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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:PML-RARA

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: PML-RARA
FusionPDB ID: 66640
FusionGDB2.0 ID: 66640
HgeneTgene
Gene symbol

PML

RARA

Gene ID

5371

5914

Gene namepromyelocytic leukemiaretinoic acid receptor alpha
SynonymsMYL|PP8675|RNF71|TRIM19NR1B1|RAR
Cytomap

15q24.1

17q21.2

Type of geneprotein-codingprotein-coding
Descriptionprotein PMLPML/RARA fusionRING finger protein 71probable transcription factor PMLpromyelocytic leukemia proteinpromyelocytic leukemia, inducer oftripartite motif protein TRIM19tripartite motif-containing protein 19retinoic acid receptor alphaRAR-alphanuclear receptor subfamily 1 group B member 1nucleophosmin-retinoic acid receptor alpha fusion protein NPM-RAR long formretinoic acid nuclear receptor alpha variant 1retinoic acid nuclear receptor alpha variant 2
Modification date2020031320200327
UniProtAcc

PRAM1

Main function of 5'-partner protein: 670

P10276

Main function of 5'-partner protein: FUNCTION: Receptor for retinoic acid (PubMed:19850744, PubMed:16417524, PubMed:20215566). Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes (PubMed:28167758). The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5'-AGGTCA-3' sites known as DR1-DR5 (PubMed:28167758, PubMed:19398580). In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone deacetylation, chromatin condensation and transcriptional suppression (PubMed:16417524). On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation (PubMed:9267036, PubMed:19850744, PubMed:20215566). Formation of a complex with histone deacetylases might lead to inhibition of RARE DNA element binding and to transcriptional repression (PubMed:28167758). Transcriptional activation and RARE DNA element binding might be supported by the transcription factor KLF2 (PubMed:28167758). RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis (By similarity). Has a role in the survival of early spermatocytes at the beginning prophase of meiosis (By similarity). In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes (By similarity). In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function (By similarity). Together with RXRA, positively regulates microRNA-10a expression, thereby inhibiting the GATA6/VCAM1 signaling response to pulsatile shear stress in vascular endothelial cells (PubMed:28167758). In association with HDAC3, HDAC5 and HDAC7 corepressors, plays a role in the repression of microRNA-10a and thereby promotes the inflammatory response (PubMed:28167758). {ECO:0000250|UniProtKB:P11416, ECO:0000269|PubMed:16417524, ECO:0000269|PubMed:19398580, ECO:0000269|PubMed:19850744, ECO:0000269|PubMed:20215566, ECO:0000269|PubMed:28167758, ECO:0000269|PubMed:9267036}.
Ensembl transtripts involved in fusion geneENST idsENST00000359928, ENST00000436891, 
ENST00000563500, ENST00000567543, 
ENST00000569161, ENST00000569965, 
ENST00000268058, ENST00000268059, 
ENST00000354026, ENST00000395132, 
ENST00000395135, ENST00000435786, 
ENST00000564428, ENST00000565898, 
ENST00000569477, 		ENST00000254066, 
ENST00000394089, ENST00000394081, 
ENST00000394086, ENST00000420042, 
ENST00000425707, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score10 X 32 X 6=192029 X 39 X 17=19227
# samples 3655
** MAII scorelog2(36/1920*10)=-2.41503749927884
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(55/19227*10)=-5.12755824682814
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: PML [Title/Abstract] AND RARA [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: PML [Title/Abstract] AND RARA [Title/Abstract] AND neoantigen [Title/Abstract]

Neoantigens in Hematologic Malignancies.' (pmid: 32117272)
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)PML(74325755)-RARA(38504568), # samples:27
RARA(38487648)-PML(74317198), # samples:16
Anticipated loss of major functional domain due to fusion event.PML-RARA 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.
PML-RARA 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.
PML-RARA 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.
PML-RARA 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.
RARA-PML 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.
RARA-PML 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.
PML-RARA seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
PML-RARA seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
PML-RARA seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
PML-RARA seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
PML-RARA seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor due to the frame-shifted ORF.
PML-RARA seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
PML-RARA seems lost the major protein functional domain in Tgene partner, which is a transcription factor due to the frame-shifted ORF.
RARA-PML seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
RARA-PML seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF.
RARA-PML seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
RARA-PML seems lost the major protein functional domain in Hgene partner, which is a transcription factor due to the frame-shifted ORF.
RARA-PML seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
RARA-PML seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
RARA-PML seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor 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
HgenePML

