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000264963KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000264963KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000377079KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000377079KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000426463KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000426463KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000534882KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000534882KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000537039KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000435669ENST00000537039KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000264963KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000264963KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000377079KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000377079KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000426463KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000426463KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000534882KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000534882KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000537039KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000441706ENST00000537039KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000264963KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000264963KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000377079KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000377079KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000426463KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000426463KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000534882KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000534882KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000537039KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
Frame-shiftENST00000599854ENST00000537039KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000264963KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000264963KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000377079KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000377079KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000426463KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000426463KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000534882KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000534882KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000537039KANSL3chr2

97297049

-LMAN2Lchr2

97377762

-
In-frameENST00000431828ENST00000537039KANSL3chr2

97297048

-LMAN2Lchr2

97377762

-

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 KANSL3-LMAN2L


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)

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.
genomic feature

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.

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Fusion Protein Features for KANSL3-LMAN2L


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/chr2:97297048/chr2:97377762)
- 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
KANSL3

Q9P2N6

LMAN2L

Q9H0V9

FUNCTION: As part of the NSL complex it is involved in acetylation of nucleosomal histone H4 on several lysine residues and therefore may be involved in the regulation of transcription. {ECO:0000269|PubMed:20018852}.FUNCTION: May be involved in the regulation of export from the endoplasmic reticulum of a subset of glycoproteins. May function as a regulator of ERGIC-53. {ECO:0000269|PubMed:12878160}.

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
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000026496338258_260169349.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000037707949258_260180360.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000026496338258_260169349.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000037707949258_260180360.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000026496338337_348169349.0Topological domainCytoplasmic
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000037707949337_348180360.0Topological domainCytoplasmic
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000026496338337_348169349.0Topological domainCytoplasmic
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000037707949337_348180360.0Topological domainCytoplasmic
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000026496338314_336169349.0TransmembraneHelical
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000037707949314_336180360.0TransmembraneHelical
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000026496338314_336169349.0TransmembraneHelical
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000037707949314_336180360.0TransmembraneHelical

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneKANSL3chr2:97297048chr2:97377762ENST00000431828-321700_766128879.0Compositional biasNote=Ser-rich
HgeneKANSL3chr2:97297048chr2:97377762ENST00000435669-36700_76641142.0Compositional biasNote=Ser-rich
HgeneKANSL3chr2:97297048chr2:97377762ENST00000599854-321700_76641792.0Compositional biasNote=Ser-rich
HgeneKANSL3chr2:97297049chr2:97377762ENST00000431828-321700_766128879.0Compositional biasNote=Ser-rich
HgeneKANSL3chr2:97297049chr2:97377762ENST00000435669-36700_76641142.0Compositional biasNote=Ser-rich
HgeneKANSL3chr2:97297049chr2:97377762ENST00000599854-321700_76641792.0Compositional biasNote=Ser-rich
TgeneLMAN2Lchr2:97297048chr2:97377762ENST000002649633849_274169349.0DomainL-type lectin-like
TgeneLMAN2Lchr2:97297048chr2:97377762ENST000003770794949_274180360.0DomainL-type lectin-like
TgeneLMAN2Lchr2:97297049chr2:97377762ENST000002649633849_274169349.0DomainL-type lectin-like
TgeneLMAN2Lchr2:97297049chr2:97377762ENST000003770794949_274180360.0DomainL-type lectin-like
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000026496338161_163169349.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297048chr2:97377762ENST0000037707949161_163180360.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000026496338161_163169349.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297049chr2:97377762ENST0000037707949161_163180360.0RegionCarbohydrate binding
TgeneLMAN2Lchr2:97297048chr2:97377762ENST000002649633845_313169349.0Topological domainLumenal
TgeneLMAN2Lchr2:97297048chr2:97377762ENST000003770794945_313180360.0Topological domainLumenal
TgeneLMAN2Lchr2:97297049chr2:97377762ENST000002649633845_313169349.0Topological domainLumenal
TgeneLMAN2Lchr2:97297049chr2:97377762ENST000003770794945_313180360.0Topological domainLumenal


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Fusion Gene Sequence for KANSL3-LMAN2L


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 KANSL3-LMAN2L


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 KANSL3-LMAN2L


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 KANSL3-LMAN2L


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