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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:SUCO-KDM4C (FusionGDB2 ID:87964)

Fusion Gene Summary for SUCO-KDM4C

check button Fusion gene summary
Fusion gene informationFusion gene name: SUCO-KDM4C
Fusion gene ID: 87964
HgeneTgene
Gene symbol

SUCO

KDM4C

Gene ID

51430

23081

Gene nameSUN domain containing ossification factorlysine demethylase 4C
SynonymsC1orf9|CH1|OPT|SLP1GASC1|JHDM3C|JMJD2C|TDRD14C
Cytomap

1q24.3

9p24.1

Type of geneprotein-codingprotein-coding
DescriptionSUN domain-containing ossification factorSUN-like protein 1membrane protein CH1osteopotentialysine-specific demethylase 4CJmjC domain-containing histone demethylation protein 3Cgene amplified in squamous cell carcinoma 1 proteinjumonji domain-containing protein 2Clysine (K)-specific demethylase 4Ctudor domain containing 14C
Modification date2020031320200329
UniProtAcc

Q9UBS9

Q9H3R0

Ensembl transtripts involved in fusion geneENST00000263688, ENST00000367723, 
ENST00000608151, ENST00000610051, 
ENST00000381306, ENST00000381309, 
ENST00000401787, ENST00000428870, 
ENST00000442236, ENST00000489243, 
ENST00000535193, ENST00000536108, 
ENST00000543771, 
Fusion gene scores* DoF score17 X 10 X 7=119022 X 22 X 7=3388
# samples 1826
** MAII scorelog2(18/1190*10)=-2.72489276186563
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(26/3388*10)=-3.70385034630374
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SUCO [Title/Abstract] AND KDM4C [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointKDM4C(6949795)-SUCO(172540504), # samples:1
SUCO(172540504)-KDM4C(6949795), # 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
TgeneKDM4C

GO:0006357

regulation of transcription by RNA polymerase II

17277772

TgeneKDM4C

GO:0033169

histone H3-K9 demethylation

18066052|21914792

TgeneKDM4C

GO:0070544

histone H3-K36 demethylation

21914792


check buttonFusion gene breakpoints across SUCO (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 KDM4C (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/ACB050106SUCOchr1

172540504

+KDM4Cchr9

6949795

-


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Fusion Gene ORF analysis for SUCO-KDM4C

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-intronENST00000263688ENST00000381306SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000381309SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000401787SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000428870SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000442236SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000489243SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000535193SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000536108SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000263688ENST00000543771SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000381306SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000381309SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000401787SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000428870SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000442236SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000489243SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000535193SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000536108SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000367723ENST00000543771SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000381306SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000381309SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000401787SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000428870SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000442236SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000489243SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000535193SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000536108SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000608151ENST00000543771SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000381306SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000381309SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000401787SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000428870SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000442236SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000489243SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000535193SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000536108SUCOchr1

172540504

+KDM4Cchr9

6949795

-
intron-intronENST00000610051ENST00000543771SUCOchr1

172540504

+KDM4Cchr9

6949795

-

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 SUCO-KDM4C


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 SUCO-KDM4C


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/:6949795/:172540504)
- 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
SUCO

Q9UBS9

KDM4C

Q9H3R0

FUNCTION: Required for bone modeling during late embryogenesis. Regulates type I collagen synthesis in osteoblasts during their postnatal maturation (By similarity). {ECO:0000250}.FUNCTION: Histone demethylase that specifically demethylates 'Lys-9' and 'Lys-36' residues of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27' nor H4 'Lys-20'. Demethylates trimethylated H3 'Lys-9' and H3 'Lys-36' residue, while it has no activity on mono- and dimethylated residues. Demethylation of Lys residue generates formaldehyde and succinate. {ECO:0000269|PubMed:16603238, ECO:0000269|PubMed:28262558}.

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 SUCO-KDM4C


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 SUCO-KDM4C


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 SUCO-KDM4C


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 SUCO-KDM4C


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