GO:0001666

response to hypoxia

16915281

HgenePML

GO:0030308

negative regulation of cell growth

9448006

HgenePML

GO:0034097

response to cytokine

9412458

HgenePML

GO:0043161

proteasome-mediated ubiquitin-dependent protein catabolic process

22406621

HgenePML

GO:0045087

innate immune response

18248090

HgenePML

GO:0045892

negative regulation of transcription, DNA-templated

9448006

HgenePML

GO:0051457

maintenance of protein location in nucleus

17332504

HgenePML

GO:0065003

protein-containing complex assembly

12915590

HgenePML

GO:0090398

cellular senescence

22002537|22117195|23431171

HgenePML

GO:1902187

negative regulation of viral release from host cell

18248090

TgeneRARA

GO:0007165

signal transduction

2825025

TgeneRARA

GO:0030853

negative regulation of granulocyte differentiation

19917671

TgeneRARA

GO:0032689

negative regulation of interferon-gamma production

18416830

TgeneRARA

GO:0032720

negative regulation of tumor necrosis factor production

18416830

TgeneRARA

GO:0032736

positive regulation of interleukin-13 production

18416830

TgeneRARA

GO:0032753

positive regulation of interleukin-4 production

18416830

TgeneRARA

GO:0032754

positive regulation of interleukin-5 production

18416830

TgeneRARA

GO:0045630

positive regulation of T-helper 2 cell differentiation

18416830

TgeneRARA

GO:0045892

negative regulation of transcription, DNA-templated

20080953

TgeneRARA

GO:0045893

positive regulation of transcription, DNA-templated

18845237|19850744|20080953

TgeneRARA

GO:0045944

positive regulation of transcription by RNA polymerase II

19850744|21131358

TgeneRARA

GO:0071300

cellular response to retinoic acid

19917671

TgeneRARA

GO:0071391

cellular response to estrogen stimulus

20080953



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/chr15:74325755/chr17:38504568)
- 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 PML (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 RARA (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)
ENST00000435786PMLchr1574326871+ENST00000254066RARAchr1738504567+53713590601868602
ENST00000435786PMLchr1574326871+ENST00000394089RARAchr1738504567+49063590601868602
ENST00000395135PMLchr1574325755+ENST00000254066RARAchr1738504568+35781797173007996
ENST00000395135PMLchr1574325755+ENST00000394089RARAchr1738504568+31131797173007996
ENST00000268059PMLchr1574325755+ENST00000254066RARAchr1738504568+35341753872963958
ENST00000268059PMLchr1574325755+ENST00000394089RARAchr1738504568+30691753872963958
ENST00000354026PMLchr1574325755+ENST00000254066RARAchr1738504568+33901609872819910
ENST00000354026PMLchr1574325755+ENST00000394089RARAchr1738504568+29251609872819910
ENST00000268058PMLchr1574325755+ENST00000254066RARAchr1738504568+35341753872963958
ENST00000268058PMLchr1574325755+ENST00000394089RARAchr1738504568+30691753872963958
ENST00000565898PMLchr1574325755+ENST00000254066RARAchr1738504568+33781597752807910
ENST00000565898PMLchr1574325755+ENST00000394089RARAchr1738504568+29131597752807910
ENST00000569477PMLchr1574325755+ENST00000254066RARAchr1738504568+35201739732949958
ENST00000569477PMLchr1574325755+ENST00000394089RARAchr1738504568+30551739732949958
ENST00000435786PMLchr1574325755+ENST00000254066RARAchr1738504568+35071726602936958
ENST00000435786PMLchr1574325755+ENST00000394089RARAchr1738504568+30421726602936958
ENST00000564428PMLchr1574325755+ENST00000254066RARAchr1738504568+33631582602792910
ENST00000564428PMLchr1574325755+ENST00000394089RARAchr1738504568+28981582602792910
ENST00000563500PMLchr1574325755+ENST00000254066RARAchr1738504568+6024424340085453481
ENST00000563500PMLchr1574325755+ENST00000394089RARAchr1738504568+5559424340085453481
ENST00000395135PMLchr1574315749+ENST00000254066RARAchr1738504568+31041323172533838
ENST00000395135PMLchr1574315749+ENST00000394089RARAchr1738504568+26391323172533838
ENST00000395132PMLchr1574315749+ENST00000254066RARAchr1738504568+30601279872489800
ENST00000395132PMLchr1574315749+ENST00000394089RARAchr1738504568+25951279872489800
ENST00000268059PMLchr1574315749+ENST00000254066RARAchr1738504568+30601279872489800
ENST00000268059PMLchr1574315749+ENST00000394089RARAchr1738504568+25951279872489800
ENST00000354026PMLchr1574315749+ENST00000254066RARAchr1738504568+30601279872489800
ENST00000354026PMLchr1574315749+ENST00000394089RARAchr1738504568+25951279872489800
ENST00000268058PMLchr1574315749+ENST00000254066RARAchr1738504568+30601279872489800
ENST00000268058PMLchr1574315749+ENST00000394089RARAchr1738504568+25951279872489800
ENST00000565898PMLchr1574315749+ENST00000254066RARAchr1738504568+30481267752477800
ENST00000565898PMLchr1574315749+ENST00000394089RARAchr1738504568+25831267752477800
ENST00000569477PMLchr1574315749+ENST00000254066RARAchr1738504568+30461265732475800
ENST00000569477PMLchr1574315749+ENST00000394089RARAchr1738504568+25811265732475800
ENST00000569965PMLchr1574315749+ENST00000254066RARAchr1738504568+30441263712473800
ENST00000569965PMLchr1574315749+ENST00000394089RARAchr1738504568+25791263712473800
ENST00000567543PMLchr1574315749+ENST00000254066RARAchr1738504568+30331252602462800
ENST00000567543PMLchr1574315749+ENST00000394089RARAchr1738504568+25681252602462800
ENST00000435786PMLchr1574315749+ENST00000254066RARAchr1738504568+30331252602462800
ENST00000435786PMLchr1574315749+ENST00000394089RARAchr1738504568+25681252602462800
ENST00000436891PMLchr1574315749+ENST00000254066RARAchr1738504568+30331252602462800
ENST00000436891PMLchr1574315749+ENST00000394089RARAchr1738504568+25681252602462800
ENST00000564428PMLchr1574315749+ENST00000254066RARAchr1738504568+30331252602462800
ENST00000564428PMLchr1574315749+ENST00000394089RARAchr1738504568+25681252602462800
ENST00000359928PMLchr1574315749+ENST00000254066RARAchr1738504568+30331252602462800
ENST00000359928PMLchr1574315749+ENST00000394089RARAchr1738504568+25681252602462800
