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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:BCOR-RARA

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: BCOR-RARA
FusionPDB ID: 9499
FusionGDB2.0 ID: 9499
HgeneTgene
Gene symbol

BCOR

RARA

Gene ID

54880

5914

Gene nameBCL6 corepressorretinoic acid receptor alpha
SynonymsANOP2|MAA2|MCOPS2NR1B1|RAR
Cytomap

Xp11.4

17q21.2

Type of geneprotein-codingprotein-coding
DescriptionBCL-6 corepressorBCL-6 coreceptorBCL-6 interacting corepressorBCL6 interacting corepressorretinoic 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 date2020032820200327
UniProtAcc

Q5H9F3

P10276

Ensembl transtripts involved in fusion geneENST idsENST00000342274, ENST00000378444, 
ENST00000378455, ENST00000378463, 
ENST00000397354, 		ENST00000394081, 
ENST00000394086, ENST00000420042, 
ENST00000425707, ENST00000254066, 
ENST00000394089, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score11 X 15 X 7=115529 X 39 X 17=19227
# samples 1255
** MAII scorelog2(12/1155*10)=-3.2667865406949
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
Context (manual curation of fusion genes in FusionPDB)

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

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)BCOR(39937182)-RARA(38504566), # samples:1
BCOR(39914621)-RARA(38504566), # samples:1
Anticipated loss of major functional domain due to fusion event.BCOR-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.
BCOR-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.
BCOR-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.
BCOR-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.
BCOR-RARA seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
BCOR-RARA seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF.
BCOR-RARA seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
BCOR-RARA seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
BCOR-RARA seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor due to the frame-shifted ORF.
BCOR-RARA seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
BCOR-RARA seems lost the major protein functional domain in Tgene partner, which is a transcription factor due to the frame-shifted ORF.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneBCOR

GO:0035518

histone H2A monoubiquitination

16943429

HgeneBCOR

GO:0045892

negative regulation of transcription, DNA-templated

10898795

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 buttonFusion gene breakpoints across BCOR (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


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4acute myeloid leukemiaHM597846BCORchrX

39937182

RARAchr17

38504566
ChimerKB4..BCORchrX

39914766

-RARAchr17

39914766

+
ChiTaRS5.0N/AHM597846BCORchrX

39914621

-RARAchr17

38504566

+


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Fusion ORF Analysis


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)
ENST00000397354BCORchrX39914621-ENST00000254066RARAchr1738504566+6649486822960781949
ENST00000397354BCORchrX39914621-ENST00000394089RARAchr1738504566+6184486822960781949
ENST00000378444BCORchrX39914621-ENST00000254066RARAchr1738504566+6751497022961801983
ENST00000378444BCORchrX39914621-ENST00000394089RARAchr1738504566+6286497022961801983

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
ENST00000397354ENST00000254066BCORchrX39914621-RARAchr1738504566+0.0038211130.99617887
ENST00000397354ENST00000394089BCORchrX39914621-RARAchr1738504566+0.00441870.9955813
ENST00000378444ENST00000254066BCORchrX39914621-RARAchr1738504566+0.0025802810.9974197
ENST00000378444ENST00000394089BCORchrX39914621-RARAchr1738504566+0.0030057910.99699426

