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:DCLK1-LDHA (FusionGDB2 ID:21617)

Fusion Gene Summary for DCLK1-LDHA

check button Fusion gene summary
Fusion gene informationFusion gene name: DCLK1-LDHA
Fusion gene ID: 21617
HgeneTgene
Gene symbol

DCLK1

LDHA

Gene ID

9201

3939

Gene namedoublecortin like kinase 1lactate dehydrogenase A
SynonymsCL1|CLICK1|DCAMKL1|DCDC3A|DCLKGSD11|HEL-S-133P|LDHM|PIG19
Cytomap

13q13.3

11p15.1

Type of geneprotein-codingprotein-coding
Descriptionserine/threonine-protein kinase DCLK1doublecortin domain-containing protein 3Adoublecortin-like and CAM kinase-like 1L-lactate dehydrogenase A chainLDH muscle subunitLDH-ALDH-Mcell proliferation-inducing gene 19 proteinepididymis secretory sperm binding protein Li 133Plactate dehydrogenase Mproliferation-inducing gene 19renal carcinoma antigen NY-REN-59
Modification date2020032020200313
UniProtAcc

O15075

Q6ZMR3

Ensembl transtripts involved in fusion geneENST00000255448, ENST00000360631, 
ENST00000379892, ENST00000379893, 
ENST00000460982, 		ENST00000227157, 
ENST00000379412, ENST00000396222, 
ENST00000422447, ENST00000430553, 
ENST00000540430, ENST00000542179, 
Fusion gene scores* DoF score12 X 11 X 3=3967 X 7 X 1=49
# samples 127
** MAII scorelog2(12/396*10)=-1.72246602447109
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(7/49*10)=0.514573172829758
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: DCLK1 [Title/Abstract] AND LDHA [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointDCLK1(36701521)-LDHA(18429153), # 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 DCLK1 (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 LDHA (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
ChiTaRS5.0N/AEC584258DCLK1chr13

36701521

+LDHAchr11

18429153

+


Top

Fusion Gene ORF analysis for DCLK1-LDHA

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
intron-3UTRENST00000255448ENST00000227157DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000255448ENST00000379412DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000255448ENST00000396222DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000255448ENST00000422447DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000255448ENST00000430553DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000255448ENST00000540430DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000360631ENST00000227157DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000360631ENST00000379412DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000360631ENST00000396222DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000360631ENST00000422447DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000360631ENST00000430553DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000360631ENST00000540430DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379892ENST00000227157DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379892ENST00000379412DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379892ENST00000396222DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379892ENST00000422447DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379892ENST00000430553DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379892ENST00000540430DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379893ENST00000227157DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379893ENST00000379412DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379893ENST00000396222DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379893ENST00000422447DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379893ENST00000430553DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000379893ENST00000540430DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000460982ENST00000227157DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000460982ENST00000379412DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000460982ENST00000396222DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000460982ENST00000422447DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000460982ENST00000430553DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-3UTRENST00000460982ENST00000540430DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-intronENST00000255448ENST00000542179DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-intronENST00000360631ENST00000542179DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-intronENST00000379892ENST00000542179DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-intronENST00000379893ENST00000542179DCLK1chr13

36701521

+LDHAchr11

18429153

+
intron-intronENST00000460982ENST00000542179DCLK1chr13

36701521

+LDHAchr11

18429153

+

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 DCLK1-LDHA


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.

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.

Top

Fusion Protein Features for DCLK1-LDHA


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/:36701521/:18429153)
- 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
DCLK1

O15075

LDHA

Q6ZMR3

FUNCTION: Probable kinase that may be involved in a calcium-signaling pathway controlling neuronal migration in the developing brain. May also participate in functions of the mature nervous system.FUNCTION: Displays an lactate dehydrogenase activity. Significantly increases the transcriptional activity of JUN, when overexpressed. {ECO:0000269|PubMed:18351441}.

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 DCLK1-LDHA


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 DCLK1-LDHA


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 DCLK1-LDHA


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 DCLK1-LDHA


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