ENST00000563500PMLchr1574315749+ENST00000254066RARAchr1738504568+2974119312403800
ENST00000563500PMLchr1574315749+ENST00000394089RARAchr1738504568+2509119312403800
ENST00000395135PMLchr1574315749+ENST00000254066RARAchr1738504567+31041323172533838
ENST00000395135PMLchr1574315749+ENST00000394089RARAchr1738504567+26391323172533838
ENST00000395132PMLchr1574315749+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000395132PMLchr1574315749+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000268059PMLchr1574315749+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000268059PMLchr1574315749+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000354026PMLchr1574315749+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000354026PMLchr1574315749+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000268058PMLchr1574315749+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000268058PMLchr1574315749+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000565898PMLchr1574315749+ENST00000254066RARAchr1738504567+30481267752477800
ENST00000565898PMLchr1574315749+ENST00000394089RARAchr1738504567+25831267752477800
ENST00000569477PMLchr1574315749+ENST00000254066RARAchr1738504567+30461265732475800
ENST00000569477PMLchr1574315749+ENST00000394089RARAchr1738504567+25811265732475800
ENST00000569965PMLchr1574315749+ENST00000254066RARAchr1738504567+30441263712473800
ENST00000569965PMLchr1574315749+ENST00000394089RARAchr1738504567+25791263712473800
ENST00000567543PMLchr1574315749+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000567543PMLchr1574315749+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000435786PMLchr1574315749+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000435786PMLchr1574315749+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000436891PMLchr1574315749+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000436891PMLchr1574315749+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000564428PMLchr1574315749+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000564428PMLchr1574315749+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000359928PMLchr1574315749+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000359928PMLchr1574315749+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000563500PMLchr1574315749+ENST00000254066RARAchr1738504567+2974119312403800
ENST00000563500PMLchr1574315749+ENST00000394089RARAchr1738504567+2509119312403800
ENST00000395135PMLchr1574325755+ENST00000254066RARAchr1738504567+35781797173007996
ENST00000395135PMLchr1574325755+ENST00000394089RARAchr1738504567+31131797173007996
ENST00000268059PMLchr1574325755+ENST00000254066RARAchr1738504567+35341753872963958
ENST00000268059PMLchr1574325755+ENST00000394089RARAchr1738504567+30691753872963958
ENST00000354026PMLchr1574325755+ENST00000254066RARAchr1738504567+33901609872819910
ENST00000354026PMLchr1574325755+ENST00000394089RARAchr1738504567+29251609872819910
ENST00000268058PMLchr1574325755+ENST00000254066RARAchr1738504567+35341753872963958
ENST00000268058PMLchr1574325755+ENST00000394089RARAchr1738504567+30691753872963958
ENST00000565898PMLchr1574325755+ENST00000254066RARAchr1738504567+33781597752807910
ENST00000565898PMLchr1574325755+ENST00000394089RARAchr1738504567+29131597752807910
ENST00000569477PMLchr1574325755+ENST00000254066RARAchr1738504567+35201739732949958
ENST00000569477PMLchr1574325755+ENST00000394089RARAchr1738504567+30551739732949958
ENST00000435786PMLchr1574325755+ENST00000254066RARAchr1738504567+35071726602936958
ENST00000435786PMLchr1574325755+ENST00000394089RARAchr1738504567+30421726602936958
ENST00000564428PMLchr1574325755+ENST00000254066RARAchr1738504567+33631582602792910
ENST00000564428PMLchr1574325755+ENST00000394089RARAchr1738504567+28981582602792910
ENST00000563500PMLchr1574325755+ENST00000254066RARAchr1738504567+6024424340085453481
ENST00000563500PMLchr1574325755+ENST00000394089RARAchr1738504567+5559424340085453481
ENST00000395135PMLchr1574315748+ENST00000254066RARAchr1738504567+31041323172533838
ENST00000395135PMLchr1574315748+ENST00000394089RARAchr1738504567+26391323172533838
ENST00000395132PMLchr1574315748+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000395132PMLchr1574315748+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000268059PMLchr1574315748+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000268059PMLchr1574315748+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000354026PMLchr1574315748+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000354026PMLchr1574315748+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000268058PMLchr1574315748+ENST00000254066RARAchr1738504567+30601279872489800
ENST00000268058PMLchr1574315748+ENST00000394089RARAchr1738504567+25951279872489800
ENST00000565898PMLchr1574315748+ENST00000254066RARAchr1738504567+30481267752477800
ENST00000565898PMLchr1574315748+ENST00000394089RARAchr1738504567+25831267752477800
ENST00000569477PMLchr1574315748+ENST00000254066RARAchr1738504567+30461265732475800
ENST00000569477PMLchr1574315748+ENST00000394089RARAchr1738504567+25811265732475800
ENST00000569965PMLchr1574315748+ENST00000254066RARAchr1738504567+30441263712473800
ENST00000569965PMLchr1574315748+ENST00000394089RARAchr1738504567+25791263712473800
ENST00000567543PMLchr1574315748+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000567543PMLchr1574315748+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000435786PMLchr1574315748+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000435786PMLchr1574315748+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000436891PMLchr1574315748+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000436891PMLchr1574315748+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000564428PMLchr1574315748+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000564428PMLchr1574315748+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000359928PMLchr1574315748+ENST00000254066RARAchr1738504567+30331252602462800
