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Center for Computational Systems Medicine
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Fusion Gene and Fusion Protein Summary

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Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)

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Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)

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Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)

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Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)

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Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)

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Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

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Potential target of CAR-T therapy development

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Information on the samples that have these potential fusion neoantigens

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Fusion Protein Targeting Drugs - (Manual Curation)

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Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:KDM4C-KIAA1432

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: KDM4C-KIAA1432
FusionPDB ID: 41837
FusionGDB2.0 ID: 41837
HgeneTgene
Gene symbol

KDM4C

KIAA1432

Gene ID

23081

57589

Gene namelysine demethylase 4CRIC1 homolog, RAB6A GEF complex partner 1
SynonymsGASC1|JHDM3C|JMJD2C|TDRD14CCATIFA|CIP150|KIAA1432|bA207C16.1
Cytomap

9p24.1

9p24.1

Type of geneprotein-codingprotein-coding
Descriptionlysine-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 14CRAB6A-GEF complex partner protein 1RAB6A GEF complex partner 1connexin 43-interacting protein 150 kDaconnexin-43-interacting protein of 150 kDaprotein RIC1 homolog
Modification date2020032920200313
UniProtAcc

Q9H3R0

Main function of 5'-partner protein: 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}.		.
Ensembl transtripts involved in fusion geneENST idsENST00000489243, ENST00000381306, 
ENST00000381309, ENST00000442236, 
ENST00000535193, ENST00000536108, 
ENST00000543771, ENST00000401787, 
ENST00000428870, 		ENST00000251879, 
ENST00000381532, ENST00000414202, 
ENST00000418622, ENST00000449720, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score22 X 15 X 12=39603 X 3 X 3=27
# samples 223
** MAII scorelog2(22/3960*10)=-4.16992500144231
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Fusion gene context

PubMed: KDM4C [Title/Abstract] AND KIAA1432 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: KDM4C [Title/Abstract] AND KIAA1432 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)KIAA1432(5656690)-KDM4C(7128066), # samples:2
KDM4C(6888063)-KIAA1432(5689958), # samples:1
Anticipated loss of major functional domain due to fusion event.KDM4C-KIAA1432 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
KDM4C-KIAA1432 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
KDM4C-KIAA1432 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
KDM4C-KIAA1432 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
KIAA1432-KDM4C seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor due to the frame-shifted ORF.
KIAA1432-KDM4C seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
KIAA1432-KDM4C seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target 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
HgeneKDM4C

GO:0006357

regulation of transcription by RNA polymerase II

17277772

HgeneKDM4C

GO:0033169

histone H3-K9 demethylation

18066052|21914792

HgeneKDM4C

GO:0070544

histone H3-K36 demethylation

21914792

TgeneKIAA1432

GO:0043547

positive regulation of GTPase activity

23091056



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/chr9:5656690/chr9:7128066)
- 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 buttonRetention analysis results 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, are available here.

check buttonFusion gene breakpoints across KDM4C (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across KIAA1432 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Amino Acid Sequences