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>9499_9499_1_BCOR-RARA_BCOR_chrX_39914621_ENST00000378444_RARA_chr17_38504566_ENST00000254066_length(amino acids)=1983AA_BP=1580
MLSATPLYGNVHSWMNSERVRMCGASEDRKILVNDGDASKARLELREENPLNHNVVDASTAHRIDGLAALSMDRTGLIREGLRVPGNIVY
SSLCGLGSEKGREAATSTLGGLGFSSERNPEMQFKPNTPETVEASAVSGKPPNGFSAIYKTPPGIQKSAVATAEALGLDRPASDKQSPLN
INGASYLRLPWVNPYMEGATPAIYPFLDSPNKYSLNMYKALLPQQSYSLAQPLYSPVCTNGERFLYLPPPHYVGPHIPSSLASPMRLSTP
SASPAIPPLVHCADKSLPWKMGVSPGNPVDSHAYPHIQNSKQPRVPSAKAVTSGLPGDTALLLPPSPRPSPRVHLPTQPAADTYSEFHKH
YARISTSPSVALSKPYMTVSSEFPAARLSNGKYPKAPEGGEGAQPVPGHARKTAVQDRKDGSSPPLLEKQTVTKDVTDKPLDLSSKVVDV
DASKADHMKKMAPTVLVHSRAGSGLVLSGSEIPKETLSPPGNGCAIYRSEIISTAPSSWVVPGPSPNEENNGKSMSLKNKALDWAIPQQR
SSSCPRMGGTDAVITNVSGSVSSAGRPASASPAPNANADGTKTSRSSVETTPSVIQHVGQPPATPAKHSSSTSSKGAKASNPEPSFKANE
NGLPPSSIFLSPNEAFRSPPIPYPRSYLPYPAPEGIAVSPLSLHGKGPVYPHPVLLPNGSLFPGHLAPKPGLPYGLPTGRPEFVTYQDAL
GLGMVHPMLIPHTPIEITKEEKPERRSRSHERARYEDPTLRNRFSEILETSSTKLHPDVPTDKNLKPNPNWNQGKTVVKSDKLVYVDLLR
EEPDAKTDTNVSKPSFAAESVGQSAEPPKPSVEPALQQHRDFIALREELGRISDFHETYTFKQPVFTVSKDSVLAGTNKENLGLPVSTPF
LEPPLGSDGPAVTFGKTQEDPKPFCVGSAPPSVDVTPTYTKDGADEAESNDGKVLKPKPSKLAKRIANSAGYVGDRFKCVTTELYADSSQ
LSREQRALQMEGLQEDSILCLPAAYCERAMMRFSELEMKEREGGHPATKDSEMCKFSPADWERLKGNQDKKPKSVTLEEAIAEQNESERC
EYSVGNKHRDPFEAPEDKDLPVEKYFVERQPVSEPPADQVASDMPHSPTLRVDRKRKVSGDSSHTETTAEEVPEDPLLKAKRRRVSKDDW
PEREMTNSSSNHLEDPHYSELTNLKVCIELTGLHPKKQRHLLHLRERWEQQVSAADGKPGRQSRKEVTQATQPEAIPQGTNITEEKPGRK
RAEAKGNRSWSEESLKPSDNEQGLPVFSGSPPMKSLSSTSAGGKKQAQPSCAPASRPPAKQQKIKENQKTDVLCADEEEDCQAASLLQKY
TDNSEKPSGKRLCKTKHLIPQESRRGLPLTGEYYVENADGKVTVRRFRKRPEPSSDYDLSPAKQEPKPFDRLQQLLPASQSTQLPCSSSP
QETTQSRPMPPEARRLIVNKNAGETLLQRAARLGYEEVVLYCLENKICDVNHRDNAGYCALHEACARGWLNIVRHLLEYGADVNCSAQDG
TRPLHDAVENDHLEIVRLLLSYGADPTLATYSGRTIMKMTHSELMEKFLTAIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYH
YGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKKKEVPKPECSESYTLTPEVGELIE
KVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTP
EQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPS
RPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGRDGGGLAPPPGSCSPSLSPSSNRSSPAT