ENST00000359928PMLchr1574315748+ENST00000394089RARAchr1738504567+25681252602462800
ENST00000563500PMLchr1574315748+ENST00000254066RARAchr1738504567+2974119312403800
ENST00000563500PMLchr1574315748+ENST00000394089RARAchr1738504567+2509119312403800
ENST00000395135PMLchr1574325754+ENST00000254066RARAchr1738504567+35781797173007996
ENST00000395135PMLchr1574325754+ENST00000394089RARAchr1738504567+31131797173007996
ENST00000268059PMLchr1574325754+ENST00000254066RARAchr1738504567+35341753872963958
ENST00000268059PMLchr1574325754+ENST00000394089RARAchr1738504567+30691753872963958
ENST00000354026PMLchr1574325754+ENST00000254066RARAchr1738504567+33901609872819910
ENST00000354026PMLchr1574325754+ENST00000394089RARAchr1738504567+29251609872819910
ENST00000268058PMLchr1574325754+ENST00000254066RARAchr1738504567+35341753872963958
ENST00000268058PMLchr1574325754+ENST00000394089RARAchr1738504567+30691753872963958
ENST00000565898PMLchr1574325754+ENST00000254066RARAchr1738504567+33781597752807910
ENST00000565898PMLchr1574325754+ENST00000394089RARAchr1738504567+29131597752807910
ENST00000569477PMLchr1574325754+ENST00000254066RARAchr1738504567+35201739732949958
ENST00000569477PMLchr1574325754+ENST00000394089RARAchr1738504567+30551739732949958
ENST00000435786PMLchr1574325754+ENST00000254066RARAchr1738504567+35071726602936958
ENST00000435786PMLchr1574325754+ENST00000394089RARAchr1738504567+30421726602936958
ENST00000564428PMLchr1574325754+ENST00000254066RARAchr1738504567+33631582602792910
ENST00000564428PMLchr1574325754+ENST00000394089RARAchr1738504567+28981582602792910
ENST00000563500PMLchr1574325754+ENST00000254066RARAchr1738504567+6025424411458485
ENST00000563500PMLchr1574325754+ENST00000394089RARAchr1738504567+5560424411458485
ENST00000563500PMLchr1574325762+ENST00000254066RARAchr1738504567+6017423640015446481
ENST00000563500PMLchr1574325762+ENST00000394089RARAchr1738504567+5552423640015446481
ENST00000395135PMLchr1574315749+ENST00000254066RARAchr1738504566+31041323172533838
ENST00000395135PMLchr1574315749+ENST00000394089RARAchr1738504566+26391323172533838
ENST00000395132PMLchr1574315749+ENST00000254066RARAchr1738504566+30601279872489800
ENST00000395132PMLchr1574315749+ENST00000394089RARAchr1738504566+25951279872489800
ENST00000268059PMLchr1574315749+ENST00000254066RARAchr1738504566+30601279872489800
ENST00000268059PMLchr1574315749+ENST00000394089RARAchr1738504566+25951279872489800
ENST00000354026PMLchr1574315749+ENST00000254066RARAchr1738504566+30601279872489800
ENST00000354026PMLchr1574315749+ENST00000394089RARAchr1738504566+25951279872489800
ENST00000268058PMLchr1574315749+ENST00000254066RARAchr1738504566+30601279872489800
ENST00000268058PMLchr1574315749+ENST00000394089RARAchr1738504566+25951279872489800
ENST00000565898PMLchr1574315749+ENST00000254066RARAchr1738504566+30481267752477800
ENST00000565898PMLchr1574315749+ENST00000394089RARAchr1738504566+25831267752477800
ENST00000569477PMLchr1574315749+ENST00000254066RARAchr1738504566+30461265732475800
ENST00000569477PMLchr1574315749+ENST00000394089RARAchr1738504566+25811265732475800
ENST00000569965PMLchr1574315749+ENST00000254066RARAchr1738504566+30441263712473800
ENST00000569965PMLchr1574315749+ENST00000394089RARAchr1738504566+25791263712473800
ENST00000567543PMLchr1574315749+ENST00000254066RARAchr1738504566+30331252602462800
ENST00000567543PMLchr1574315749+ENST00000394089RARAchr1738504566+25681252602462800
ENST00000435786PMLchr1574315749+ENST00000254066RARAchr1738504566+30331252602462800
ENST00000435786PMLchr1574315749+ENST00000394089RARAchr1738504566+25681252602462800
ENST00000436891PMLchr1574315749+ENST00000254066RARAchr1738504566+30331252602462800
ENST00000436891PMLchr1574315749+ENST00000394089RARAchr1738504566+25681252602462800
ENST00000564428PMLchr1574315749+ENST00000254066RARAchr1738504566+30331252602462800
ENST00000564428PMLchr1574315749+ENST00000394089RARAchr1738504566+25681252602462800
ENST00000359928PMLchr1574315749+ENST00000254066RARAchr1738504566+30331252602462800
ENST00000359928PMLchr1574315749+ENST00000394089RARAchr1738504566+25681252602462800
ENST00000563500PMLchr1574315749+ENST00000254066RARAchr1738504566+2974119312403800
ENST00000563500PMLchr1574315749+ENST00000394089RARAchr1738504566+2509119312403800
ENST00000395135PMLchr1574325755+ENST00000254066RARAchr1738504566+35781797173007996
ENST00000395135PMLchr1574325755+ENST00000394089RARAchr1738504566+31131797173007996
ENST00000268059PMLchr1574325755+ENST00000254066RARAchr1738504566+35341753872963958
ENST00000268059PMLchr1574325755+ENST00000394089RARAchr1738504566+30691753872963958
ENST00000354026PMLchr1574325755+ENST00000254066RARAchr1738504566+33901609872819910
ENST00000354026PMLchr1574325755+ENST00000394089RARAchr1738504566+29251609872819910
ENST00000268058PMLchr1574325755+ENST00000254066RARAchr1738504566+35341753872963958
ENST00000268058PMLchr1574325755+ENST00000394089RARAchr1738504566+30691753872963958
ENST00000565898PMLchr1574325755+ENST00000254066RARAchr1738504566+33781597752807910
ENST00000565898PMLchr1574325755+ENST00000394089RARAchr1738504566+29131597752807910
ENST00000569477PMLchr1574325755+ENST00000254066RARAchr1738504566+35201739732949958
ENST00000569477PMLchr1574325755+ENST00000394089RARAchr1738504566+30551739732949958
ENST00000435786PMLchr1574325755+ENST00000254066RARAchr1738504566+35071726602936958
ENST00000435786PMLchr1574325755+ENST00000394089RARAchr1738504566+30421726602936958
ENST00000564428PMLchr1574325755+ENST00000254066RARAchr1738504566+33631582602792910
ENST00000564428PMLchr1574325755+ENST00000394089RARAchr1738504566+28981582602792910
ENST00000563500PMLchr1574325755+ENST00000254066RARAchr1738504566+6024424340085453481
ENST00000563500PMLchr1574325755+ENST00000394089RARAchr1738504566+5559424340085453481

