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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:CDK19-LYZ (FusionGDB2 ID:15219)

Fusion Gene Summary for CDK19-LYZ

check button Fusion gene summary
Fusion gene informationFusion gene name: CDK19-LYZ
Fusion gene ID: 15219
HgeneTgene
Gene symbol

CDK19

LYZ

Gene ID

23097

4069

Gene namecyclin dependent kinase 19lysozyme
SynonymsCDC2L6|CDK11|bA346C16.3LYZF1|LZM
Cytomap

6q21

12q15

Type of geneprotein-codingprotein-coding
Descriptioncyclin-dependent kinase 19CDC2-related protein kinase 6CDK8-like cyclin-dependent kinasecell division cycle 2-like 6 (CDK8-like)cell division cycle 2-like protein kinase 6cell division protein kinase 19cyclin dependent kinase 19 variant 2cyclin-deplysozyme C1,4-beta-N-acetylmuramidase Cc-type lysozymelysozyme F1
Modification date2020031320200313
UniProtAcc

Q9BWU1

P61626

Ensembl transtripts involved in fusion geneENST00000323817, ENST00000368911, 
ENST00000413605, ENST00000497709, 
ENST00000261267, ENST00000549690, 
ENST00000548839, 
Fusion gene scores* DoF score12 X 10 X 7=84051 X 27 X 13=17901
# samples 1560
** MAII scorelog2(15/840*10)=-2.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(60/17901*10)=-4.89893387178018
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CDK19 [Title/Abstract] AND LYZ [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCDK19(110988637)-LYZ(69743888), # samples:1
CDK19(110988636)-LYZ(69743887), # samples:1
Anticipated loss of major functional domain due to fusion event.CDK19-LYZ seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
CDK19-LYZ seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
CDK19-LYZ seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
CDK19-LYZ seems lost the major protein functional domain in Hgene partner, which is a kinase 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
TgeneLYZ

GO:0031640

killing of cells of other organism

9727055

TgeneLYZ

GO:0042742

defense response to bacterium

21093056

TgeneLYZ

GO:0050830

defense response to Gram-positive bacterium

21093056


check buttonFusion gene breakpoints across CDK19 (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 LYZ (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
ChimerDB4SARCTCGA-DX-A2J1-01ACDK19chr6

110988637

-LYZchr12

69743888

+
ChimerDB4SARCTCGA-DX-A2J1CDK19chr6

110988636

-LYZchr12

69743887

+


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Fusion Gene ORF analysis for CDK19-LYZ

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
Frame-shiftENST00000323817ENST00000261267CDK19chr6