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>9499_9499_2_BCOR-RARA_BCOR_chrX_39914621_ENST00000378444_RARA_chr17_38504566_ENST00000394089_length(amino acids)=1983AA_BP=1580
MLSATPLYGNVHSWMNSERVRMCGASEDRKILVNDGDASKARLELREENPLNHNVVDASTAHRIDGLAALSMDRTGLIREGLRVPGNIVY
SSLCGLGSEKGREAATSTLGGLGFSSERNPEMQFKPNTPETVEASAVSGKPPNGFSAIYKTPPGIQKSAVATAEALGLDRPASDKQSPLN
INGASYLRLPWVNPYMEGATPAIYPFLDSPNKYSLNMYKALLPQQSYSLAQPLYSPVCTNGERFLYLPPPHYVGPHIPSSLASPMRLSTP
SASPAIPPLVHCADKSLPWKMGVSPGNPVDSHAYPHIQNSKQPRVPSAKAVTSGLPGDTALLLPPSPRPSPRVHLPTQPAADTYSEFHKH
YARISTSPSVALSKPYMTVSSEFPAARLSNGKYPKAPEGGEGAQPVPGHARKTAVQDRKDGSSPPLLEKQTVTKDVTDKPLDLSSKVVDV
DASKADHMKKMAPTVLVHSRAGSGLVLSGSEIPKETLSPPGNGCAIYRSEIISTAPSSWVVPGPSPNEENNGKSMSLKNKALDWAIPQQR
SSSCPRMGGTDAVITNVSGSVSSAGRPASASPAPNANADGTKTSRSSVETTPSVIQHVGQPPATPAKHSSSTSSKGAKASNPEPSFKANE
NGLPPSSIFLSPNEAFRSPPIPYPRSYLPYPAPEGIAVSPLSLHGKGPVYPHPVLLPNGSLFPGHLAPKPGLPYGLPTGRPEFVTYQDAL
GLGMVHPMLIPHTPIEITKEEKPERRSRSHERARYEDPTLRNRFSEILETSSTKLHPDVPTDKNLKPNPNWNQGKTVVKSDKLVYVDLLR
EEPDAKTDTNVSKPSFAAESVGQSAEPPKPSVEPALQQHRDFIALREELGRISDFHETYTFKQPVFTVSKDSVLAGTNKENLGLPVSTPF
LEPPLGSDGPAVTFGKTQEDPKPFCVGSAPPSVDVTPTYTKDGADEAESNDGKVLKPKPSKLAKRIANSAGYVGDRFKCVTTELYADSSQ
LSREQRALQMEGLQEDSILCLPAAYCERAMMRFSELEMKEREGGHPATKDSEMCKFSPADWERLKGNQDKKPKSVTLEEAIAEQNESERC
EYSVGNKHRDPFEAPEDKDLPVEKYFVERQPVSEPPADQVASDMPHSPTLRVDRKRKVSGDSSHTETTAEEVPEDPLLKAKRRRVSKDDW
PEREMTNSSSNHLEDPHYSELTNLKVCIELTGLHPKKQRHLLHLRERWEQQVSAADGKPGRQSRKEVTQATQPEAIPQGTNITEEKPGRK
RAEAKGNRSWSEESLKPSDNEQGLPVFSGSPPMKSLSSTSAGGKKQAQPSCAPASRPPAKQQKIKENQKTDVLCADEEEDCQAASLLQKY
TDNSEKPSGKRLCKTKHLIPQESRRGLPLTGEYYVENADGKVTVRRFRKRPEPSSDYDLSPAKQEPKPFDRLQQLLPASQSTQLPCSSSP
QETTQSRPMPPEARRLIVNKNAGETLLQRAARLGYEEVVLYCLENKICDVNHRDNAGYCALHEACARGWLNIVRHLLEYGADVNCSAQDG
TRPLHDAVENDHLEIVRLLLSYGADPTLATYSGRTIMKMTHSELMEKFLTAIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYH
YGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKKKEVPKPECSESYTLTPEVGELIE
KVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTP
EQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPS
RPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGRDGGGLAPPPGSCSPSLSPSSNRSSPAT

