FusionNeoAntigen Logo

Home

Download

Statistics

Examples

Help

Contact

Terms of Use
Center for Computational Systems Medicine
leaf

Fusion Gene and Fusion Protein Summary

leaf

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

leaf

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

leaf

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

leaf

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

leaf

Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

leaf

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

leaf

Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

leaf

Potential target of CAR-T therapy development

leaf

Information on the samples that have these potential fusion neoantigens

leaf

Fusion Protein Targeting Drugs - (Manual Curation)

leaf

Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:WHSC1-NMRAL1

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: WHSC1-NMRAL1
FusionPDB ID: 99230
FusionGDB2.0 ID: 99230
HgeneTgene
Gene symbol

WHSC1

NMRAL1

Gene ID

7468

57407

Gene namenuclear receptor binding SET domain protein 2NmrA like redox sensor 1
SynonymsKMT3F|KMT3G|MMSET|REIIBP|TRX5|WHS|WHSC1HSCARG|SDR48A1
Cytomap

4p16.3

16p13.3

Type of geneprotein-codingprotein-coding
Descriptionhistone-lysine N-methyltransferase NSD2IL5 promoter REII region-binding proteinWolf-Hirschhorn syndrome candidate 1multiple myeloma SET domain containing protein type IIInuclear SET domain-containing protein 2probable histone-lysine N-methyltransferanmrA-like family domain-containing protein 1NmrA-like family domain containing 1epididymis secretory sperm binding proteinshort chain dehydrogenase/reductase family 48A, member 1
Modification date2020032920200313
UniProtAcc.

Q9HBL8

Main function of 5'-partner protein: FUNCTION: Redox sensor protein. Undergoes restructuring and subcellular redistribution in response to changes in intracellular NADPH/NADP(+) levels. At low NADPH concentrations the protein is found mainly as a monomer, and binds argininosuccinate synthase (ASS1), the enzyme involved in nitric oxide synthesis. Association with ASS1 impairs its activity and reduces the production of nitric oxide, which subsecuently prevents apoptosis. Under normal NADPH concentrations, the protein is found as a dimer and hides the binding site for ASS1. The homodimer binds one molecule of NADPH. Has higher affinity for NADPH than for NADP(+). Binding to NADPH is necessary to form a stable dimer. {ECO:0000269|PubMed:17496144, ECO:0000269|PubMed:18263583, ECO:0000269|PubMed:19254724}.
Ensembl transtripts involved in fusion geneENST idsENST00000382891, ENST00000382892, 
ENST00000382895, ENST00000398261, 
ENST00000420906, ENST00000503128, 
ENST00000508803, ENST00000514045, 
ENST00000382888, ENST00000436793, 
ENST00000482415, 		ENST00000572391, 
ENST00000574733, ENST00000283429, 
ENST00000404295, ENST00000574425, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score22 X 18 X 13=51484 X 3 X 4=48
# samples 274
** MAII scorelog2(27/5148*10)=-4.25298074116987
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: WHSC1 [Title/Abstract] AND NMRAL1 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: WHSC1 [Title/Abstract] AND NMRAL1 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)WHSC1(1936989)-NMRAL1(4511960), # samples:1
Anticipated loss of major functional domain due to fusion event.WHSC1-NMRAL1 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.
WHSC1-NMRAL1 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.
WHSC1-NMRAL1 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.
WHSC1-NMRAL1 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.
WHSC1-NMRAL1 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF.
WHSC1-NMRAL1 seems lost the major protein functional domain in Hgene partner, which is a essential gene 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 button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr4:1936989/chr16:4511960)
- 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 WHSC1 (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 NMRAL1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


