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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:ARID1A-SEC11A

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: ARID1A-SEC11A
FusionPDB ID: 6391
FusionGDB2.0 ID: 6391
HgeneTgene
Gene symbol

ARID1A

SEC11A

Gene ID

8289

23478

Gene nameAT-rich interaction domain 1ASEC11 homolog A, signal peptidase complex subunit
SynonymsB120|BAF250|BAF250a|BM029|C1orf4|CSS2|ELD|MRD14|OSA1|P270|SMARCF1|hELD|hOSA11810012E07Rik|SEC11L1|SPC18|SPCS4A|sid2895
Cytomap

1p36.11

15q25.2-q25.3

Type of geneprotein-codingprotein-coding
DescriptionAT-rich interactive domain-containing protein 1AARID domain-containing protein 1AAT rich interactive domain 1A (SWI-like)BRG1-associated factor 250aOSA1 nuclear proteinSWI-like proteinSWI/SNF complex protein p270SWI/SNF-related, matrix-associated, signal peptidase complex catalytic subunit SEC11ASEC11-like protein 1SPase 18 kDa subunitendopeptidase SP18microsomal signal peptidase 18 kDa subunitsignal peptidase complex (18kD)signal peptidase complex 18
Modification date2020032920200313
UniProtAcc

O14497

.
Ensembl transtripts involved in fusion geneENST idsENST00000324856, ENST00000374152, 
ENST00000457599, ENST00000540690, 
ENST00000455959, ENST00000268220, 
ENST00000558134, ENST00000560266, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score29 X 19 X 15=82654 X 4 X 3=48
# samples 454
** MAII scorelog2(45/8265*10)=-4.19901791296264
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
Context (manual curation of fusion genes in FusionPDB)

PubMed: ARID1A [Title/Abstract] AND SEC11A [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)ARID1A(27094490)-SEC11A(85234875), # samples:2
Anticipated loss of major functional domain due to fusion event.ARID1A-SEC11A 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.
ARID1A-SEC11A 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.
ARID1A-SEC11A 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.
ARID1A-SEC11A 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.
* 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
HgeneARID1A

GO:0006337

nucleosome disassembly

8895581

HgeneARID1A

GO:0006338

chromatin remodeling

11726552

HgeneARID1A

GO:0030520

intracellular estrogen receptor signaling pathway

12200431

HgeneARID1A

GO:0030521

androgen receptor signaling pathway

12200431

HgeneARID1A

GO:0042921

glucocorticoid receptor signaling pathway

12200431

HgeneARID1A

GO:0045893

positive regulation of transcription, DNA-templated

12200431


check buttonFusion gene breakpoints across ARID1A (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 SEC11A (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
ChimerDB4PRADTCGA-HC-7821-01AARID1Achr1

27094490

-SEC11Achr15

85234875

-
ChimerDB4PRADTCGA-HC-7821-01AARID1Achr1

27094490

+SEC11Achr15

85234875

-


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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)
ENST00000324856ARID1Achr127094490+ENST00000558134SEC11Achr1585234875-4475356937140751234
ENST00000324856ARID1Achr127094490+ENST00000560266SEC11Achr1585234875-4571356937140121213
ENST00000324856ARID1Achr127094490+ENST00000268220SEC11Achr1585234875-4533356937140571228
ENST00000457599ARID1Achr127094490+ENST00000558134SEC11Achr1585234875-41043198037041234
ENST00000457599ARID1Achr127094490+ENST00000560266SEC11Achr1585234875-42003198036411213
ENST00000457599ARID1Achr127094490+ENST00000268220SEC11Achr1585234875-41623198036861228
ENST00000374152ARID1Achr127094490+ENST00000558134SEC11Achr1585234875-323823322832838851
ENST00000374152ARID1Achr127094490+ENST00000560266SEC11Achr1585234875-333423322832775830
ENST00000374152ARID1Achr127094490+ENST00000268220SEC11Achr1585234875-329623322832820845

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
ENST00000324856ENST00000558134ARID1Achr127094490+SEC11Achr1585234875-0.0061920980.99380785
ENST00000324856ENST00000560266ARID1Achr127094490+SEC11Achr1585234875-0.0080488810.9919511
ENST00000324856ENST00000268220ARID1Achr127094490+SEC11Achr1585234875-0.0060960190.99390393
ENST00000457599ENST00000558134ARID1Achr127094490+SEC11Achr1585234875-0.0044504160.99554956
ENST00000457599ENST00000560266ARID1Achr127094490+SEC11Achr1585234875-0.0057749410.9942251
ENST00000457599ENST00000268220ARID1Achr127094490+SEC11Achr1585234875-0.0044003740.9955996
ENST00000374152ENST00000558134ARID1Achr127094490+SEC11Achr1585234875-0.0082001860.9917998
ENST00000374152ENST00000560266ARID1Achr127094490+SEC11Achr1585234875-0.0070989830.9929011
ENST00000374152ENST00000268220ARID1Achr127094490+SEC11Achr1585234875-0.0072744010.9927256