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000535193KDM4Cchr96888063+ENST00000251879KIAA1432chr95689958+45259358341801365
ENST00000535193KDM4Cchr96888063+ENST00000414202KIAA1432chr95689958+72669358349541623
ENST00000535193KDM4Cchr96888063+ENST00000381532KIAA1432chr95689958+43039358341801365
ENST00000535193KDM4Cchr96888063+ENST00000418622KIAA1432chr95689958+72619358349541623
ENST00000535193KDM4Cchr96888063+ENST00000449720KIAA1432chr95689958+48969358348431586
ENST00000543771KDM4Cchr96888063+ENST00000251879KIAA1432chr95689958+4953136344846081386
ENST00000543771KDM4Cchr96888063+ENST00000414202KIAA1432chr95689958+7694136344853821644
ENST00000543771KDM4Cchr96888063+ENST00000381532KIAA1432chr95689958+4731136344846081386
ENST00000543771KDM4Cchr96888063+ENST00000418622KIAA1432chr95689958+7689136344853821644
ENST00000543771KDM4Cchr96888063+ENST00000449720KIAA1432chr95689958+5324136344852711607
ENST00000381306KDM4Cchr96888063+ENST00000251879KIAA1432chr95689958+4938134843345931386
ENST00000381306KDM4Cchr96888063+ENST00000414202KIAA1432chr95689958+7679134843353671644
ENST00000381306KDM4Cchr96888063+ENST00000381532KIAA1432chr95689958+4716134843345931386
ENST00000381306KDM4Cchr96888063+ENST00000418622KIAA1432chr95689958+7674134843353671644
ENST00000381306KDM4Cchr96888063+ENST00000449720KIAA1432chr95689958+5309134843352561607
ENST00000381309KDM4Cchr96888063+ENST00000251879KIAA1432chr95689958+4938134843345931386
ENST00000381309KDM4Cchr96888063+ENST00000414202KIAA1432chr95689958+7679134843353671644
ENST00000381309KDM4Cchr96888063+ENST00000381532KIAA1432chr95689958+4716134843345931386
ENST00000381309KDM4Cchr96888063+ENST00000418622KIAA1432chr95689958+7674134843353671644
ENST00000381309KDM4Cchr96888063+ENST00000449720KIAA1432chr95689958+5309134843352561607
ENST00000442236KDM4Cchr96888063+ENST00000251879KIAA1432chr95689958+435076025040051251
ENST00000442236KDM4Cchr96888063+ENST00000414202KIAA1432chr95689958+709176025047791509
ENST00000442236KDM4Cchr96888063+ENST00000381532KIAA1432chr95689958+412876025040051251
ENST00000442236KDM4Cchr96888063+ENST00000418622KIAA1432chr95689958+708676025047791509
ENST00000442236KDM4Cchr96888063+ENST00000449720KIAA1432chr95689958+472176025046681472
ENST00000536108KDM4Cchr96888063+ENST00000251879KIAA1432chr95689958+436177146240161184
ENST00000536108KDM4Cchr96888063+ENST00000414202KIAA1432chr95689958+710277146247901442
ENST00000536108KDM4Cchr96888063+ENST00000381532KIAA1432chr95689958+413977146240161184
ENST00000536108KDM4Cchr96888063+ENST00000418622KIAA1432chr95689958+709777146247901442
ENST00000536108KDM4Cchr96888063+ENST00000449720KIAA1432chr95689958+473277146246791405

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
ENST00000535193ENST00000251879KDM4Cchr96888063+KIAA1432chr95689958+0.000274580.9997254
ENST00000535193ENST00000414202KDM4Cchr96888063+KIAA1432chr95689958+0.0001562420.9998437
ENST00000535193ENST00000381532KDM4Cchr96888063+KIAA1432chr95689958+0.0002940780.99970585
ENST00000535193ENST00000418622KDM4Cchr96888063+KIAA1432chr95689958+0.0001563820.9998436
ENST00000535193ENST00000449720KDM4Cchr96888063+KIAA1432chr95689958+0.0005023260.99949765
ENST00000543771ENST00000251879KDM4Cchr96888063+KIAA1432chr95689958+0.0003995380.99960047
ENST00000543771ENST00000414202KDM4Cchr96888063+KIAA1432chr95689958+0.000255220.99974483
ENST00000543771ENST00000381532KDM4Cchr96888063+KIAA1432chr95689958+0.000407390.9995926
ENST00000543771ENST00000418622KDM4Cchr96888063+KIAA1432chr95689958+0.0002555560.9997445
ENST00000543771ENST00000449720KDM4Cchr96888063+KIAA1432chr95689958+0.0005805670.99941945
ENST00000381306ENST00000251879KDM4Cchr96888063+KIAA1432chr95689958+0.0003941640.99960583
ENST00000381306ENST00000414202KDM4Cchr96888063+KIAA1432chr95689958+0.0002512470.99974877
ENST00000381306ENST00000381532KDM4Cchr96888063+KIAA1432chr95689958+0.000402140.99959785
ENST00000381306ENST00000418622KDM4Cchr96888063+KIAA1432chr95689958+0.0002512650.99974877
ENST00000381306ENST00000449720KDM4Cchr96888063+KIAA1432chr95689958+0.0005778030.9994222
ENST00000381309ENST00000251879KDM4Cchr96888063+KIAA1432chr95689958+0.0003941640.99960583
ENST00000381309ENST00000414202KDM4Cchr96888063+KIAA1432chr95689958+0.0002512470.99974877
ENST00000381309ENST00000381532KDM4Cchr96888063+KIAA1432chr95689958+0.000402140.99959785
ENST00000381309ENST00000418622KDM4Cchr96888063+KIAA1432chr95689958+0.0002512650.99974877
ENST00000381309ENST00000449720KDM4Cchr96888063+KIAA1432chr95689958+0.0005778030.9994222
ENST00000442236ENST00000251879KDM4Cchr96888063+KIAA1432chr95689958+0.0004199970.99957997
ENST00000442236ENST00000414202KDM4Cchr96888063+KIAA1432chr95689958+0.0002879520.99971205
ENST00000442236ENST00000381532KDM4Cchr96888063+KIAA1432chr95689958+0.0004347260.9995653
ENST00000442236ENST00000418622KDM4Cchr96888063+KIAA1432chr95689958+0.0002883340.9997117
ENST00000442236ENST00000449720KDM4Cchr96888063+KIAA1432chr95689958+0.0006868580.9993131
ENST00000536108ENST00000251879KDM4Cchr96888063+KIAA1432chr95689958+0.0004954220.99950457
ENST00000536108ENST00000414202KDM4Cchr96888063+KIAA1432chr95689958+0.0003007650.99969923
ENST00000536108ENST00000381532KDM4Cchr96888063+KIAA1432chr95689958+0.0005276850.9994723
ENST00000536108ENST00000418622KDM4Cchr96888063+KIAA1432chr95689958+0.0003011720.9996989
ENST00000536108ENST00000449720KDM4Cchr96888063+KIAA1432chr95689958+0.0008569560.999143