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
ENST00000395135ENST00000254066PMLchr1574325755+RARAchr1738504568+0.0128209960.98717904
ENST00000395135ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0186924130.9813076
ENST00000268059ENST00000254066PMLchr1574325755+RARAchr1738504568+0.0128029410.98719704
ENST00000268059ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0188027380.9811973
ENST00000354026ENST00000254066PMLchr1574325755+RARAchr1738504568+0.0208918820.97910815
ENST00000354026ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0313990750.9686009
ENST00000268058ENST00000254066PMLchr1574325755+RARAchr1738504568+0.0128029410.98719704
ENST00000268058ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0188027380.9811973
ENST00000565898ENST00000254066PMLchr1574325755+RARAchr1738504568+0.020644480.9793555
ENST00000565898ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0311144460.96888554
ENST00000569477ENST00000254066PMLchr1574325755+RARAchr1738504568+0.0126353260.9873647
ENST00000569477ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0185375050.9814625
ENST00000435786ENST00000254066PMLchr1574325755+RARAchr1738504568+0.0123655850.98763436
ENST00000435786ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0181552790.98184466
ENST00000564428ENST00000254066PMLchr1574325755+RARAchr1738504568+0.0202136430.9797863
ENST00000564428ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0305461510.9694539
ENST00000563500ENST00000254066PMLchr1574325755+RARAchr1738504568+0.079378190.92062175
ENST00000563500ENST00000394089PMLchr1574325755+RARAchr1738504568+0.0887302460.9112697
ENST00000395135ENST00000254066PMLchr1574315749+RARAchr1738504568+0.038246140.9617539
ENST00000395135ENST00000394089PMLchr1574315749+RARAchr1738504568+0.056595040.943405
ENST00000395132ENST00000254066PMLchr1574315749+RARAchr1738504568+0.0382114760.96178854
ENST00000395132ENST00000394089PMLchr1574315749+RARAchr1738504568+0.05659910.9434009
ENST00000268059ENST00000254066PMLchr1574315749+RARAchr1738504568+0.0382114760.96178854
ENST00000268059ENST00000394089PMLchr1574315749+RARAchr1738504568+0.05659910.9434009
ENST00000354026ENST00000254066PMLchr1574315749+RARAchr1738504568+0.0382114760.96178854
ENST00000354026ENST00000394089PMLchr1574315749+RARAchr1738504568+0.05659910.9434009
ENST00000268058ENST00000254066PMLchr1574315749+RARAchr1738504568+0.0382114760.96178854
ENST00000268058ENST00000394089PMLchr1574315749+RARAchr1738504568+0.05659910.9434009
ENST00000565898ENST00000254066PMLchr1574315749+RARAchr1738504568+0.037737270.9622627
ENST00000565898ENST00000394089PMLchr1574315749+RARAchr1738504568+0.055949490.9440505
ENST00000569477ENST00000254066PMLchr1574315749+RARAchr1738504568+0.0377031150.96229696
ENST00000569477ENST00000394089PMLchr1574315749+RARAchr1738504568+0.055823090.9441769
ENST00000569965ENST00000254066PMLchr1574315749+RARAchr1738504568+0.0376042540.9623957
ENST00000569965ENST00000394089PMLchr1574315749+RARAchr1738504568+0.0557423230.94425774
ENST00000567543ENST00000254066PMLchr1574315749+RARAchr1738504568+0.036838740.9631613
ENST00000567543ENST00000394089PMLchr1574315749+RARAchr1738504568+0.055115050.9448849
ENST00000435786ENST00000254066PMLchr1574315749+RARAchr1738504568+0.036838740.9631613
ENST00000435786ENST00000394089PMLchr1574315749+RARAchr1738504568+0.055115050.9448849
ENST00000436891ENST00000254066PMLchr1574315749+RARAchr1738504568+0.036838740.9631613
ENST00000436891ENST00000394089PMLchr1574315749+RARAchr1738504568+0.055115050.9448849
ENST00000564428ENST00000254066PMLchr1574315749+RARAchr1738504568+0.036838740.9631613
ENST00000564428ENST00000394089PMLchr1574315749+RARAchr1738504568+0.055115050.9448849
ENST00000359928ENST00000254066PMLchr1574315749+RARAchr1738504568+0.036838740.9631613
ENST00000359928ENST00000394089PMLchr1574315749+RARAchr1738504568+0.055115050.9448849
ENST00000563500ENST00000254066PMLchr1574315749+RARAchr1738504568+0.037336870.9626631
ENST00000563500ENST00000394089PMLchr1574315749+RARAchr1738504568+0.05548170.9445183
ENST00000395135ENST00000254066PMLchr1574315749+RARAchr1738504567+0.038246140.9617539
ENST00000395135ENST00000394089PMLchr1574315749+RARAchr1738504567+0.056595040.943405
ENST00000395132ENST00000254066PMLchr1574315749+RARAchr1738504567+0.0382114760.96178854
ENST00000395132ENST00000394089PMLchr1574315749+RARAchr1738504567+0.05659910.9434009
ENST00000268059ENST00000254066PMLchr1574315749+RARAchr1738504567+0.0382114760.96178854
ENST00000268059ENST00000394089PMLchr1574315749+RARAchr1738504567+0.05659910.9434009
ENST00000354026ENST00000254066PMLchr1574315749+RARAchr1738504567+0.0382114760.96178854
ENST00000354026ENST00000394089PMLchr1574315749+RARAchr1738504567+0.05659910.9434009
ENST00000268058ENST00000254066PMLchr1574315749+RARAchr1738504567+0.0382114760.96178854
ENST00000268058ENST00000394089PMLchr1574315749+RARAchr1738504567+0.05659910.9434009
ENST00000565898ENST00000254066PMLchr1574315749+RARAchr1738504567+0.037737270.9622627
ENST00000565898ENST00000394089PMLchr1574315749+RARAchr1738504567+0.055949490.9440505
ENST00000569477ENST00000254066PMLchr1574315749+RARAchr1738504567+0.0377031150.96229696
ENST00000569477ENST00000394089PMLchr1574315749+RARAchr1738504567+0.055823090.9441769
ENST00000569965ENST00000254066PMLchr1574315749+RARAchr1738504567+0.0376042540.9623957
ENST00000569965ENST00000394089PMLchr1574315749+RARAchr1738504567+0.0557423230.94425774
ENST00000567543ENST00000254066PMLchr1574315749+RARAchr1738504567+0.036838740.9631613
ENST00000567543ENST00000394089PMLchr1574315749+RARAchr1738504567+0.055115050.9448849
ENST00000435786ENST00000254066PMLchr1574315749+RARAchr1738504567+0.036838740.9631613
ENST00000435786ENST00000394089PMLchr1574315749+RARAchr1738504567+0.055115050.9448849
ENST00000436891ENST00000254066PMLchr1574315749+RARAchr1738504567+0.036838740.9631613
ENST00000436891ENST00000394089PMLchr1574315749+RARAchr1738504567+0.055115050.9448849
ENST00000564428ENST00000254066PMLchr1574315749+RARAchr1738504567+0.036838740.9631613
ENST00000564428ENST00000394089PMLchr1574315749+RARAchr1738504567+0.055115050.9448849
ENST00000359928ENST00000254066PMLchr1574315749+RARAchr1738504567+0.036838740.9631613
ENST00000359928ENST00000394089PMLchr1574315749+RARAchr1738504567+0.055115050.9448849
ENST00000563500ENST00000254066PMLchr1574315749+RARAchr1738504567+0.037336870.9626631
ENST00000563500ENST00000394089PMLchr1574315749+RARAchr1738504567+0.05548170.9445183
ENST00000395135ENST00000254066PMLchr1574325755+RARAchr1738504567+0.0128209960.98717904
ENST00000395135ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0186924130.9813076
ENST00000268059ENST00000254066PMLchr1574325755+RARAchr1738504567+0.0128029410.98719704
ENST00000268059ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0188027380.9811973
ENST00000354026ENST00000254066PMLchr1574325755+RARAchr1738504567+0.0208918820.97910815
ENST00000354026ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0313990750.9686009
ENST00000268058ENST00000254066PMLchr1574325755+RARAchr1738504567+0.0128029410.98719704
ENST00000268058ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0188027380.9811973
ENST00000565898ENST00000254066PMLchr1574325755+RARAchr1738504567+0.020644480.9793555
ENST00000565898ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0311144460.96888554
ENST00000569477ENST00000254066PMLchr1574325755+RARAchr1738504567+0.0126353260.9873647
ENST00000569477ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0185375050.9814625
ENST00000435786ENST00000254066PMLchr1574325755+RARAchr1738504567+0.0123655850.98763436
ENST00000435786ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0181552790.98184466
ENST00000564428ENST00000254066PMLchr1574325755+RARAchr1738504567+0.0202136430.9797863
ENST00000564428ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0305461510.9694539
ENST00000563500ENST00000254066PMLchr1574325755+RARAchr1738504567+0.079378190.92062175
ENST00000563500ENST00000394089PMLchr1574325755+RARAchr1738504567+0.0887302460.9112697
ENST00000395135ENST00000254066PMLchr1574315748+RARAchr1738504567+0.038246140.9617539