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>9499_9499_3_BCOR-RARA_BCOR_chrX_39914621_ENST00000397354_RARA_chr17_38504566_ENST00000254066_length(amino acids)=1949AA_BP=1546
MLSATPLYGNVHSWMNSERVRMCGASEDRKILVNDGDASKARLELREENPLNHNVVDASTAHRIDGLAALSMDRTGLIREGLRVPGNIVY
SSLCGLGSEKGREAATSTLGGLGFSSERNPEMQFKPNTPETVEASAVSGKPPNGFSAIYKTPPGIQKSAVATAEALGLDRPASDKQSPLN
INGASYLRLPWVNPYMEGATPAIYPFLDSPNKYSLNMYKALLPQQSYSLAQPLYSPVCTNGERFLYLPPPHYVGPHIPSSLASPMRLSTP
SASPAIPPLVHCADKSLPWKMGVSPGNPVDSHAYPHIQNSKQPRVPSAKAVTSGLPGDTALLLPPSPRPSPRVHLPTQPAADTYSEFHKH
YARISTSPSVALSKPYMTVSSEFPAARLSNGKYPKAPEGGEGAQPVPGHARKTAVQDRKDGSSPPLLEKQTVTKDVTDKPLDLSSKVVDV
DASKADHMKKMAPTVLVHSRAGSGLVLSGSEIPKETLSPPGNGCAIYRSEIISTAPSSWVVPGPSPNEENNGKSMSLKNKALDWAIPQQR
SSSCPRMGGTDAVITNVSGSVSSAGRPASASPAPNANADGTKTSRSSVETTPSVIQHVGQPPATPAKHSSSTSSKGAKASNPEPSFKANE
NGLPPSSIFLSPNEAFRSPPIPYPRSYLPYPAPEGIAVSPLSLHGKGPVYPHPVLLPNGSLFPGHLAPKPGLPYGLPTGRPEFVTYQDAL
GLGMVHPMLIPHTPIEITKEEKPERRSRSHERARYEDPTLRNRFSEILETSSTKLHPDVPTDKNLKPNPNWNQGKTVVKSDKLVYVDLLR
EEPDAKTDTNVSKPSFAAESVGQSAEPPKPSVEPALQQHRDFIALREELGRISDFHETYTFKQPVFTVSKDSVLAGTNKENLGLPVSTPF
LEPPLGSDGPAVTFGKTQEDPKPFCVGSAPPSVDVTPTYTKDGADEAESNDGKVLKPKPSKLAKRIANSAGYVGDRFKCVTTELYADSSQ
LSREQRALQMEGLQEDSILCLPAAYCERAMMRFSELEMKEREGGHPATKDSEMCKFSPADWERLKGNQDKKPKSVTLEEAIAEQNESERC
EYSVGNKHRDPFEAPEDKDLPVEKYFVERQPVSEPPADQVASDMPHSPTLRVDRKRKVSGDSSHTETTAEEVPEDPLLKAKRRRVSKGLH
PKKQRHLLHLRERWEQQVSAADGKPGRQSRKEVTQATQPEAIPQGTNITEEKPGRKRAEAKGNRSWSEESLKPSDNEQGLPVFSGSPPMK
SLSSTSAGGKKQAQPSCAPASRPPAKQQKIKENQKTDVLCADEEEDCQAASLLQKYTDNSEKPSGKRLCKTKHLIPQESRRGLPLTGEYY
VENADGKVTVRRFRKRPEPSSDYDLSPAKQEPKPFDRLQQLLPASQSTQLPCSSSPQETTQSRPMPPEARRLIVNKNAGETLLQRAARLG
YEEVVLYCLENKICDVNHRDNAGYCALHEACARGWLNIVRHLLEYGADVNCSAQDGTRPLHDAVENDHLEIVRLLLSYGADPTLATYSGR
TIMKMTHSELMEKFLTAIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIIN
KVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDID
LWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFA
NQLLPLEMDDAETGLLSAICLICGDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIP

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>9499_9499_4_BCOR-RARA_BCOR_chrX_39914621_ENST00000397354_RARA_chr17_38504566_ENST00000394089_length(amino acids)=1949AA_BP=1546
MLSATPLYGNVHSWMNSERVRMCGASEDRKILVNDGDASKARLELREENPLNHNVVDASTAHRIDGLAALSMDRTGLIREGLRVPGNIVY
SSLCGLGSEKGREAATSTLGGLGFSSERNPEMQFKPNTPETVEASAVSGKPPNGFSAIYKTPPGIQKSAVATAEALGLDRPASDKQSPLN
INGASYLRLPWVNPYMEGATPAIYPFLDSPNKYSLNMYKALLPQQSYSLAQPLYSPVCTNGERFLYLPPPHYVGPHIPSSLASPMRLSTP
SASPAIPPLVHCADKSLPWKMGVSPGNPVDSHAYPHIQNSKQPRVPSAKAVTSGLPGDTALLLPPSPRPSPRVHLPTQPAADTYSEFHKH
YARISTSPSVALSKPYMTVSSEFPAARLSNGKYPKAPEGGEGAQPVPGHARKTAVQDRKDGSSPPLLEKQTVTKDVTDKPLDLSSKVVDV
DASKADHMKKMAPTVLVHSRAGSGLVLSGSEIPKETLSPPGNGCAIYRSEIISTAPSSWVVPGPSPNEENNGKSMSLKNKALDWAIPQQR
SSSCPRMGGTDAVITNVSGSVSSAGRPASASPAPNANADGTKTSRSSVETTPSVIQHVGQPPATPAKHSSSTSSKGAKASNPEPSFKANE
NGLPPSSIFLSPNEAFRSPPIPYPRSYLPYPAPEGIAVSPLSLHGKGPVYPHPVLLPNGSLFPGHLAPKPGLPYGLPTGRPEFVTYQDAL
GLGMVHPMLIPHTPIEITKEEKPERRSRSHERARYEDPTLRNRFSEILETSSTKLHPDVPTDKNLKPNPNWNQGKTVVKSDKLVYVDLLR
EEPDAKTDTNVSKPSFAAESVGQSAEPPKPSVEPALQQHRDFIALREELGRISDFHETYTFKQPVFTVSKDSVLAGTNKENLGLPVSTPF
LEPPLGSDGPAVTFGKTQEDPKPFCVGSAPPSVDVTPTYTKDGADEAESNDGKVLKPKPSKLAKRIANSAGYVGDRFKCVTTELYADSSQ
LSREQRALQMEGLQEDSILCLPAAYCERAMMRFSELEMKEREGGHPATKDSEMCKFSPADWERLKGNQDKKPKSVTLEEAIAEQNESERC
EYSVGNKHRDPFEAPEDKDLPVEKYFVERQPVSEPPADQVASDMPHSPTLRVDRKRKVSGDSSHTETTAEEVPEDPLLKAKRRRVSKGLH
PKKQRHLLHLRERWEQQVSAADGKPGRQSRKEVTQATQPEAIPQGTNITEEKPGRKRAEAKGNRSWSEESLKPSDNEQGLPVFSGSPPMK
SLSSTSAGGKKQAQPSCAPASRPPAKQQKIKENQKTDVLCADEEEDCQAASLLQKYTDNSEKPSGKRLCKTKHLIPQESRRGLPLTGEYY
VENADGKVTVRRFRKRPEPSSDYDLSPAKQEPKPFDRLQQLLPASQSTQLPCSSSPQETTQSRPMPPEARRLIVNKNAGETLLQRAARLG
YEEVVLYCLENKICDVNHRDNAGYCALHEACARGWLNIVRHLLEYGADVNCSAQDGTRPLHDAVENDHLEIVRLLLSYGADPTLATYSGR
TIMKMTHSELMEKFLTAIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIIN
KVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDID
LWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFA
NQLLPLEMDDAETGLLSAICLICGDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIP

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Fusion Protein Functional Features


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/chrX:39937182/chr17:38504566)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
BCOR

Q5H9F3

RARA

P10276

FUNCTION: Transcriptional corepressor. May specifically inhibit gene expression when recruited to promoter regions by sequence-specific DNA-binding proteins such as BCL6. This repression may be mediated at least in part by histone deacetylase activities which can associate with this corepressor. {ECO:0000269|PubMed:17379597}.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}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