check button Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

Get the fusion protein sequences from here.

Fusion protein sequence information is available in the fasta format.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

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Fusion Protein Breakpoint Sequences for KDM4C-KIAA1432

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
KDM4Cchr96888063KIAA1432chr956899581348305PSVLKKYGIPFDKTANGYILFFHITS
KDM4Cchr96888063KIAA1432chr956899581363305PSVLKKYGIPFDKTANGYILFFHITS
KDM4Cchr96888063KIAA1432chr95689958760170PSVLKKYGIPFDKTANGYILFFHITS
KDM4Cchr96888063KIAA1432chr95689958771103PSVLKKYGIPFDKTANGYILFFHITS
KDM4Cchr96888063KIAA1432chr95689958935284PSVLKKYGIPFDKTANGYILFFHITS

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Potential FusionNeoAntigen Information of KDM4C-KIAA1432 in HLA I

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.
KDM4C-KIAA1432_6888063_5689958.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)
Fusion geneHchrHbpTgeneTchrTbpHLA IFusionNeoAntigen peptideBinding scoreImmunogenic scoreNeoantigen start (at BP 13)Neoantigen end (at BP 13)
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:01KTANGYILF0.99860.86671221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B58:02KTANGYILF0.99720.70181221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:03KTANGYILF0.99690.91061221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:17KTANGYILF0.99620.71381221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B58:01KTANGYILF0.9960.66651221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B39:01DKTANGYIL0.98770.61451120
KDM4C-KIAA1432chr96888063chr956899581348HLA-A32:13KTANGYILF0.98590.66251221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:01KTANGYILFF0.99980.84431222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B58:02KTANGYILFF0.99930.68181222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:03KTANGYILFF0.99870.8871222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:17KTANGYILFF0.99780.69451222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:01IPFDKTANGY0.99770.7344818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B58:01KTANGYILFF0.99720.63621222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:08IPFDKTANGY0.99480.6556818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:02IPFDKTANGY0.98760.7313818
KDM4C-KIAA1432chr96888063chr956899581348HLA-A32:13KTANGYILFF0.98640.66881222
KDM4C-KIAA1432chr96888063chr956899581348HLA-C15:04KTANGYILF0.98240.7951221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B39:05DKTANGYIL0.95580.57891120
KDM4C-KIAA1432chr96888063chr956899581348HLA-C15:06KTANGYILF0.93950.71291221
KDM4C-KIAA1432chr96888063chr956899581348HLA-C03:14KTANGYILF0.85130.92541221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:31IPFDKTANGY0.99730.6934818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:21IPFDKTANGY0.98770.7116818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:10KTANGYILF0.99860.86671221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B58:06KTANGYILF0.99720.59291221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:02KTANGYILF0.99670.76161221
KDM4C-KIAA1432chr96888063chr956899581348HLA-A32:01KTANGYILF0.9940.67291221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B39:31DKTANGYIL0.9870.61361120
KDM4C-KIAA1432chr96888063chr956899581348HLA-C15:09KTANGYILF0.98240.7951221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:24KTANGYILF0.98160.7741221
KDM4C-KIAA1432chr96888063chr956899581348HLA-C15:02KTANGYILF0.91330.71471221
KDM4C-KIAA1432chr96888063chr956899581348HLA-C15:05KTANGYILF0.91130.69791221
KDM4C-KIAA1432chr96888063chr956899581348HLA-C16:02KTANGYILF0.84260.96611221
KDM4C-KIAA1432chr96888063chr956899581348HLA-C02:02KTANGYILF0.34040.93711221
KDM4C-KIAA1432chr96888063chr956899581348HLA-C02:10KTANGYILF0.34040.93711221
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:10KTANGYILFF0.99980.84431222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B58:06KTANGYILFF0.99910.55431222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B57:02KTANGYILFF0.9990.75461222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:77IPFDKTANGY0.99770.7344818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:23IPFDKTANGY0.99770.7361818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:20IPFDKTANGY0.99760.7463818
KDM4C-KIAA1432chr96888063chr956899581348HLA-A32:01KTANGYILFF0.99580.70141222
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:24IPFDKTANGY0.99390.8478818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:11IPFDKTANGY0.98690.7154818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:08IPFDKTANGY0.93570.7268818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B15:11IPFDKTANGY0.93230.7311818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B35:43IPFDKTANGY0.92290.7251818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B18:04IPFDKTANGY0.88570.8219818
KDM4C-KIAA1432chr96888063chr956899581348HLA-B18:07IPFDKTANGY0.75640.7508818

