Fusion Gene Studies
in Kim Lab

FusionBase FusionGDB FusionGDB2 FusionPDB FusionNeoAntigen FusionAI FusionNW FGviewer Publication Contact
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:SNORD55-CCL2 (FusionGDB2 ID:HG26811TG6347)

Fusion Gene Summary for SNORD55-CCL2

check button Fusion gene summary
Fusion gene informationFusion gene name: SNORD55-CCL2
Fusion gene ID: hg26811tg6347
HgeneTgene
Gene symbol

SNORD55

CCL2

Gene ID

26811

6347

Gene namesmall nucleolar RNA, C/D box 55C-C motif chemokine ligand 2
SynonymsRNU39|RNU55|SNORD39|U39|U55GDCF-2|HC11|HSMCR30|MCAF|MCP-1|MCP1|SCYA2|SMC-CF
Cytomap('SNORD55')('CCL2')

1p34.1

17q12

Type of genesnoRNAprotein-coding
DescriptionRNA, U39 small nucleolarRNA, U55 small nuclearU39 small nucleolar RNAU39 snoRNAsmall nucleolar RNA, C/D box 39C-C motif chemokine 2chemokine (C-C motif) ligand 2monocyte chemoattractant protein-1monocyte chemotactic and activating factormonocyte chemotactic protein 1monocyte secretory protein JEsmall inducible cytokine A2 (monocyte chemotactic protein 1, ho
Modification date2020031320200329
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000581525, 
Fusion gene scores* DoF score1 X 1 X 1=13 X 2 X 2=12
# samples 12
** MAII scorelog2(1/1*10)=3.32192809488736log2(2/12*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: SNORD55 [Title/Abstract] AND CCL2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSNORD55(45241604)-CCL2(32582309), # 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
TgeneCCL2

GO:0002548

monocyte chemotaxis

12207323

TgeneCCL2

GO:0006954

inflammatory response

21147091

TgeneCCL2

GO:0007010

cytoskeleton organization

10072545

TgeneCCL2

GO:0008360

regulation of cell shape

10072545

TgeneCCL2

GO:0019221

cytokine-mediated signaling pathway

12207323

TgeneCCL2

GO:0031663

lipopolysaccharide-mediated signaling pathway

21147091

TgeneCCL2

GO:0034351

negative regulation of glial cell apoptotic process

12753088

TgeneCCL2

GO:0043524

negative regulation of neuron apoptotic process

12753088

TgeneCCL2

GO:0043615

astrocyte cell migration

12271471

TgeneCCL2

GO:0048246

macrophage chemotaxis

12207323

TgeneCCL2

GO:0071407

cellular response to organic cyclic compound

21147091

TgeneCCL2

GO:0090280

positive regulation of calcium ion import

10925302

TgeneCCL2

GO:2000502

negative regulation of natural killer cell chemotaxis

7545673



check button Fusion gene information
* 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
ChimerDB4STADTCGA-IN-7808-01ASNORD55chr1

45241604

+CCL2chr17

32582309

+


Top

Fusion Gene ORF analysis for SNORD55-CCL2

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
3UTR-3CDSENST00000581525ENST00000225831SNORD55chr1

45241604

+CCL2chr17

32582309

+
3UTR-3CDSENST00000581525ENST00000580907SNORD55chr1

45241604

+CCL2chr17

32582309

+

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 SNORD55-CCL2


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)


Top

Fusion Protein Features for SNORD55-CCL2


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/:45241604/:32582309)
- 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
..
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}.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


