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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:GRN-GRN (FusionGDB2 ID:34813)

Fusion Gene Summary for GRN-GRN

check button Fusion gene summary
Fusion gene informationFusion gene name: GRN-GRN
Fusion gene ID: 34813
HgeneTgene
Gene symbol

GRN

GRN

Gene ID

2896

2896

Gene namegranulin precursorgranulin precursor
SynonymsCLN11|GEP|GP88|PCDGF|PEPI|PGRNCLN11|GEP|GP88|PCDGF|PEPI|PGRN
Cytomap

17q21.31

17q21.31

Type of geneprotein-codingprotein-coding
DescriptionprogranulinPC cell-derived growth factoracrograninepithelinglycoprotein 88glycoprotein of 88 Kdagranulin-epithelingranulinsproepithelinprogranulinPC cell-derived growth factoracrograninepithelinglycoprotein 88glycoprotein of 88 Kdagranulin-epithelingranulinsproepithelin
Modification date2020032720200327
UniProtAcc.

P28799

Ensembl transtripts involved in fusion geneENST00000053867, ENST00000589265, 
ENST00000589923, 		ENST00000053867, 
ENST00000589265, ENST00000589923, 
Fusion gene scores* DoF score15 X 12 X 6=10807 X 10 X 4=280
# samples 1810
** MAII scorelog2(18/1080*10)=-2.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/280*10)=-1.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GRN [Title/Abstract] AND GRN [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGRN(42422676)-GRN(42428104), # samples:3
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
HgeneGRN

GO:0043524

negative regulation of neuron apoptotic process

18378771

HgeneGRN

GO:0050679

positive regulation of epithelial cell proliferation

12526812

HgeneGRN

GO:0060266

negative regulation of respiratory burst involved in inflammatory response

12526812

HgeneGRN

GO:1902564

negative regulation of neutrophil activation

12526812

HgeneGRN

GO:1905673

positive regulation of lysosome organization

28073925

TgeneGRN

GO:0043524

negative regulation of neuron apoptotic process

18378771

TgeneGRN

GO:0050679

positive regulation of epithelial cell proliferation

12526812

TgeneGRN

GO:0060266

negative regulation of respiratory burst involved in inflammatory response

12526812

TgeneGRN

GO:1902564

negative regulation of neutrophil activation

12526812

TgeneGRN

GO:1905673

positive regulation of lysosome organization

28073925


check buttonFusion gene breakpoints across GRN (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 GRN (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/AAU100550GRNchr17

42429016

+GRNchr17

42426550

+
ChiTaRS5.0N/AAU252601GRNchr17

42429016

+GRNchr17

42426550

+
ChiTaRS5.0N/AAW848872GRNchr17

42427084

-GRNchr17

42427832

+
ChiTaRS5.0N/ABD264705GRNchr17

42422676

-GRNchr17

42428104

+
ChiTaRS5.0N/ABF869014GRNchr17

42429037

-GRNchr17

42428929

+
ChiTaRS5.0N/ADI075169GRNchr17

42422676

-GRNchr17

42428104

+
ChiTaRS5.0N/ADL069907GRNchr17

42422676

-GRNchr17

42428104

+


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Fusion Gene ORF analysis for GRN-GRN

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-shiftENST00000053867ENST00000053867GRNchr17

