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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:GLYR1-PDE4D (FusionGDB2 ID:33431)

Fusion Gene Summary for GLYR1-PDE4D

check button Fusion gene summary
Fusion gene informationFusion gene name: GLYR1-PDE4D
Fusion gene ID: 33431
HgeneTgene
Gene symbol

GLYR1

PDE4D

Gene ID

84656

5144

Gene nameglyoxylate reductase 1 homologphosphodiesterase 4D
SynonymsBM045|HIBDL|N-PAC|NP60|hNDFACRDYS2|DPDE3|HSPDE4D|PDE43|PDE4DN2|STRK1
Cytomap

16p13.3

5q11.2-q12.1

Type of geneprotein-codingprotein-coding
Descriptionputative oxidoreductase GLYR13-hydroxyisobutyrate dehydrogenase-like proteincytokine-like nuclear factor n-pacnuclear protein 60 kDanuclear protein 60kDanuclear protein NP60nuclear protein of 60 kDanucleosome-destabilizing factorcAMP-specific 3',5'-cyclic phosphodiesterase 4DcAMP-specific phosphodiesterase PDE4D6phosphodiesterase 4D, cAMP-specific (phosphodiesterase E3 dunce homolog, Drosophila)testicular tissue protein Li 136
Modification date2020031320200313
UniProtAcc

Q49A26

.
Ensembl transtripts involved in fusion geneENST00000321919, ENST00000381983, 
ENST00000436648, ENST00000586901, 
ENST00000591451, 		ENST00000317118, 
ENST00000340635, ENST00000358923, 
ENST00000360047, ENST00000405755, 
ENST00000502484, ENST00000502575, 
ENST00000503258, ENST00000503947, 
ENST00000507116, ENST00000546160, 
Fusion gene scores* DoF score8 X 10 X 6=48020 X 19 X 7=2660
# samples 1025
** MAII scorelog2(10/480*10)=-2.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(25/2660*10)=-3.41142624572647
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GLYR1 [Title/Abstract] AND PDE4D [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGLYR1(4854938)-PDE4D(58511414), # 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
HgeneGLYR1

GO:0035066

positive regulation of histone acetylation

29759984

HgeneGLYR1

GO:0045944

positive regulation of transcription by RNA polymerase II

29759984


check buttonFusion gene breakpoints across GLYR1 (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 PDE4D (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
ChimerDB4UCECTCGA-B5-A1MV-01AGLYR1chr16

4854938

-PDE4Dchr5

58511414

-


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Fusion Gene ORF analysis for GLYR1-PDE4D

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-intronENST00000321919ENST00000317118GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000340635GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000358923GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000360047GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000405755GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000502484GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000502575GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000503258GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000503947GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000507116GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000321919ENST00000546160GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000317118GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000340635GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000358923GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000360047GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000405755GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000502484GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000502575GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000503258GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000503947GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000507116GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000381983ENST00000546160GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000317118GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000340635GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000358923GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000360047GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000405755GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000502484GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000502575GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000503258GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000503947GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000507116GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000436648ENST00000546160GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000317118GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000340635GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000358923GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000360047GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000405755GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000502484GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000502575GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000503258GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000503947GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000507116GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000586901ENST00000546160GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000317118GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000340635GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000358923GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000360047GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000405755GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000502484GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000502575GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000503258GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000503947GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000507116GLYR1chr16

4854938

-PDE4Dchr5

58511414

-
intron-intronENST00000591451ENST00000546160GLYR1chr16

4854938

-PDE4Dchr5

58511414

-

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 GLYR1-PDE4D


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.

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Fusion Protein Features for GLYR1-PDE4D


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/:4854938/:58511414)
- 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
GLYR1

Q49A26

.
FUNCTION: Nucleosome-destabilizing factor that is recruited to genes during transcriptional activation (PubMed:29759984). Facilitates Pol II transcription through nucleosomes (PubMed:29759984). Binds DNA (in vitro) (PubMed:29759984). Recognizes and binds trimethylated 'Lys-36' of histone H3 (H3K36me3) (PubMed:20850016). Promotes KDM1B demethylase activity (PubMed:23260659). Stimulates the acetylation of 'Lys-56' of nucleosomal histone H3 (H3K56ac) by EP300 (PubMed:29759984). Regulates p38 MAP kinase activity by mediating stress activation of p38alpha/MAPK14 and specifically regulating MAPK14 signaling (PubMed:16352664). Indirectly promotes phosphorylation of MAPK14 and activation of ATF2 (PubMed:16352664). The phosphorylation of MAPK14 requires upstream activity of MAP2K4 and MAP2K6 (PubMed:16352664). Putative oxidoreductase (PubMed:23260659). {ECO:0000269|PubMed:16352664, ECO:0000269|PubMed:20850016, ECO:0000269|PubMed:23260659, ECO:0000269|PubMed:29759984}.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}.

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


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Fusion Gene Sequence for GLYR1-PDE4D


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 GLYR1-PDE4D


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 GLYR1-PDE4D


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 GLYR1-PDE4D


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