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Potential FusionNeoAntigen Information of KDM4C-KIAA1432 in HLA II

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

check button Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).
Fusion geneHchrHbpTgeneTchrTbpHLA IIFusionNeoAntigen peptideNeoantigen start (at BP 13)Neoantigen end (at BP 13)

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Fusion breakpoint peptide structures of KDM4C-KIAA1432

check button3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA.
File nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
10643YGIPFDKTANGYILKDM4CKIAA1432chr96888063chr956899581348

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of KDM4C-KIAA1432

check buttonVirtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.
HLA allelePDB IDFile nameBPseqDocking scoreGlide score
HLA-B14:023BVN10643YGIPFDKTANGYIL-5.34942-6.38472
HLA-B14:023BVN10643YGIPFDKTANGYIL-5.0153-5.1287
HLA-B52:013W3910643YGIPFDKTANGYIL-7.47358-7.58698
HLA-B52:013W3910643YGIPFDKTANGYIL-4.5023-5.5376
HLA-A11:014UQ210643YGIPFDKTANGYIL-7.49832-7.61172
HLA-A24:025HGA10643YGIPFDKTANGYIL-8.30687-8.42027
HLA-A24:025HGA10643YGIPFDKTANGYIL-5.37786-6.41316
HLA-B27:056PYJ10643YGIPFDKTANGYIL-6.81213-7.84743
HLA-B44:053DX810643YGIPFDKTANGYIL-9.00919-9.12259
HLA-B44:053DX810643YGIPFDKTANGYIL-3.81824-4.85354

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Vaccine Design for the FusionNeoAntigens of KDM4C-KIAA1432

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptide sequenceFusionNeoAntigen RNA sequence
KDM4C-KIAA1432chr96888063chr956899581120DKTANGYILGACAAGACGGCAAATGGATACATCTTG
KDM4C-KIAA1432chr96888063chr956899581221KTANGYILFAAGACGGCAAATGGATACATCTTGTTT
KDM4C-KIAA1432chr96888063chr956899581222KTANGYILFFAAGACGGCAAATGGATACATCTTGTTTTTT
KDM4C-KIAA1432chr96888063chr95689958818IPFDKTANGYATTCCCTTTGACAAGACGGCAAATGGATAC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence

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Information of the samples that have these potential fusion neoantigens of KDM4C-KIAA1432

check button These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.
Cancer typeFusion geneHchrHbpHenstTchrTbpTenstSample
STADKDM4C-KIAA1432chr96888063ENST00000381306chr95689958ENST00000251879TCGA-HU-8604

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Potential target of CAR-T therapy development for KDM4C-KIAA1432

check button Predicted 3D structure. We used RoseTTAFold.

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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features


* Minus value of BPloci means that the break point is located before the CDS.
- In-frame and retained 'Transmembrane'.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

check button Subcellular localization prediction of the transmembrane domain retained fusion proteins
* We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image.
HgeneHchrHbpHenstTgeneTchrTbpTenstDeepLoc result

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Related Drugs to KDM4C-KIAA1432

check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to KDM4C-KIAA1432

check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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