110988637

-LYZchr12

69743888

+
Frame-shiftENST00000323817ENST00000261267CDK19chr6

110988636

-LYZchr12

69743887

+
Frame-shiftENST00000323817ENST00000549690CDK19chr6

110988637

-LYZchr12

69743888

+
Frame-shiftENST00000323817ENST00000549690CDK19chr6

110988636

-LYZchr12

69743887

+
Frame-shiftENST00000368911ENST00000261267CDK19chr6

110988637

-LYZchr12

69743888

+
Frame-shiftENST00000368911ENST00000261267CDK19chr6

110988636

-LYZchr12

69743887

+
Frame-shiftENST00000368911ENST00000548839CDK19chr6

110988637

-LYZchr12

69743888

+
Frame-shiftENST00000368911ENST00000548839CDK19chr6

110988636

-LYZchr12

69743887

+
Frame-shiftENST00000368911ENST00000549690CDK19chr6

110988637

-LYZchr12

69743888

+
Frame-shiftENST00000368911ENST00000549690CDK19chr6

110988636

-LYZchr12

69743887

+
In-frameENST00000323817ENST00000548839CDK19chr6

110988637

-LYZchr12

69743888

+
In-frameENST00000323817ENST00000548839CDK19chr6

110988636

-LYZchr12

69743887

+
intron-3CDSENST00000413605ENST00000261267CDK19chr6

110988637

-LYZchr12

69743888

+
intron-3CDSENST00000413605ENST00000261267CDK19chr6

110988636

-LYZchr12

69743887

+
intron-3CDSENST00000413605ENST00000548839CDK19chr6

110988637

-LYZchr12

69743888

+
intron-3CDSENST00000413605ENST00000548839CDK19chr6

110988636

-LYZchr12

69743887

+
intron-3CDSENST00000413605ENST00000549690CDK19chr6

110988637

-LYZchr12

69743888

+
intron-3CDSENST00000413605ENST00000549690CDK19chr6

110988636

-LYZchr12

69743887

+
intron-3CDSENST00000497709ENST00000261267CDK19chr6

110988637

-LYZchr12

69743888

+
intron-3CDSENST00000497709ENST00000261267CDK19chr6

110988636

-LYZchr12

69743887

+
intron-3CDSENST00000497709ENST00000548839CDK19chr6

110988637

-LYZchr12

69743888

+
intron-3CDSENST00000497709ENST00000548839CDK19chr6

110988636

-LYZchr12

69743887

+
intron-3CDSENST00000497709ENST00000549690CDK19chr6

110988637

-LYZchr12

69743888

+
intron-3CDSENST00000497709ENST00000549690CDK19chr6

110988636

-LYZchr12

69743887

+

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)
ENST00000323817CDK19chr6110988637-ENST00000548839LYZchr1269743888+85645716642208
ENST00000323817CDK19chr6110988636-ENST00000548839LYZchr1269743887+85645716642208

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
ENST00000323817ENST00000548839CDK19chr6110988637-LYZchr1269743888+0.0099254380.9900746
ENST00000323817ENST00000548839CDK19chr6110988636-LYZchr1269743887+0.0099254380.9900746

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Fusion Genomic Features for CDK19-LYZ


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)
CDK19chr6110988636-LYZchr1269743887+1.19E-070.9999999
CDK19chr6110988636-LYZchr1269743887+1.19E-070.9999999
CDK19chr6110988636-LYZchr1269743887+1.19E-070.9999999
CDK19chr6110988636-LYZchr1269743887+1.19E-070.9999999

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.
genomic feature of top 1%

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Fusion Protein Features for CDK19-LYZ


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/chr6:110988637/chr12:69743888)
- 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
CDK19

Q9BWU1

LYZ

P61626

FUNCTION: Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents.

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
HgeneCDK19chr6:110988636chr12:69743887ENST00000323817-51427_3592443.0Nucleotide bindingATP
HgeneCDK19chr6:110988636chr12:69743887ENST00000368911-41327_35152503.0Nucleotide bindingATP
HgeneCDK19chr6:110988637chr12:69743888ENST00000323817-51427_3592443.0Nucleotide bindingATP
HgeneCDK19chr6:110988637chr12:69743888ENST00000368911-41327_35152503.0Nucleotide bindingATP

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCDK19chr6:110988636chr12:69743887ENST00000323817-514372_40492443.0Compositional biasNote=Gln-rich
HgeneCDK19chr6:110988636chr12:69743887ENST00000323817-514461_49192443.0Compositional biasNote=Ser-rich
HgeneCDK19chr6:110988636chr12:69743887ENST00000368911-413372_404152503.0Compositional biasNote=Gln-rich
HgeneCDK19chr6:110988636chr12:69743887ENST00000368911-413461_491152503.0Compositional biasNote=Ser-rich
HgeneCDK19chr6:110988637chr12:69743888ENST00000323817-514372_40492443.0Compositional biasNote=Gln-rich
HgeneCDK19chr6:110988637chr12:69743888ENST00000323817-514461_49192443.0Compositional biasNote=Ser-rich
HgeneCDK19chr6:110988637chr12:69743888ENST00000368911-413372_404152503.0Compositional biasNote=Gln-rich
HgeneCDK19chr6:110988637chr12:69743888ENST00000368911-413461_491152503.0Compositional biasNote=Ser-rich
HgeneCDK19chr6:110988636chr12:69743887ENST00000323817-51421_33592443.0DomainProtein kinase
HgeneCDK19chr6:110988636chr12:69743887ENST00000368911-41321_335152503.0DomainProtein kinase
HgeneCDK19chr6:110988637chr12:69743888ENST00000323817-51421_33592443.0DomainProtein kinase
HgeneCDK19chr6:110988637chr12:69743888ENST00000368911-41321_335152503.0DomainProtein kinase
TgeneLYZchr6:110988636chr12:69743887ENST000002612670419_14845149.0DomainC-type lysozyme
TgeneLYZchr6:110988637chr12:69743888ENST000002612670419_14845149.0DomainC-type lysozyme


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Fusion Gene Sequence for CDK19-LYZ