Top

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)
ENST00000508803WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-210218221392001620
ENST00000508803WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-208818221392001620
ENST00000508803WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-208718221392001620
ENST00000382892WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-226819883052167620
ENST00000382892WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-225419883052167620
ENST00000382892WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-225319883052167620
ENST00000382891WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-209318131301992620
ENST00000382891WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-207918131301992620
ENST00000382891WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-207818131301992620
ENST00000382895WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-238521054222284620
ENST00000382895WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-237121054222284620
ENST00000382895WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-237021054222284620
ENST00000514045WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-206517851021964620
ENST00000514045WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-205117851021964620
ENST00000514045WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-205017851021964620
ENST00000420906WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-238521054222284620
ENST00000420906WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-237121054222284620
ENST00000420906WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-237021054222284620
ENST00000503128WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-216118811982060620
ENST00000503128WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-214718811982060620
ENST00000503128WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-214618811982060620
ENST00000398261WHSC1chr41936989+ENST00000283429NMRAL1chr164511960-19831703201882620
ENST00000398261WHSC1chr41936989+ENST00000404295NMRAL1chr164511960-19691703201882620
ENST00000398261WHSC1chr41936989+ENST00000574425NMRAL1chr164511960-19681703201882620

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
ENST00000508803ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0052277010.99477226
ENST00000508803ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.0051404040.9948596
ENST00000508803ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0052421860.99475783
ENST00000382892ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0051642910.99483573
ENST00000382892ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.005057490.9949425
ENST00000382892ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0051409180.9948591
ENST00000382891ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0043271980.9956728
ENST00000382891ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.004218590.9957814
ENST00000382891ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0043025730.9956974
ENST00000382895ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0049925770.9950074
ENST00000382895ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.0048841660.9951159
ENST00000382895ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0049638560.99503607
ENST00000514045ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0049537570.99504626
ENST00000514045ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.0048147520.9951853
ENST00000514045ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0049119690.99508804
ENST00000420906ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0049925770.9950074
ENST00000420906ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.0048841660.9951159
ENST00000420906ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0049638560.99503607
ENST00000503128ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0057345080.9942655
ENST00000503128ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.0056258350.99437416
ENST00000503128ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0057251460.9942748
ENST00000398261ENST00000283429WHSC1chr41936989+NMRAL1chr164511960-0.0049080020.99509203
ENST00000398261ENST00000404295WHSC1chr41936989+NMRAL1chr164511960-0.0047980880.99520195
ENST00000398261ENST00000574425WHSC1chr41936989+NMRAL1chr164511960-0.0048990180.99510103

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

Top

Fusion Protein Breakpoint Sequences for WHSC1-NMRAL1

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
WHSC1chr41936989NMRAL1chr1645119601703561RKRLRTDKHSLRKMTPEDYEKLGFPG
WHSC1chr41936989NMRAL1chr1645119601785561RKRLRTDKHSLRKMTPEDYEKLGFPG
WHSC1chr41936989NMRAL1chr1645119601813561RKRLRTDKHSLRKMTPEDYEKLGFPG
WHSC1chr41936989NMRAL1chr1645119601822561RKRLRTDKHSLRKMTPEDYEKLGFPG
WHSC1chr41936989NMRAL1chr1645119601881561RKRLRTDKHSLRKMTPEDYEKLGFPG
WHSC1chr41936989NMRAL1chr1645119601988561RKRLRTDKHSLRKMTPEDYEKLGFPG
WHSC1chr41936989NMRAL1chr1645119602105561RKRLRTDKHSLRKMTPEDYEKLGFPG

Top

Potential FusionNeoAntigen Information of WHSC1-NMRAL1 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.
WHSC1-NMRAL1_1936989_4511960.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)
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:18LRKMTPEDY0.03550.78391019
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:01SLRKMTPEDY0.99910.8625919
WHSC1-NMRAL1chr41936989chr1645119601813HLA-C07:46LRKMTPEDY0.55460.85711019
WHSC1-NMRAL1chr41936989chr1645119601813HLA-C12:16LRKMTPEDY0.02260.96741019
WHSC1-NMRAL1chr41936989chr1645119601813HLA-C05:09RTDKHSLRKM0.99940.8493414
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:07SLRKMTPEDY0.99770.6981919
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:68LRKMTPEDY0.00340.66951019
WHSC1-NMRAL1chr41936989chr1645119601813HLA-C05:01RTDKHSLRKM0.99940.8493414
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:125SLRKMTPEDY0.99910.8625919
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:33SLRKMTPEDY0.99910.8625919
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:34SLRKMTPEDY0.99910.8625919
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:135SLRKMTPEDY0.9990.8703919
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:50SLRKMTPEDY0.99830.8443919
WHSC1-NMRAL1chr41936989chr1645119601813HLA-B15:35SLRKMTPEDY0.99720.8663919