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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

>6391_6391_1_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000324856_SEC11A_chr15_85234875_ENST00000268220_length(amino acids)=1228AA_BP=1065
MAAQVAPAAASSLGNPPPPPPSELKKAEQQQREEAGGEAAAAAAAERGEMKAAAGQESEGPAVGPPQPLGKELQDGAESNGGGGGGGAGS
GGGPGAEPDLKNSNGNAGPRPALNNNLTEPPGGGGGGSSDGVGAPPHSAAAALPPPAYGFGQPYGRSPSAVAAAAAAVFHQQHGGQQSPG
LAALQSGGGGGLEPYAGPQQNSHDHGFPNHQYNSYYPNRSAYPPPAPAYALSSPRGGTPGSGAAAAAGSKPPPSSSASASSSSSSFAQQR
FGAMGGGGPSAAGGGTPQPTATPTLNQLLTSPSSARGYQGYPGGDYSGGPQDGGAGKGPADMASQCWGAAAAAAAAAAASGGAQQRSHHA
PMSPGSSGGGGQPLARTPQPSSPMDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQ
IPPYGQQGPSGYGQQGQTPYYNQQSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQST
TQQHPQSQPPYSQPQAQSPYQQQQPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNL
SLQSRPSSLPDLSGSIDDLPMGTEGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVP
GNQMPPRPPSGQSDSIMHPSMNQSSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYP
RQPNYNALPNANYPSAGMAGGINPMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVA
MHVAANSIQNRPPGYPNMNQGGMMGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPK
TESKSKKSSSSTTTNEKITKLYELGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSS
ALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVD

--------------------------------------------------------------

>6391_6391_2_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000324856_SEC11A_chr15_85234875_ENST00000558134_length(amino acids)=1234AA_BP=1065
MAAQVAPAAASSLGNPPPPPPSELKKAEQQQREEAGGEAAAAAAAERGEMKAAAGQESEGPAVGPPQPLGKELQDGAESNGGGGGGGAGS
GGGPGAEPDLKNSNGNAGPRPALNNNLTEPPGGGGGGSSDGVGAPPHSAAAALPPPAYGFGQPYGRSPSAVAAAAAAVFHQQHGGQQSPG
LAALQSGGGGGLEPYAGPQQNSHDHGFPNHQYNSYYPNRSAYPPPAPAYALSSPRGGTPGSGAAAAAGSKPPPSSSASASSSSSSFAQQR
FGAMGGGGPSAAGGGTPQPTATPTLNQLLTSPSSARGYQGYPGGDYSGGPQDGGAGKGPADMASQCWGAAAAAAAAAAASGGAQQRSHHA
PMSPGSSGGGGQPLARTPQPSSPMDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQ
IPPYGQQGPSGYGQQGQTPYYNQQSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQST
TQQHPQSQPPYSQPQAQSPYQQQQPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNL
SLQSRPSSLPDLSGSIDDLPMGTEGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVP
GNQMPPRPPSGQSDSIMHPSMNQSSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYP
RQPNYNALPNANYPSAGMAGGINPMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVA
MHVAANSIQNRPPGYPNMNQGGMMGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPK
TESKSKKSSSSTTTNEKITKLYELGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSS
ALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVD

--------------------------------------------------------------

>6391_6391_3_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000324856_SEC11A_chr15_85234875_ENST00000560266_length(amino acids)=1213AA_BP=1065
MAAQVAPAAASSLGNPPPPPPSELKKAEQQQREEAGGEAAAAAAAERGEMKAAAGQESEGPAVGPPQPLGKELQDGAESNGGGGGGGAGS
GGGPGAEPDLKNSNGNAGPRPALNNNLTEPPGGGGGGSSDGVGAPPHSAAAALPPPAYGFGQPYGRSPSAVAAAAAAVFHQQHGGQQSPG
LAALQSGGGGGLEPYAGPQQNSHDHGFPNHQYNSYYPNRSAYPPPAPAYALSSPRGGTPGSGAAAAAGSKPPPSSSASASSSSSSFAQQR
FGAMGGGGPSAAGGGTPQPTATPTLNQLLTSPSSARGYQGYPGGDYSGGPQDGGAGKGPADMASQCWGAAAAAAAAAAASGGAQQRSHHA
PMSPGSSGGGGQPLARTPQPSSPMDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQ
IPPYGQQGPSGYGQQGQTPYYNQQSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQST
TQQHPQSQPPYSQPQAQSPYQQQQPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNL
SLQSRPSSLPDLSGSIDDLPMGTEGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVP
GNQMPPRPPSGQSDSIMHPSMNQSSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYP
RQPNYNALPNANYPSAGMAGGINPMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVA
MHVAANSIQNRPPGYPNMNQGGMMGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPK
TESKSKKSSSSTTTNEKITKLYELGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSS
ALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVD

