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:JMJD1C-TMOD3 (FusionGDB2 ID:40799)

Fusion Gene Summary for JMJD1C-TMOD3

check button Fusion gene summary
Fusion gene informationFusion gene name: JMJD1C-TMOD3
Fusion gene ID: 40799
HgeneTgene
Gene symbol

JMJD1C

TMOD3

Gene ID

221037

29766

Gene namejumonji domain containing 1Ctropomodulin 3
SynonymsKDM3C|TRIP-8|TRIP8UTMOD
Cytomap

10q21.3

15q21.2

Type of geneprotein-codingprotein-coding
Descriptionprobable JmjC domain-containing histone demethylation protein 2CTR-interacting protein 8thyroid hormone receptor interactor 8thyroid receptor-interacting protein 8tropomodulin-3tropomodulin 3 (ubiquitous)ubiquitous tropomodulin
Modification date2020031320200313
UniProtAcc

Q15652

.
Ensembl transtripts involved in fusion geneENST00000399262, ENST00000402544, 
ENST00000399251, ENST00000542921, 
ENST00000489372, 		ENST00000308580, 
ENST00000544199, ENST00000561136, 
Fusion gene scores* DoF score29 X 18 X 10=52208 X 12 X 7=672
# samples 3110
** MAII scorelog2(31/5220*10)=-4.07370968618301
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/672*10)=-2.74846123300404
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: JMJD1C [Title/Abstract] AND TMOD3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointJMJD1C(65024410)-TMOD3(52186011), # samples:1
Anticipated loss of major functional domain due to fusion event.JMJD1C-TMOD3 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
JMJD1C-TMOD3 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
JMJD1C-TMOD3 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor 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

check buttonFusion gene breakpoints across JMJD1C (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 TMOD3 (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
ChimerDB4ESCATCGA-VR-A8EWJMJD1Cchr10

65024410

-TMOD3chr15

52186011

+


Top

Fusion Gene ORF analysis for JMJD1C-TMOD3

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-shiftENST00000399262ENST00000308580JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
Frame-shiftENST00000399262ENST00000544199JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5CDS-intronENST00000399262ENST00000561136JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
intron-3CDSENST00000402544ENST00000308580JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
intron-3CDSENST00000402544ENST00000544199JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
intron-intronENST00000402544ENST00000561136JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-3CDSENST00000399251ENST00000308580JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-3CDSENST00000399251ENST00000544199JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-intronENST00000399251ENST00000561136JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-3CDSENST00000542921ENST00000308580JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-3CDSENST00000542921ENST00000544199JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-intronENST00000542921ENST00000561136JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-3CDSENST00000489372ENST00000308580JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-3CDSENST00000489372ENST00000544199JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+
5UTR-intronENST00000489372ENST00000561136JMJD1Cchr10

65024410

-TMOD3chr15

52186011

+

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 JMJD1C-TMOD3


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)
JMJD1Cchr1065024410-TMOD3chr1552186011+7.63E-091
JMJD1Cchr1065024410-TMOD3chr1552186011+7.63E-091

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 JMJD1C-TMOD3


check button Go to

FGviewer for the breakpoints of :-:

.
- 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
JMJD1C

Q15652

.
FUNCTION: Probable histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a central role in histone code. Demethylation of Lys residue generates formaldehyde and succinate. May be involved in hormone-dependent transcriptional activation, by participating in recruitment to androgen-receptor target genes (By similarity). {ECO:0000250}.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.

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 JMJD1C-TMOD3


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 JMJD1C-TMOD3


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 JMJD1C-TMOD3


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 JMJD1C-TMOD3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneJMJD1CC0004352Autistic Disorder1CTD_human
HgeneJMJD1CC0010606Adenoid Cystic Carcinoma1CTD_human
HgeneJMJD1CC0012236DiGeorge Syndrome1ORPHANET
HgeneJMJD1CC0087031Juvenile-Onset Still Disease1CTD_human
HgeneJMJD1CC0220704Shprintzen syndrome1ORPHANET
HgeneJMJD1CC0431406Asymmetric crying face association1ORPHANET
HgeneJMJD1CC0795907CONOTRUNCAL ANOMALY FACE SYNDROME1ORPHANET
HgeneJMJD1CC1333813Central Nervous System Germinoma1ORPHANET
HgeneJMJD1CC293634622q11 Deletion Syndrome1ORPHANET
HgeneJMJD1CC326610122q11 partial monosomy syndrome1ORPHANET
HgeneJMJD1CC3495559Juvenile arthritis1CTD_human
HgeneJMJD1CC3714758Juvenile psoriatic arthritis1CTD_human
HgeneJMJD1CC4552091Polyarthritis, Juvenile, Rheumatoid Factor Negative1CTD_human
HgeneJMJD1CC4704862Polyarthritis, Juvenile, Rheumatoid Factor Positive1CTD_human