Top

Potential FusionNeoAntigen Information of WHSC1-NMRAL1 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.
WHSC1-NMRAL1_1936989_4511960.msa

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)
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0301RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0301KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0303RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0303KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0305RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0305KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0307RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0307KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0310RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0313RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0313KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0315RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0315KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0318RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0318KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0320RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0320KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0322RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0322KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0324RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0326RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0326KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0328RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0328KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0330RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0330KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0332RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0332KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0334RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0334KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0336RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0336KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0340RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0340KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0342RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0342KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0344RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0344KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0346RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0346KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0348RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0348KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0350RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0350KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0352RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0352KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0354RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-0354KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1107RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1107KRLRTDKHSLRKMTP116
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1179RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1201DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1201KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1201TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1203DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1203KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1205DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1205KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1205TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1206DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1206KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1206TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1207DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1207KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1207TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1208DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1208KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1210DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1210KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1210TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1211DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1211KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1212DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1212KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1212TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1213DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1213KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1213TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1214DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1214KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1214TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1215DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1215KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1215TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1216DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1217DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1217KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1217TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1218DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1218KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1218TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1219DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1219KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1220DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1220KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1220TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1221DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1221KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1221TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1222DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1223DKHSLRKMTPEDYEK621
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1223KHSLRKMTPEDYEKL722
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1223TDKHSLRKMTPEDYE520
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1419RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1421RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1476RKRLRTDKHSLRKMT015
WHSC1-NMRAL1chr41936989chr1645119601813DRB1-1479RKRLRTDKHSLRKMT015

Top

Fusion breakpoint peptide structures of WHSC1-NMRAL1

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
1180DKHSLRKMTPEDYEWHSC1NMRAL1chr41936989chr1645119601813

Top

Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of WHSC1-NMRAL1

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-B14:023BVN1180DKHSLRKMTPEDYE-9.22478-9.22478
HLA-A11:014UQ21180DKHSLRKMTPEDYE-8.75908-8.75908
HLA-A24:025HGA1180DKHSLRKMTPEDYE-7.17231-7.17231
HLA-B27:056PYJ1180DKHSLRKMTPEDYE-6.85282-6.85282
HLA-B27:036PZ51180DKHSLRKMTPEDYE-3.57798-3.57798

Top

Vaccine Design for the FusionNeoAntigens of WHSC1-NMRAL1

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
WHSC1-NMRAL1chr41936989chr1645119601019LRKMTPEDYCTTCGGAAGATGACTCCTGAGGACTAC
WHSC1-NMRAL1chr41936989chr164511960414RTDKHSLRKMAGGACGGACAAGCACAGTCTTCGGAAGATG
WHSC1-NMRAL1chr41936989chr164511960919SLRKMTPEDYAGTCTTCGGAAGATGACTCCTGAGGACTAC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
WHSC1-NMRAL1chr41936989chr164511960015RKRLRTDKHSLRKMTAGGAAAAGACTCAGGACGGACAAGCACAGTCTTCGGAAGATGACT
WHSC1-NMRAL1chr41936989chr164511960116KRLRTDKHSLRKMTPAAAAGACTCAGGACGGACAAGCACAGTCTTCGGAAGATGACTCCT
WHSC1-NMRAL1chr41936989chr164511960520TDKHSLRKMTPEDYEACGGACAAGCACAGTCTTCGGAAGATGACTCCTGAGGACTACGAA
WHSC1-NMRAL1chr41936989chr164511960621DKHSLRKMTPEDYEKGACAAGCACAGTCTTCGGAAGATGACTCCTGAGGACTACGAAAAG
WHSC1-NMRAL1chr41936989chr164511960722KHSLRKMTPEDYEKLAAGCACAGTCTTCGGAAGATGACTCCTGAGGACTACGAAAAGCTT

Top

Information of the samples that have these potential fusion neoantigens of WHSC1-NMRAL1

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
CESCWHSC1-NMRAL1chr41936989ENST00000382891chr164511960ENST00000283429TCGA-JX-A3PZ

Top

Potential target of CAR-T therapy development for WHSC1-NMRAL1

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

Top

Related Drugs to WHSC1-NMRAL1

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

Top

Related Diseases to WHSC1-NMRAL1

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