Top

Fusion Gene Sequence for SNORD55-CCL2


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 SNORD55-CCL2


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 SNORD55-CCL2


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 SNORD55-CCL2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC0004153Atherosclerosis3CTD_human
TgeneC0021368Inflammation3CTD_human
TgeneC0034069Pulmonary Fibrosis3CTD_human
TgeneC0238281Middle Cerebral Artery Syndrome3CTD_human
TgeneC0740376Middle Cerebral Artery Thrombosis3CTD_human
TgeneC0740391Middle Cerebral Artery Occlusion3CTD_human
TgeneC0740392Infarction, Middle Cerebral Artery3CTD_human
TgeneC0751845Middle Cerebral Artery Embolus3CTD_human
TgeneC0751846Left Middle Cerebral Artery Infarction3CTD_human
TgeneC0751847Embolic Infarction, Middle Cerebral Artery3CTD_human
TgeneC0751848Thrombotic Infarction, Middle Cerebral Artery3CTD_human
TgeneC0751849Right Middle Cerebral Artery Infarction3CTD_human
TgeneC1563937Atherogenesis3CTD_human
TgeneC4721507Alveolitis, Fibrosing3CTD_human
TgeneC0006663Calcinosis2CTD_human
TgeneC0007786Brain Ischemia2CTD_human
TgeneC0010054Coronary Arteriosclerosis2CTD_human
TgeneC0020517Hypersensitivity2CTD_human
TgeneC0020538Hypertensive disease2CTD_human
TgeneC0020542Pulmonary Hypertension2CTD_human
TgeneC0022661Kidney Failure, Chronic2CTD_human
TgeneC0035126Reperfusion Injury2CTD_human
TgeneC0038220Status Epilepticus2CTD_human
TgeneC0041327Tuberculosis, Pulmonary2CTD_human
TgeneC0263628Tumoral calcinosis2CTD_human
TgeneC0270823Petit mal status2CTD_human
TgeneC0311335Grand Mal Status Epilepticus2CTD_human
TgeneC0393734Complex Partial Status Epilepticus2CTD_human
TgeneC0521174Microcalcification2CTD_human
TgeneC0524620Metabolic Syndrome X2CTD_human
TgeneC0751522Status Epilepticus, Subclinical2CTD_human
TgeneC0751523Non-Convulsive Status Epilepticus2CTD_human
TgeneC0751524Simple Partial Status Epilepticus2CTD_human
TgeneC0917798Cerebral Ischemia2CTD_human
TgeneC1527304Allergic Reaction2CTD_human
TgeneC1956346Coronary Artery Disease2CTD_human
TgeneC0004096Asthma1CTD_human
TgeneC0007137Squamous cell carcinoma1CTD_human
TgeneC0007222Cardiovascular Diseases1CTD_human
TgeneC0007273Carotid Artery Diseases1CTD_human
TgeneC0010346Crohn Disease1CTD_human
TgeneC0011881Diabetic Nephropathy1CTD_human
TgeneC0013264Muscular Dystrophy, Duchenne1CTD_human
TgeneC0014170Endometrial Neoplasms1CTD_human
TgeneC0015695Fatty Liver1CTD_human
TgeneC0017658Glomerulonephritis1CTD_human
TgeneC0017667Nodular glomerulosclerosis1CTD_human
TgeneC0018801Heart failure1CTD_human
TgeneC0018802Congestive heart failure1CTD_human
TgeneC0018824Heart valve disease1CTD_human
TgeneC0019193Hepatitis, Toxic1CTD_human
TgeneC0020429Hyperalgesia1CTD_human
TgeneC0020456Hyperglycemia1CTD_human
TgeneC0020459Hyperinsulinism1CTD_human
TgeneC0020500Hyperoxaluria1CTD_human
TgeneC0021400Influenza1CTD_human
TgeneC0021655Insulin Resistance1CTD_human
TgeneC0022876Premature Obstetric Labor1CTD_human
TgeneC0023212Left-Sided Heart Failure1CTD_human
TgeneC0023283Leishmaniasis, Cutaneous1CTD_human
TgeneC0023890Liver Cirrhosis1CTD_human
TgeneC0023893Liver Cirrhosis, Experimental1CTD_human
TgeneC0023895Liver diseases1CTD_human
TgeneC0026640Mouth Neoplasms1CTD_human
TgeneC0026764Multiple Myeloma1CTD_human
TgeneC0027055Myocardial Reperfusion Injury1CTD_human