ENST00000395135ENST00000394089PMLchr1574315748+RARAchr1738504567+0.056595040.943405
ENST00000395132ENST00000254066PMLchr1574315748+RARAchr1738504567+0.0382114760.96178854
ENST00000395132ENST00000394089PMLchr1574315748+RARAchr1738504567+0.05659910.9434009
ENST00000268059ENST00000254066PMLchr1574315748+RARAchr1738504567+0.0382114760.96178854
ENST00000268059ENST00000394089PMLchr1574315748+RARAchr1738504567+0.05659910.9434009
ENST00000354026ENST00000254066PMLchr1574315748+RARAchr1738504567+0.0382114760.96178854
ENST00000354026ENST00000394089PMLchr1574315748+RARAchr1738504567+0.05659910.9434009
ENST00000268058ENST00000254066PMLchr1574315748+RARAchr1738504567+0.0382114760.96178854
ENST00000268058ENST00000394089PMLchr1574315748+RARAchr1738504567+0.05659910.9434009
ENST00000565898ENST00000254066PMLchr1574315748+RARAchr1738504567+0.037737270.9622627
ENST00000565898ENST00000394089PMLchr1574315748+RARAchr1738504567+0.055949490.9440505
ENST00000569477ENST00000254066PMLchr1574315748+RARAchr1738504567+0.0377031150.96229696
ENST00000569477ENST00000394089PMLchr1574315748+RARAchr1738504567+0.055823090.9441769
ENST00000569965ENST00000254066PMLchr1574315748+RARAchr1738504567+0.0376042540.9623957
ENST00000569965ENST00000394089PMLchr1574315748+RARAchr1738504567+0.0557423230.94425774
ENST00000567543ENST00000254066PMLchr1574315748+RARAchr1738504567+0.036838740.9631613
ENST00000567543ENST00000394089PMLchr1574315748+RARAchr1738504567+0.055115050.9448849
ENST00000435786ENST00000254066PMLchr1574315748+RARAchr1738504567+0.036838740.9631613
ENST00000435786ENST00000394089PMLchr1574315748+RARAchr1738504567+0.055115050.9448849
ENST00000436891ENST00000254066PMLchr1574315748+RARAchr1738504567+0.036838740.9631613
ENST00000436891ENST00000394089PMLchr1574315748+RARAchr1738504567+0.055115050.9448849
ENST00000564428ENST00000254066PMLchr1574315748+RARAchr1738504567+0.036838740.9631613
ENST00000564428ENST00000394089PMLchr1574315748+RARAchr1738504567+0.055115050.9448849
ENST00000359928ENST00000254066PMLchr1574315748+RARAchr1738504567+0.036838740.9631613
ENST00000359928ENST00000394089PMLchr1574315748+RARAchr1738504567+0.055115050.9448849
ENST00000563500ENST00000254066PMLchr1574315748+RARAchr1738504567+0.037336870.9626631
ENST00000563500ENST00000394089PMLchr1574315748+RARAchr1738504567+0.05548170.9445183
ENST00000395135ENST00000254066PMLchr1574325754+RARAchr1738504567+0.0128209960.98717904
ENST00000395135ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0186924130.9813076
ENST00000268059ENST00000254066PMLchr1574325754+RARAchr1738504567+0.0128029410.98719704
ENST00000268059ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0188027380.9811973
ENST00000354026ENST00000254066PMLchr1574325754+RARAchr1738504567+0.0208918820.97910815
ENST00000354026ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0313990750.9686009
ENST00000268058ENST00000254066PMLchr1574325754+RARAchr1738504567+0.0128029410.98719704
ENST00000268058ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0188027380.9811973
ENST00000565898ENST00000254066PMLchr1574325754+RARAchr1738504567+0.020644480.9793555
ENST00000565898ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0311144460.96888554
ENST00000569477ENST00000254066PMLchr1574325754+RARAchr1738504567+0.0126353260.9873647
ENST00000569477ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0185375050.9814625
ENST00000435786ENST00000254066PMLchr1574325754+RARAchr1738504567+0.0123655850.98763436
ENST00000435786ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0181552790.98184466
ENST00000564428ENST00000254066PMLchr1574325754+RARAchr1738504567+0.0202136430.9797863
ENST00000564428ENST00000394089PMLchr1574325754+RARAchr1738504567+0.0305461510.9694539
ENST00000563500ENST00000254066PMLchr1574325754+RARAchr1738504567+0.096438640.9035614
ENST00000563500ENST00000394089PMLchr1574325754+RARAchr1738504567+0.1063461750.89365387
ENST00000563500ENST00000254066PMLchr1574325762+RARAchr1738504567+0.080011240.9199887
ENST00000563500ENST00000394089PMLchr1574325762+RARAchr1738504567+0.089414450.9105855
ENST00000395135ENST00000254066PMLchr1574315749+RARAchr1738504566+0.038246140.9617539
ENST00000395135ENST00000394089PMLchr1574315749+RARAchr1738504566+0.056595040.943405
ENST00000395132ENST00000254066PMLchr1574315749+RARAchr1738504566+0.0382114760.96178854
ENST00000395132ENST00000394089PMLchr1574315749+RARAchr1738504566+0.05659910.9434009
ENST00000268059ENST00000254066PMLchr1574315749+RARAchr1738504566+0.0382114760.96178854
ENST00000268059ENST00000394089PMLchr1574315749+RARAchr1738504566+0.05659910.9434009
ENST00000354026ENST00000254066PMLchr1574315749+RARAchr1738504566+0.0382114760.96178854
ENST00000354026ENST00000394089PMLchr1574315749+RARAchr1738504566+0.05659910.9434009
ENST00000268058ENST00000254066PMLchr1574315749+RARAchr1738504566+0.0382114760.96178854
ENST00000268058ENST00000394089PMLchr1574315749+RARAchr1738504566+0.05659910.9434009
ENST00000565898ENST00000254066PMLchr1574315749+RARAchr1738504566+0.037737270.9622627
ENST00000565898ENST00000394089PMLchr1574315749+RARAchr1738504566+0.055949490.9440505
ENST00000569477ENST00000254066PMLchr1574315749+RARAchr1738504566+0.0377031150.96229696
ENST00000569477ENST00000394089PMLchr1574315749+RARAchr1738504566+0.055823090.9441769
ENST00000569965ENST00000254066PMLchr1574315749+RARAchr1738504566+0.0376042540.9623957
ENST00000569965ENST00000394089PMLchr1574315749+RARAchr1738504566+0.0557423230.94425774
ENST00000567543ENST00000254066PMLchr1574315749+RARAchr1738504566+0.036838740.9631613
ENST00000567543ENST00000394089PMLchr1574315749+RARAchr1738504566+0.055115050.9448849
ENST00000435786ENST00000254066PMLchr1574315749+RARAchr1738504566+0.036838740.9631613
ENST00000435786ENST00000394089PMLchr1574315749+RARAchr1738504566+0.055115050.9448849
ENST00000436891ENST00000254066PMLchr1574315749+RARAchr1738504566+0.036838740.9631613
ENST00000436891ENST00000394089PMLchr1574315749+RARAchr1738504566+0.055115050.9448849
ENST00000564428ENST00000254066PMLchr1574315749+RARAchr1738504566+0.036838740.9631613
ENST00000564428ENST00000394089PMLchr1574315749+RARAchr1738504566+0.055115050.9448849
ENST00000359928ENST00000254066PMLchr1574315749+RARAchr1738504566+0.036838740.9631613
ENST00000359928ENST00000394089PMLchr1574315749+RARAchr1738504566+0.055115050.9448849
ENST00000563500ENST00000254066PMLchr1574315749+RARAchr1738504566+0.037336870.9626631
ENST00000563500ENST00000394089PMLchr1574315749+RARAchr1738504566+0.05548170.9445183
ENST00000395135ENST00000254066PMLchr1574325755+RARAchr1738504566+0.0128209960.98717904
ENST00000395135ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0186924130.9813076
ENST00000268059ENST00000254066PMLchr1574325755+RARAchr1738504566+0.0128029410.98719704
ENST00000268059ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0188027380.9811973
ENST00000354026ENST00000254066PMLchr1574325755+RARAchr1738504566+0.0208918820.97910815
ENST00000354026ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0313990750.9686009
ENST00000268058ENST00000254066PMLchr1574325755+RARAchr1738504566+0.0128029410.98719704
ENST00000268058ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0188027380.9811973
ENST00000565898ENST00000254066PMLchr1574325755+RARAchr1738504566+0.020644480.9793555
ENST00000565898ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0311144460.96888554
ENST00000569477ENST00000254066PMLchr1574325755+RARAchr1738504566+0.0126353260.9873647
ENST00000569477ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0185375050.9814625
ENST00000435786ENST00000254066PMLchr1574325755+RARAchr1738504566+0.0123655850.98763436
ENST00000435786ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0181552790.98184466
ENST00000564428ENST00000254066PMLchr1574325755+RARAchr1738504566+0.0202136430.9797863
ENST00000564428ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0305461510.9694539
ENST00000563500ENST00000254066PMLchr1574325755+RARAchr1738504566+0.079378190.92062175
ENST00000563500ENST00000394089PMLchr1574325755+RARAchr1738504566+0.0887302460.9112697