42429016

+GRNchr17

42426550

+
Frame-shiftENST00000053867ENST00000589265GRNchr17

42429016

+GRNchr17

42426550

+
5CDS-intronENST00000053867ENST00000589923GRNchr17

42429016

+GRNchr17

42426550

+
Frame-shiftENST00000589265ENST00000053867GRNchr17

42429016

+GRNchr17

42426550

+
Frame-shiftENST00000589265ENST00000589265GRNchr17

42429016

+GRNchr17

42426550

+
5CDS-intronENST00000589265ENST00000589923GRNchr17

42429016

+GRNchr17

42426550

+
3UTR-3CDSENST00000589923ENST00000053867GRNchr17

42429016

+GRNchr17

42426550

+
3UTR-3CDSENST00000589923ENST00000589265GRNchr17

42429016

+GRNchr17

42426550

+
3UTR-intronENST00000589923ENST00000589923GRNchr17

42429016

+GRNchr17

42426550

+
Frame-shiftENST00000053867ENST00000053867GRNchr17

42427084

-GRNchr17

42427832

+
5CDS-intronENST00000053867ENST00000589265GRNchr17

42427084

-GRNchr17

42427832

+
5CDS-intronENST00000053867ENST00000589923GRNchr17

42427084

-GRNchr17

42427832

+
Frame-shiftENST00000589265ENST00000053867GRNchr17

42427084

-GRNchr17

42427832

+
5CDS-intronENST00000589265ENST00000589265GRNchr17

42427084

-GRNchr17

42427832

+
5CDS-intronENST00000589265ENST00000589923GRNchr17

42427084

-GRNchr17

42427832

+
intron-3CDSENST00000589923ENST00000053867GRNchr17

42427084

-GRNchr17

42427832

+
intron-intronENST00000589923ENST00000589265GRNchr17

42427084

-GRNchr17

42427832

+
intron-intronENST00000589923ENST00000589923GRNchr17

42427084

-GRNchr17

42427832

+
5UTR-3CDSENST00000053867ENST00000053867GRNchr17

42422676

-GRNchr17

42428104

+
5UTR-intronENST00000053867ENST00000589265GRNchr17

42422676

-GRNchr17

42428104

+
5UTR-intronENST00000053867ENST00000589923GRNchr17

42422676

-GRNchr17

42428104

+
intron-3CDSENST00000589265ENST00000053867GRNchr17

42422676

-GRNchr17

42428104

+
intron-intronENST00000589265ENST00000589265GRNchr17

42422676

-GRNchr17

42428104

+
intron-intronENST00000589265ENST00000589923GRNchr17

42422676

-GRNchr17

42428104

+
intron-3CDSENST00000589923ENST00000053867GRNchr17

42422676

-GRNchr17

42428104

+
intron-intronENST00000589923ENST00000589265GRNchr17

42422676

-GRNchr17

42428104

+
intron-intronENST00000589923ENST00000589923GRNchr17

42422676

-GRNchr17

42428104

+
In-frameENST00000053867ENST00000053867GRNchr17

42429037

-GRNchr17

42428929

+
In-frameENST00000053867ENST00000589265GRNchr17

42429037

-GRNchr17

42428929

+
5CDS-3UTRENST00000053867ENST00000589923GRNchr17

42429037

-GRNchr17

42428929

+
In-frameENST00000589265ENST00000053867GRNchr17

42429037

-GRNchr17

42428929

+
In-frameENST00000589265ENST00000589265GRNchr17

42429037

-GRNchr17

42428929

+
5CDS-3UTRENST00000589265ENST00000589923GRNchr17

42429037

-GRNchr17

42428929

+
3UTR-3CDSENST00000589923ENST00000053867GRNchr17

42429037

-GRNchr17

42428929

+
3UTR-3CDSENST00000589923ENST00000589265GRNchr17

42429037

-GRNchr17

42428929

+
3UTR-3UTRENST00000589923ENST00000589923GRNchr17

42429037

-GRNchr17

42428929

+

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 GRN-GRN


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 GRN-GRN


check button Go to

FGviewer for the breakpoints of chr17:42429037-chr17:42428929

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.GRN

P28799

FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Secreted protein that acts as a key regulator of lysosomal function and as a growth factor involved in inflammation, wound healing and cell proliferation (PubMed:28541286, PubMed:28073925, PubMed:18378771, PubMed:28453791, PubMed:12526812). Regulates protein trafficking to lysosomes and, also the activity of lysosomal enzymes (PubMed:28453791, PubMed:28541286). Facilitates also the acidification of lysosomes, causing degradation of mature CTSD by CTSB (PubMed:28073925). In addition, functions as wound-related growth factor that acts directly on dermal fibroblasts and endothelial cells to promote division, migration and the formation of capillary-like tubule structures (By similarity). Also promotes epithelial cell proliferation by blocking TNF-mediated neutrophil activation preventing release of oxidants and proteases (PubMed:12526812). Moreover, modulates inflammation in neurons by preserving neurons survival, axonal outgrowth and neuronal integrity (PubMed:18378771). {ECO:0000250|UniProtKB:P28798, ECO:0000269|PubMed:12526812, ECO:0000269|PubMed:18378771, ECO:0000269|PubMed:28073925, ECO:0000269|PubMed:28453791, ECO:0000269|PubMed:28541286}.; FUNCTION: [Granulin-4]: Promotes proliferation of the epithelial cell line A431 in culture.; FUNCTION: [Granulin-3]: Inhibits epithelial cell proliferation and induces epithelial cells to secrete IL-8. {ECO:0000269|PubMed:12526812}.; FUNCTION: [Granulin-7]: Stabilizes CTSD through interaction with CTSD leading to maintain its aspartic-type peptidase activity. {ECO:0000269|PubMed:28453791}.

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 GRN-GRN


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 GRN-GRN


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 GRN-GRN


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 GRN-GRN


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneGRNC0011570Mental Depression3PSYGENET
HgeneGRNC0011581Depressive disorder3PSYGENET
HgeneGRNC0338451Frontotemporal dementia3CTD_human;GENOMICS_ENGLAND
HgeneGRNC0338462Semantic Dementia3CTD_human;ORPHANET
HgeneGRNC1843792FRONTOTEMPORAL LOBAR DEGENERATION WITH TDP43 INCLUSIONS, GRN-RELATED3CTD_human;GENOMICS_ENGLAND;UNIPROT
HgeneGRNC0005586Bipolar Disorder2PSYGENET
HgeneGRNC0036341Schizophrenia2PSYGENET
HgeneGRNC0338630Senile Paranoid Dementia2CTD_human
HgeneGRNC0497327Dementia2CTD_human
HgeneGRNC0751071Familial Dementia2CTD_human
HgeneGRNC4011788Behavioral variant of frontotemporal dementia2ORPHANET
HgeneGRNC0023893Liver Cirrhosis, Experimental1CTD_human
HgeneGRNC0027746Nerve Degeneration1CTD_human
HgeneGRNC0751072Frontotemporal Lobar Degeneration1CTD_human
HgeneGRNC0751706Primary Progressive Nonfluent Aphasia1ORPHANET
HgeneGRNC3539123CEROID LIPOFUSCINOSIS, NEURONAL, 111CTD_human;GENOMICS_ENGLAND;ORPHANET
TgeneGRNC0011570Mental Depression3PSYGENET
TgeneGRNC0011581Depressive disorder3PSYGENET
TgeneGRNC0338451Frontotemporal dementia3CTD_human;GENOMICS_ENGLAND
TgeneGRNC0338462Semantic Dementia3CTD_human;ORPHANET
TgeneGRNC1843792FRONTOTEMPORAL LOBAR DEGENERATION WITH TDP43 INCLUSIONS, GRN-RELATED3CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneGRNC0005586Bipolar Disorder2PSYGENET
TgeneGRNC0036341Schizophrenia2PSYGENET
TgeneGRNC0338630Senile Paranoid Dementia2CTD_human
TgeneGRNC0497327Dementia2CTD_human
TgeneGRNC0751071Familial Dementia2CTD_human
TgeneGRNC4011788Behavioral variant of frontotemporal dementia2ORPHANET
TgeneGRNC0023893Liver Cirrhosis, Experimental1CTD_human
TgeneGRNC0027746Nerve Degeneration1CTD_human
TgeneGRNC0751072Frontotemporal Lobar Degeneration1CTD_human
TgeneGRNC0751706Primary Progressive Nonfluent Aphasia1ORPHANET
TgeneGRNC3539123CEROID LIPOFUSCINOSIS, NEURONAL, 111CTD_human;GENOMICS_ENGLAND;ORPHANET