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.
>15219_15219_1_CDK19-LYZ_CDK19_chr6_110988636_ENST00000323817_LYZ_chr12_69743887_ENST00000548839_length(transcript)=856nt_BP=457nt
AGGGGGAGGGGCGGCCCTGGTACGCAGGCGCGCATGCTTTGTGGGGGCGAGGCTGTGGTGGCCCGAGATTCCAGGAGGGCTTCGTGTATG
GACCTCAAGCGTTGGAGGTAGCAGACTTTTCAGCAGAAGAAAAGATGAAAAGGAATATGCATTGAAGCAAATTGAAGGCACAGGAATATC
CATGTCGGCTTGTAGAGAGATTGCACTTTTGCGAGAATTGAAGCACCCTAATGTGATTGCATTGCAGAAGGTGTTCCTTTCTCACAGTGA
CAGGAAGGTATGGCTGCTGTTTGATTATGCAGAGCATGACTTGTGGCATATTATTAAGTTTCACCGTGCATCAAAAGCAAATAAAAAGCC
CATGCAGTTGCCAAGATCTATGGTTAAATCCTTACTTTACCAGATTCTTGATGGTATCCATTACCTCCATGCAAATTGGGTGCTTCACAG
AGACTTGGGATGTGTTTGGCCAAATGGGAGAGTGGTTACAACACACGAGCTACAAACTACAATGCTGGAGACAGAAGCACTGATTATGGG
ATATTTCAGATCAATAGCCGCTACTGGTGTAATGATGGCAAAACCCCAGGAGCAGTTAATGCCTGTCATTTATCCTGCAGTGGTAAGACA
AGCTAATATTTGACCAATCTGGTTATACTTACAAGAATTGAGACTCAATACAAATGAAAAAGCCTTGAAAGGTTCATGAGGGACCTAGAA
AAACTACATCTCAACTTCCAGAAAGTCATTATTATTTTCCTCATAATTCCCTGAGTAAGAAATTAAAGAAGTGGTATCATAAAAGGTTGA

>15219_15219_1_CDK19-LYZ_CDK19_chr6_110988636_ENST00000323817_LYZ_chr12_69743887_ENST00000548839_length(amino acids)=208AA_BP=147
MVRRRACFVGARLWWPEIPGGLRVWTSSVGGSRLFSRRKDEKEYALKQIEGTGISMSACREIALLRELKHPNVIALQKVFLSHSDRKVWL
LFDYAEHDLWHIIKFHRASKANKKPMQLPRSMVKSLLYQILDGIHYLHANWVLHRDLGCVWPNGRVVTTHELQTTMLETEALIMGYFRSI

--------------------------------------------------------------
>15219_15219_2_CDK19-LYZ_CDK19_chr6_110988637_ENST00000323817_LYZ_chr12_69743888_ENST00000548839_length(transcript)=856nt_BP=457nt
AGGGGGAGGGGCGGCCCTGGTACGCAGGCGCGCATGCTTTGTGGGGGCGAGGCTGTGGTGGCCCGAGATTCCAGGAGGGCTTCGTGTATG
GACCTCAAGCGTTGGAGGTAGCAGACTTTTCAGCAGAAGAAAAGATGAAAAGGAATATGCATTGAAGCAAATTGAAGGCACAGGAATATC
CATGTCGGCTTGTAGAGAGATTGCACTTTTGCGAGAATTGAAGCACCCTAATGTGATTGCATTGCAGAAGGTGTTCCTTTCTCACAGTGA
CAGGAAGGTATGGCTGCTGTTTGATTATGCAGAGCATGACTTGTGGCATATTATTAAGTTTCACCGTGCATCAAAAGCAAATAAAAAGCC
CATGCAGTTGCCAAGATCTATGGTTAAATCCTTACTTTACCAGATTCTTGATGGTATCCATTACCTCCATGCAAATTGGGTGCTTCACAG
AGACTTGGGATGTGTTTGGCCAAATGGGAGAGTGGTTACAACACACGAGCTACAAACTACAATGCTGGAGACAGAAGCACTGATTATGGG
ATATTTCAGATCAATAGCCGCTACTGGTGTAATGATGGCAAAACCCCAGGAGCAGTTAATGCCTGTCATTTATCCTGCAGTGGTAAGACA
AGCTAATATTTGACCAATCTGGTTATACTTACAAGAATTGAGACTCAATACAAATGAAAAAGCCTTGAAAGGTTCATGAGGGACCTAGAA
AAACTACATCTCAACTTCCAGAAAGTCATTATTATTTTCCTCATAATTCCCTGAGTAAGAAATTAAAGAAGTGGTATCATAAAAGGTTGA

>15219_15219_2_CDK19-LYZ_CDK19_chr6_110988637_ENST00000323817_LYZ_chr12_69743888_ENST00000548839_length(amino acids)=208AA_BP=147
MVRRRACFVGARLWWPEIPGGLRVWTSSVGGSRLFSRRKDEKEYALKQIEGTGISMSACREIALLRELKHPNVIALQKVFLSHSDRKVWL
LFDYAEHDLWHIIKFHRASKANKKPMQLPRSMVKSLLYQILDGIHYLHANWVLHRDLGCVWPNGRVVTTHELQTTMLETEALIMGYFRSI

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

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Fusion Gene PPI Analysis for CDK19-LYZ


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 CDK19-LYZ


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 CDK19-LYZ


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