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 PML-RARA

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
PMLchr1574315748RARAchr17385045671193397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315748RARAchr17385045671252397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315748RARAchr17385045671263397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315748RARAchr17385045671265397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315748RARAchr17385045671267397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315748RARAchr17385045671279397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315748RARAchr17385045671323435RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045661193397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045661252397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045661263397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045661265397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045661267397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045661279397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045661323435RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045671193397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045671252397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045671263397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045671265397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045671267397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045671279397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045671323435RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045681193397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045681252397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045681263397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045681265397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045681267397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045681279397RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574315749RARAchr17385045681323435RLQDLSSCITQGKAIETQSSSSEEIV
PMLchr1574325754RARAchr17385045671582507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325754RARAchr17385045671597507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325754RARAchr17385045671609507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325754RARAchr17385045671726555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325754RARAchr17385045671739555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325754RARAchr17385045671753555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325754RARAchr17385045671797593PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045661582507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045661597507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045661609507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045661726555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045661739555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045661753555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045661797593PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr1738504566424374YPKTWQMWLLNKHLLNHPIETQSSSS
PMLchr1574325755RARAchr17385045671582507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045671597507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045671609507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045671726555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045671739555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045671753555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045671797593PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr1738504567424374YPKTWQMWLLNKHLLNHPIETQSSSS
PMLchr1574325755RARAchr17385045681582507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045681597507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045681609507PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045681726555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045681739555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045681753555PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr17385045681797593PNSNHVASGAGEAAIETQSSSSEEIV
PMLchr1574325755RARAchr1738504568424374YPKTWQMWLLNKHLLNHPIETQSSSS
PMLchr1574325762RARAchr1738504567423674YPKTWQMWLLNKHLLNHPIETQSSSS

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Potential FusionNeoAntigen Information of PML-RARA 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.
PML-RARA_74325754_38504567.msa
PML-RARA_74325755_38504566.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)
PML-RARAchr1574325754chr17385045671753HLA-B45:01GEAAIETQS0.92720.98411019
PML-RARAchr1574325754chr17385045671753HLA-B50:02GEAAIETQS0.83510.79631019
PML-RARAchr1574325754chr17385045671753HLA-B39:06NHVASGAGEAA0.99960.9654314
PML-RARAchr1574325755chr17385045664243HLA-B08:01WLLNKHLL0.99910.6648715
PML-RARAchr1574325755chr17385045664243HLA-B39:06NKHLLNHPI0.98980.67031019
PML-RARAchr1574325755chr17385045664243HLA-A02:24HLLNHPIET0.97680.79041221
PML-RARAchr1574325755chr17385045664243HLA-A02:30HLLNHPIET0.97680.79041221
PML-RARAchr1574325755chr17385045664243HLA-A02:67HLLNHPIET0.97680.79041221
PML-RARAchr1574325755chr17385045664243HLA-A02:60HLLNHPIET0.97670.79171221
PML-RARAchr1574325755chr17385045664243HLA-A02:27HLLNHPIET0.96560.81121221
PML-RARAchr1574325755chr17385045664243HLA-A02:38HLLNHPIET0.96270.80931221
PML-RARAchr1574325755chr17385045664243HLA-A02:13HLLNHPIET0.96180.83991221
PML-RARAchr1574325755chr17385045664243HLA-A02:19HLLNHPIET0.90810.6871221
PML-RARAchr1574325755chr17385045664243HLA-A02:01HLLNHPIET0.97680.79041221
PML-RARAchr1574325755chr17385045664243HLA-B08:18WLLNKHLL0.99910.6648715
PML-RARAchr1574325755chr17385045664243HLA-B08:12WLLNKHLL0.94880.8088715
PML-RARAchr1574325755chr17385045664243HLA-C14:02MWLLNKHLL0.10550.9436615
PML-RARAchr1574325755chr17385045664243HLA-C14:03MWLLNKHLL0.10550.9436615

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Potential FusionNeoAntigen Information of PML-RARA 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.
PML-RARA_74315748_38504567.msa
PML-RARA_74325754_38504567.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)
PML-RARAchr1574315748chr17385045671279DRB1-0467GKAIETQSSSSEEIV1126
PML-RARAchr1574315748chr17385045671279DRB1-0467QGKAIETQSSSSEEI1025
PML-RARAchr1574315748chr17385045671279DRB1-0467TQGKAIETQSSSSEE924
PML-RARAchr1574325754chr17385045671753DRB1-0467EAAIETQSSSSEEIV1126
PML-RARAchr1574325754chr17385045671753DRB1-0467GEAAIETQSSSSEEI1025
PML-RARAchr1574325754chr17385045671753DRB1-0467AGEAAIETQSSSSEE924

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Fusion breakpoint peptide structures of PML-RARA

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
590ASGAGEAAIETQSSPMLRARAchr1574325754chr17385045671753
File nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
6066MWLLNKHLLNHPIEPMLRARAchr1574325755chr17385045664243