* Minus value of BPloci means that the break pointn is located before the CDS.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneBCORchrX:39914621chr17:38504566ENST00000342274-1215634_7111546.33333333333331722.0Compositional biasNote=Pro-rich
HgeneBCORchrX:39914621chr17:38504566ENST00000378444-1215634_7111580.33333333333331756.0Compositional biasNote=Pro-rich
HgeneBCORchrX:39914621chr17:38504566ENST00000378455-1114634_7111528.33333333333331704.0Compositional biasNote=Pro-rich
HgeneBCORchrX:39914621chr17:38504566ENST00000397354-1215634_7111546.33333333333331722.0Compositional biasNote=Pro-rich
HgeneBCORchrX:39914621chr17:38504566ENST00000342274-12151462_14951546.33333333333331722.0RepeatNote=ANK 1
HgeneBCORchrX:39914621chr17:38504566ENST00000342274-12151496_15251546.33333333333331722.0RepeatNote=ANK 2
HgeneBCORchrX:39914621chr17:38504566ENST00000378444-12151462_14951580.33333333333331756.0RepeatNote=ANK 1
HgeneBCORchrX:39914621chr17:38504566ENST00000378444-12151496_15251580.33333333333331756.0RepeatNote=ANK 2
HgeneBCORchrX:39914621chr17:38504566ENST00000378444-12151529_15581580.33333333333331756.0RepeatNote=ANK 3
HgeneBCORchrX:39914621chr17:38504566ENST00000378455-11141462_14951528.33333333333331704.0RepeatNote=ANK 1
HgeneBCORchrX:39914621chr17:38504566ENST00000378455-11141496_15251528.33333333333331704.0RepeatNote=ANK 2
HgeneBCORchrX:39914621chr17:38504566ENST00000397354-12151462_14951546.33333333333331722.0RepeatNote=ANK 1
HgeneBCORchrX:39914621chr17:38504566ENST00000397354-12151496_15251546.33333333333331722.0RepeatNote=ANK 2
TgeneRARAchrX:39914621chr17:38504566ENST000002540661988_15359.333333333333336463.0DNA bindingNuclear receptor
TgeneRARAchrX:39914621chr17:38504566ENST000003940810888_15354.333333333333336458.0DNA bindingNuclear receptor
TgeneRARAchrX:39914621chr17:38504566ENST000003940891988_15359.333333333333336463.0DNA bindingNuclear receptor
TgeneRARAchrX:39914621chr17:38504566ENST000004257070788_1530366.0DNA bindingNuclear receptor
TgeneRARAchrX:39914621chr17:38504566ENST0000025406619183_41759.333333333333336463.0DomainNR LBD
TgeneRARAchrX:39914621chr17:38504566ENST0000039408108183_41754.333333333333336458.0DomainNR LBD
TgeneRARAchrX:39914621chr17:38504566ENST0000039408919183_41759.333333333333336463.0DomainNR LBD
TgeneRARAchrX:39914621chr17:38504566ENST0000042570707183_4170366.0DomainNR LBD
TgeneRARAchrX:39914621chr17:38504566ENST0000025406619408_41659.333333333333336463.0Motif9aaTAD
TgeneRARAchrX:39914621chr17:38504566ENST0000039408108408_41654.333333333333336458.0Motif9aaTAD
TgeneRARAchrX:39914621chr17:38504566ENST0000039408919408_41659.333333333333336463.0Motif9aaTAD
TgeneRARAchrX:39914621chr17:38504566ENST0000042570707408_4160366.0Motif9aaTAD
TgeneRARAchrX:39914621chr17:38504566ENST0000025406619154_18259.333333333333336463.0RegionNote=Hinge
TgeneRARAchrX:39914621chr17:38504566ENST0000025406619404_41959.333333333333336463.0RegionNote=Required for binding corepressor NCOR1
TgeneRARAchrX:39914621chr17:38504566ENST0000039408108154_18254.333333333333336458.0RegionNote=Hinge
TgeneRARAchrX:39914621chr17:38504566ENST0000039408108404_41954.333333333333336458.0RegionNote=Required for binding corepressor NCOR1
TgeneRARAchrX:39914621chr17:38504566ENST0000039408919154_18259.333333333333336463.0RegionNote=Hinge
TgeneRARAchrX:39914621chr17:38504566ENST0000039408919404_41959.333333333333336463.0RegionNote=Required for binding corepressor NCOR1
TgeneRARAchrX:39914621chr17:38504566ENST0000042570707154_1820366.0RegionNote=Hinge
TgeneRARAchrX:39914621chr17:38504566ENST00000425707071_870366.0RegionNote=Modulating
TgeneRARAchrX:39914621chr17:38504566ENST0000042570707404_4190366.0RegionNote=Required for binding corepressor NCOR1
TgeneRARAchrX:39914621chr17:38504566ENST0000025406619124_14859.333333333333336463.0Zinc fingerNR C4-type
TgeneRARAchrX:39914621chr17:38504566ENST000002540661988_10859.333333333333336463.0Zinc fingerNR C4-type
TgeneRARAchrX:39914621chr17:38504566ENST0000039408108124_14854.333333333333336458.0Zinc fingerNR C4-type
TgeneRARAchrX:39914621chr17:38504566ENST000003940810888_10854.333333333333336458.0Zinc fingerNR C4-type
TgeneRARAchrX:39914621chr17:38504566ENST0000039408919124_14859.333333333333336463.0Zinc fingerNR C4-type
TgeneRARAchrX:39914621chr17:38504566ENST000003940891988_10859.333333333333336463.0Zinc fingerNR C4-type
TgeneRARAchrX:39914621chr17:38504566ENST0000042570707124_1480366.0Zinc fingerNR C4-type
TgeneRARAchrX:39914621chr17:38504566ENST000004257070788_1080366.0Zinc fingerNR C4-type