TgeneC0027626Neoplasm Invasiveness1CTD_human
TgeneC0027707Nephritis, Interstitial1CTD_human
TgeneC0028754Obesity1CTD_human
TgeneC0032226Pleural Diseases1CTD_human
TgeneC0032285Pneumonia1CTD_human
TgeneC0032300Lobar Pneumonia1CTD_human
TgeneC0035222Respiratory Distress Syndrome, Adult1CTD_human
TgeneC0035304Retinal Degeneration1CTD_human
TgeneC0036341Schizophrenia1CTD_human
TgeneC0037116Silicosis1CTD_human
TgeneC0037926Compression of spinal cord1CTD_human
TgeneC0038219Status Dysraphicus1CTD_human
TgeneC0040128Thyroid Diseases1CTD_human
TgeneC0040136Thyroid Neoplasm1CTD_human
TgeneC0041349Nephritis, Tubulointerstitial1CTD_human
TgeneC0041696Unipolar Depression1PSYGENET
TgeneC0041956Ureteral obstruction1CTD_human
TgeneC0080178Spina Bifida1CTD_human
TgeneC0085129Bronchial Hyperreactivity1CTD_human
TgeneC0086540Leishmaniasis, New World1CTD_human
TgeneC0086541Urban cutaneous leishmaniasis1CTD_human
TgeneC0086565Liver Dysfunction1CTD_human
TgeneC0151468Thyroid Gland Follicular Adenoma1CTD_human
TgeneC0151744Myocardial Ischemia1CTD_human
TgeneC0153381Malignant neoplasm of mouth1CTD_human
TgeneC0156147Crohn's disease of large bowel1CTD_human
TgeneC0235527Heart Failure, Right-Sided1CTD_human
TgeneC0235833Congenital diaphragmatic hernia1CTD_human
TgeneC0239946Fibrosis, Liver1CTD_human
TgeneC0241910Autoimmune Chronic Hepatitis1CTD_human
TgeneC0265699Congenital hernia of foramen of Morgagni1CTD_human
TgeneC0265700Congenital hernia of foramen of Bochdalek1CTD_human
TgeneC0266508Rachischisis1CTD_human
TgeneC0267380Crohn's disease of the ileum1CTD_human
TgeneC0273115Lung Injury1CTD_human
TgeneC0338831Manic1PSYGENET
TgeneC0458247Allodynia1CTD_human
TgeneC0476089Endometrial Carcinoma1CTD_human
TgeneC0549473Thyroid carcinoma1CTD_human
TgeneC0577631Carotid Atherosclerosis1CTD_human
TgeneC0600178External Carotid Artery Diseases1CTD_human
TgeneC0678202Regional enteritis1CTD_human
TgeneC0742803Conus Medullaris Syndrome1CTD_human
TgeneC0750986Internal Carotid Artery Diseases1CTD_human
TgeneC0750987Arterial Diseases, Common Carotid1CTD_human
TgeneC0751211Hyperalgesia, Primary1CTD_human
TgeneC0751212Hyperalgesia, Secondary1CTD_human
TgeneC0751213Tactile Allodynia1CTD_human
TgeneC0751214Hyperalgesia, Thermal1CTD_human
TgeneC0860207Drug-Induced Liver Disease1CTD_human
TgeneC0876994Cardiotoxicity1CTD_human
TgeneC0887898Experimental Lung Inflammation1CTD_human
TgeneC0917713Becker Muscular Dystrophy1CTD_human
TgeneC0920563Insulin Sensitivity1CTD_human
TgeneC0949272IIeocolitis1CTD_human
TgeneC1257963Endogenous Hyperinsulinism1CTD_human
TgeneC1257964Exogenous Hyperinsulinism1CTD_human
TgeneC1257965Compensatory Hyperinsulinemia1CTD_human
TgeneC1262760Hepatitis, Drug-Induced1CTD_human
TgeneC1269683Major Depressive Disorder1PSYGENET
TgeneC1298681Oxalosis1CTD_human
TgeneC1704377Bright Disease1CTD_human
TgeneC1855520Hyperglycemia, Postprandial1CTD_human
TgeneC1959583Myocardial Failure1CTD_human
TgeneC1961112Heart Decompensation1CTD_human
TgeneC2350344Chronic Lung Injury1CTD_human
TgeneC2711227Steatohepatitis1CTD_human
TgeneC2936719Mechanical Allodynia1CTD_human
TgeneC3542021Duchenne and Becker Muscular Dystrophy1CTD_human
TgeneC3658290Drug-Induced Acute Liver Injury1CTD_human
TgeneC3714636Pneumonitis1CTD_human
TgeneC4277682Chemical and Drug Induced Liver Injury1CTD_human
TgeneC4279912Chemically-Induced Liver Toxicity1CTD_human