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of PML-RARA

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-B14:023BVN590ASGAGEAAIETQSS-6.23506-6.24706
HLA-B14:023BVN590ASGAGEAAIETQSS-5.50122-7.81902
HLA-B52:013W39590ASGAGEAAIETQSS-7.72469-7.73669
HLA-B52:013W39590ASGAGEAAIETQSS-4.59441-6.91221
HLA-B18:014JQV590ASGAGEAAIETQSS-6.47359-6.48559
HLA-B18:014JQV590ASGAGEAAIETQSS-2.60931-4.92711
HLA-A24:025HGA590ASGAGEAAIETQSS-6.28304-6.29504
HLA-A24:025HGA590ASGAGEAAIETQSS-5.64081-7.95861
HLA-B27:036PZ5590ASGAGEAAIETQSS-5.27698-7.59478
HLA-B44:053DX8590ASGAGEAAIETQSS-5.41918-7.73698
HLA-B44:053DX8590ASGAGEAAIETQSS-4.06812-4.08012
HLA-B14:023BVN6066MWLLNKHLLNHPIE-6.07233-6.07953
HLA-B52:013W396066MWLLNKHLLNHPIE-5.45645-5.46365
HLA-A24:025HGA6066MWLLNKHLLNHPIE-3.85827-3.86547
HLA-B44:053DX86066MWLLNKHLLNHPIE-4.76301-4.77021

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Vaccine Design for the FusionNeoAntigens of PML-RARA

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
PML-RARAchr1574325754chr17385045671019GEAAIETQSGGGAGGCAGCCATTGAGACCCAGAGCA
PML-RARAchr1574325754chr1738504567314NHVASGAGEAAACCACGTGGCCAGTGGCGCCGGGGAGGCAGCCA
PML-RARAchr1574325755chr17385045661019NKHLLNHPITGAACCATCCCATTGAGACCCAGAGCA
PML-RARAchr1574325755chr17385045661221HLLNHPIETATCCCATTGAGACCCAGAGCAGCAGTT
PML-RARAchr1574325755chr1738504566615MWLLNKHLLATAAACACTTGTTGAACCATCCCATTG
PML-RARAchr1574325755chr1738504566715WLLNKHLLAACACTTGTTGAACCATCCCATTG

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
PML-RARAchr1574315748chr17385045671025QGKAIETQSSSSEEIAGGGGAAAGCCATTGAGACCCAGAGCAGCAGTTCTGAAGAGATAG
PML-RARAchr1574315748chr17385045671126GKAIETQSSSSEEIVGGAAAGCCATTGAGACCCAGAGCAGCAGTTCTGAAGAGATAGTGC
PML-RARAchr1574315748chr1738504567924TQGKAIETQSSSSEECCCAGGGGAAAGCCATTGAGACCCAGAGCAGCAGTTCTGAAGAGA
PML-RARAchr1574325754chr17385045671025GEAAIETQSSSSEEIGGGAGGCAGCCATTGAGACCCAGAGCAGCAGTTCTGAAGAGATAG
PML-RARAchr1574325754chr17385045671126EAAIETQSSSSEEIVAGGCAGCCATTGAGACCCAGAGCAGCAGTTCTGAAGAGATAGTGC
PML-RARAchr1574325754chr1738504567924AGEAAIETQSSSSEECCGGGGAGGCAGCCATTGAGACCCAGAGCAGCAGTTCTGAAGAGA

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Information of the samples that have these potential fusion neoantigens of PML-RARA

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
LAMLPML-RARAchr1574325754ENST00000268058chr1738504567ENST00000254066TCGA-AB-2862-03A
N/APML-RARAchr1574325755ENST00000563500chr1738504566ENST00000254066S50916

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Potential target of CAR-T therapy development for PML-RARA

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 PML-RARA

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

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Related Diseases to PML-RARA

check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID
PMLRARAAcute Myeloid LeukemiaMyCancerGenome
PMLRARABreast Invasive Ductal CarcinomaMyCancerGenome
PMLRARAInvasive Breast CarcinomaMyCancerGenome
PMLRARALung AdenocarcinomaMyCancerGenome
PMLRARAEsophageal AdenocarcinomaMyCancerGenome

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePMLC0023487Acute Promyelocytic Leukemia21CTD_human;ORPHANET
HgenePMLC0014518Toxic Epidermal Necrolysis1CTD_human
HgenePMLC0017636Glioblastoma1CTD_human
HgenePMLC0019207Hepatoma, Morris1CTD_human
HgenePMLC0019208Hepatoma, Novikoff1CTD_human
HgenePMLC0023904Liver Neoplasms, Experimental1CTD_human
HgenePMLC0027627Neoplasm Metastasis1CTD_human
HgenePMLC0029401Osteitis Deformans1CTD_human
HgenePMLC0033578Prostatic Neoplasms1CTD_human
HgenePMLC0036341Schizophrenia1CTD_human
HgenePMLC0038325Stevens-Johnson Syndrome1CTD_human
HgenePMLC0085183Neoplasms, Second Primary1CTD_human
HgenePMLC0086404Experimental Hepatoma1CTD_human
HgenePMLC0086696Neoplasms, Therapy-Associated1CTD_human
HgenePMLC0334588Giant Cell Glioblastoma1CTD_human
HgenePMLC0376358Malignant neoplasm of prostate1CTD_human
HgenePMLC0877578Treatment related secondary malignancy1CTD_human
HgenePMLC1274933Drug-Induced Stevens Johnson Syndrome1CTD_human
HgenePMLC1621958Glioblastoma Multiforme1CTD_human
HgenePMLC3658301Mycoplasma-Induced Stevens-Johnson Syndrome1CTD_human
HgenePMLC3658302Stevens-Johnson Syndrome Toxic Epidermal Necrolysis Spectrum1CTD_human
TgeneRARAC0023487Acute Promyelocytic Leukemia24CTD_human;ORPHANET
TgeneRARAC0036341Schizophrenia3PSYGENET
TgeneRARAC0006142Malignant neoplasm of breast1CTD_human
TgeneRARAC0009363Congenital ocular coloboma (disorder)1GENOMICS_ENGLAND
TgeneRARAC0010701Phyllodes Tumor1CTD_human
TgeneRARAC0085183Neoplasms, Second Primary1CTD_human
TgeneRARAC0086696Neoplasms, Therapy-Associated1CTD_human
TgeneRARAC0149940Sciatic Neuropathy1CTD_human
TgeneRARAC0154748Lesion of Sciatic Nerve1CTD_human
TgeneRARAC0206650Fibroadenoma1CTD_human
TgeneRARAC0242013Sciatic Neuritis1CTD_human
TgeneRARAC0525045Mood Disorders1PSYGENET
TgeneRARAC0600066Malignant Cystosarcoma Phyllodes1CTD_human
TgeneRARAC0678222Breast Carcinoma1CTD_human
TgeneRARAC0751924Neuralgia-Neuritis, Sciatic Nerve1CTD_human
TgeneRARAC0751925Sciatic Nerve Palsy1CTD_human
TgeneRARAC0877578Treatment related secondary malignancy1CTD_human
TgeneRARAC1257931Mammary Neoplasms, Human1CTD_human
TgeneRARAC1458155Mammary Neoplasms1CTD_human
TgeneRARAC2239176Liver carcinoma1CTD_human
TgeneRARAC4704874Mammary Carcinoma, Human1CTD_human