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneBCORchrX:39914621chr17:38504566ENST00000342274-12151625_16311546.33333333333331722.0Compositional biasNote=Poly-Asp
HgeneBCORchrX:39914621chr17:38504566ENST00000378444-12151625_16311580.33333333333331756.0Compositional biasNote=Poly-Asp
HgeneBCORchrX:39914621chr17:38504566ENST00000378455-11141625_16311528.33333333333331704.0Compositional biasNote=Poly-Asp
HgeneBCORchrX:39914621chr17:38504566ENST00000397354-12151625_16311546.33333333333331722.0Compositional biasNote=Poly-Asp
HgeneBCORchrX:39914621chr17:38504566ENST00000342274-12151529_15581546.33333333333331722.0RepeatNote=ANK 3
HgeneBCORchrX:39914621chr17:38504566ENST00000378455-11141529_15581528.33333333333331704.0RepeatNote=ANK 3
HgeneBCORchrX:39914621chr17:38504566ENST00000397354-12151529_15581546.33333333333331722.0RepeatNote=ANK 3
TgeneRARAchrX:39914621chr17:38504566ENST00000254066191_8759.333333333333336463.0RegionNote=Modulating
TgeneRARAchrX:39914621chr17:38504566ENST00000394081081_8754.333333333333336458.0RegionNote=Modulating
TgeneRARAchrX:39914621chr17:38504566ENST00000394089191_8759.333333333333336463.0RegionNote=Modulating


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Fusion Protein-Protein Interaction


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
BCORall structure
RARAall structure


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to BCOR-RARA


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 BCOR-RARA


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
HgeneBCORC1846265Microphthalmia, syndromic 24CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneBCORC0023487Acute Promyelocytic Leukemia2ORPHANET
HgeneBCORC0010606Adenoid Cystic Carcinoma1CTD_human
HgeneBCORC0022665Kidney Neoplasm1CTD_human
HgeneBCORC0027708Nephroblastoma1CTD_human
HgeneBCORC0029463Osteosarcoma1CTD_human
HgeneBCORC0206651Clear Cell Sarcoma of Soft Tissue1CTD_human
HgeneBCORC0206656Embryonal Rhabdomyosarcoma1CTD_human
HgeneBCORC0334488Clear cell sarcoma of kidney1ORPHANET
HgeneBCORC0740457Malignant neoplasm of kidney1CTD_human
HgeneBCORC0796016Microphthalmia, syndromic 11CTD_human;ORPHANET
HgeneBCORC2930471Bilateral Wilms Tumor1CTD_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