--------------------------------------------------------------

>6391_6391_4_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000374152_SEC11A_chr15_85234875_ENST00000268220_length(amino acids)=845AA_BP=682
MDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQIPPYGQQGPSGYGQQGQTPYYNQ
QSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQSTTQQHPQSQPPYSQPQAQSPYQQQ
QPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNLSLQSRPSSLPDLSGSIDDLPMGT
EGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVPGNQMPPRPPSGQSDSIMHPSMNQ
SSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYPRQPNYNALPNANYPSAGMAGGIN
PMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVAMHVAANSIQNRPPGYPNMNQGGM
MGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPKTESKSKKSSSSTTTNEKITKLYE
LGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSSALMIWKGLMVITGSESPIVVVLS
GSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVDDRGLYKQGQHWLEKKDVVGRARG

--------------------------------------------------------------

>6391_6391_5_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000374152_SEC11A_chr15_85234875_ENST00000558134_length(amino acids)=851AA_BP=682
MDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQIPPYGQQGPSGYGQQGQTPYYNQ
QSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQSTTQQHPQSQPPYSQPQAQSPYQQQ
QPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNLSLQSRPSSLPDLSGSIDDLPMGT
EGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVPGNQMPPRPPSGQSDSIMHPSMNQ
SSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYPRQPNYNALPNANYPSAGMAGGIN
PMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVAMHVAANSIQNRPPGYPNMNQGGM
MGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPKTESKSKKSSSSTTTNEKITKLYE
LGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSSALMIWKGLMVITGSESPIVVVLS
GSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVDDRGLYKQGQHWLEKKDVVGRARG

--------------------------------------------------------------

>6391_6391_6_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000374152_SEC11A_chr15_85234875_ENST00000560266_length(amino acids)=830AA_BP=682
MDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQIPPYGQQGPSGYGQQGQTPYYNQ
QSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQSTTQQHPQSQPPYSQPQAQSPYQQQ
QPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNLSLQSRPSSLPDLSGSIDDLPMGT
EGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVPGNQMPPRPPSGQSDSIMHPSMNQ
SSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYPRQPNYNALPNANYPSAGMAGGIN
PMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVAMHVAANSIQNRPPGYPNMNQGGM
MGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPKTESKSKKSSSSTTTNEKITKLYE
LGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSSALMIWKGLMVITGSESPIVVVLS
GSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVDDRGLYKQGQHWLEKKDVVGRARG

--------------------------------------------------------------

>6391_6391_7_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000457599_SEC11A_chr15_85234875_ENST00000268220_length(amino acids)=1228AA_BP=1065
MAAQVAPAAASSLGNPPPPPPSELKKAEQQQREEAGGEAAAAAAAERGEMKAAAGQESEGPAVGPPQPLGKELQDGAESNGGGGGGGAGS
GGGPGAEPDLKNSNGNAGPRPALNNNLTEPPGGGGGGSSDGVGAPPHSAAAALPPPAYGFGQPYGRSPSAVAAAAAAVFHQQHGGQQSPG
LAALQSGGGGGLEPYAGPQQNSHDHGFPNHQYNSYYPNRSAYPPPAPAYALSSPRGGTPGSGAAAAAGSKPPPSSSASASSSSSSFAQQR
FGAMGGGGPSAAGGGTPQPTATPTLNQLLTSPSSARGYQGYPGGDYSGGPQDGGAGKGPADMASQCWGAAAAAAAAAAASGGAQQRSHHA
PMSPGSSGGGGQPLARTPQPSSPMDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQ
IPPYGQQGPSGYGQQGQTPYYNQQSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQST
TQQHPQSQPPYSQPQAQSPYQQQQPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNL
SLQSRPSSLPDLSGSIDDLPMGTEGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVP
GNQMPPRPPSGQSDSIMHPSMNQSSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYP
RQPNYNALPNANYPSAGMAGGINPMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVA
MHVAANSIQNRPPGYPNMNQGGMMGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPK
TESKSKKSSSSTTTNEKITKLYELGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSS
ALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVD

--------------------------------------------------------------

>6391_6391_8_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000457599_SEC11A_chr15_85234875_ENST00000558134_length(amino acids)=1234AA_BP=1065
MAAQVAPAAASSLGNPPPPPPSELKKAEQQQREEAGGEAAAAAAAERGEMKAAAGQESEGPAVGPPQPLGKELQDGAESNGGGGGGGAGS
GGGPGAEPDLKNSNGNAGPRPALNNNLTEPPGGGGGGSSDGVGAPPHSAAAALPPPAYGFGQPYGRSPSAVAAAAAAVFHQQHGGQQSPG
LAALQSGGGGGLEPYAGPQQNSHDHGFPNHQYNSYYPNRSAYPPPAPAYALSSPRGGTPGSGAAAAAGSKPPPSSSASASSSSSSFAQQR
FGAMGGGGPSAAGGGTPQPTATPTLNQLLTSPSSARGYQGYPGGDYSGGPQDGGAGKGPADMASQCWGAAAAAAAAAAASGGAQQRSHHA
PMSPGSSGGGGQPLARTPQPSSPMDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQ
IPPYGQQGPSGYGQQGQTPYYNQQSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQST
TQQHPQSQPPYSQPQAQSPYQQQQPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNL
SLQSRPSSLPDLSGSIDDLPMGTEGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVP
GNQMPPRPPSGQSDSIMHPSMNQSSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYP
RQPNYNALPNANYPSAGMAGGINPMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVA
MHVAANSIQNRPPGYPNMNQGGMMGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPK
TESKSKKSSSSTTTNEKITKLYELGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSS
ALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVD

--------------------------------------------------------------

>6391_6391_9_ARID1A-SEC11A_ARID1A_chr1_27094490_ENST00000457599_SEC11A_chr15_85234875_ENST00000560266_length(amino acids)=1213AA_BP=1065
MAAQVAPAAASSLGNPPPPPPSELKKAEQQQREEAGGEAAAAAAAERGEMKAAAGQESEGPAVGPPQPLGKELQDGAESNGGGGGGGAGS
GGGPGAEPDLKNSNGNAGPRPALNNNLTEPPGGGGGGSSDGVGAPPHSAAAALPPPAYGFGQPYGRSPSAVAAAAAAVFHQQHGGQQSPG
LAALQSGGGGGLEPYAGPQQNSHDHGFPNHQYNSYYPNRSAYPPPAPAYALSSPRGGTPGSGAAAAAGSKPPPSSSASASSSSSSFAQQR
FGAMGGGGPSAAGGGTPQPTATPTLNQLLTSPSSARGYQGYPGGDYSGGPQDGGAGKGPADMASQCWGAAAAAAAAAAASGGAQQRSHHA
PMSPGSSGGGGQPLARTPQPSSPMDQMGKMRPQPYGGTNPYSQQQGPPSGPQQGHGYPGQPYGSQTPQRYPMTMQGRAQSAMGGLSYTQQ
IPPYGQQGPSGYGQQGQTPYYNQQSPHPQQQQPPYSQQPPSQTPHAQPSYQQQPQSQPPQLQSSQPPYSQQPSQPPHQQSPAPYPSQQST
TQQHPQSQPPYSQPQAQSPYQQQQPQQPAPSTLSQQAAYPQPQSQQSQQTAYSQQRFPPPQELSQDSFGSQASSAPSMTSSKGGQEDMNL
SLQSRPSSLPDLSGSIDDLPMGTEGALSPGVSTSGISSSQGEQSNPAQSPFSPHTSPHLPGIRGPSPSPVGSPASVAQSRSGPLSPAAVP
GNQMPPRPPSGQSDSIMHPSMNQSSIAQDRGYMQRNPQMPQYSSPQPGSALSPRQPSGGQIHTGMGSYQQNSMGSYGPQGGQYGPQGGYP
RQPNYNALPNANYPSAGMAGGINPMGAGGQMHGQPGIPPYGTLPPGRMSHASMGNRPYGPNMANMPPQVGSGMCPPPGGMNRKTQETAVA
MHVAANSIQNRPPGYPNMNQGGMMGTGPPYGQGINSMAGMINPQGPPYSMGGTMANNSAGMAASPEMMGLGDVKLTPATKMNNKADGTPK
TESKSKKSSSSTTTNEKITKLYELGGEPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQLYYQVLNFGMIVSS
ALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVD

--------------------------------------------------------------

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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/chr1:27094490/chr15:85234875)
- 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
ARID1A

O14497

.
FUNCTION: Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Component of SWI/SNF chromatin remodeling complexes that carry out key enzymatic activities, changing chromatin structure by altering DNA-histone contacts within a nucleosome in an ATP-dependent manner. Binds DNA non-specifically. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a postmitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to postmitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity). {ECO:0000250|UniProtKB:A2BH40, ECO:0000303|PubMed:12672490, ECO:0000303|PubMed:22952240, ECO:0000303|PubMed:26601204}.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+1120479_4821066.02286.0Compositional biasNote=Poly-Gln
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+1120561_5671066.02286.0Compositional biasNote=Poly-Gln
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+1120998_10011066.02286.0Compositional biasNote=Poly-Ser
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+1019479_482683.01903.0Compositional biasNote=Poly-Gln
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+1019561_567683.01903.0Compositional biasNote=Poly-Gln
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+1120479_4821066.02069.0Compositional biasNote=Poly-Gln
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+1120561_5671066.02069.0Compositional biasNote=Poly-Gln
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+1120998_10011066.02069.0Compositional biasNote=Poly-Ser
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+1120295_2991066.02286.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+1019295_299683.01903.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+1120295_2991066.02069.0MotifNote=LXXLL
TgeneSEC11Achr1:27094490chr15:85234875ENST000002682200637_17917.0180.0Topological domainLumenal
TgeneSEC11Achr1:27094490chr15:85234875ENST000002682200617_3617.0180.0TransmembraneHelical%3B Signal-anchor for type II membrane protein

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+11201327_14041066.02286.0Compositional biasNote=Gln-rich
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+10191327_1404683.01903.0Compositional biasNote=Gln-rich
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+1019998_1001683.01903.0Compositional biasNote=Poly-Ser
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+11201327_14041066.02069.0Compositional biasNote=Gln-rich
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+11201017_11081066.02286.0DomainARID
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+10191017_1108683.01903.0DomainARID
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+11201017_11081066.02069.0DomainARID
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+11201368_13871066.02286.0MotifNuclear localization signal
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+11201709_17131066.02286.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+11201967_19711066.02286.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000324856+11202085_20891066.02286.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+10191368_1387683.01903.0MotifNuclear localization signal
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+10191709_1713683.01903.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+10191967_1971683.01903.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000374152+10192085_2089683.01903.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+11201368_13871066.02069.0MotifNuclear localization signal
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+11201709_17131066.02069.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+11201967_19711066.02069.0MotifNote=LXXLL
HgeneARID1Achr1:27094490chr15:85234875ENST00000457599+11202085_20891066.02069.0MotifNote=LXXLL
TgeneSEC11Achr1:27094490chr15:85234875ENST00000268220061_1617.0180.0Topological domainCytoplasmic


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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
ARID1AKLF1, GATA1, SMARCB1, SMARCA4, SMARCA2, ING1, SMARCE1, PBRM1, SMARCC2, SMARCC1, PGR, BCL7C, HIC1, CUL2, tat, ARID1B, SMAD2, SMAD3, CARM1, ADNP, RARA, Bcl7b, SOX2, CHD7, SMARCD1, TP53, ELAVL1, SIRT7, TFAP4, CUL3, SMARCD2, ACTL6A, SMARCD3, PHF10, ECT2, YAP1, ITCH, NEDD4, SHMT2, MOV10, NXF1, EED, DPF3, DPF2, SS18, UNK, BCL7A, BCL7B, ESR1, NCOA1, RARB, RARG, EWSR1, Bcl7c, Smarcc1, SNW1, CDC5L, CUL1, SKP1, NFATC1, NFATC2, TOP1, CHEK1, VHL, EYA2, NR3C1, AR, ALDH2, TRIM25, HNRNPL, PDCD6, RMND5A, EZH2, CHD3, CHD4, RUNX1, TNRC6A, RTF1, RBBP7, RUVBL1, MYC, FUS, HIST1H4A, HIST1H2AB, TAF15, DDIT3, FLI1, TP53BP1, BRCA1, MDC1, KIAA1429, ACTC1, ZBTB7A, H2AFX, H2AFY, CTCF, BTRC, WWP2, PLEKHA4, nsp10, ALG13, SMG7, SUPT5H, PRC1, C18orf8, SS18L1, BRD7, DPF1, ARID2, BRD9, GLTSCR1, STK11IP, ASF1A, NUP50, TERF2IP, ATG7, TEX13B, SS18L2, SIRT6, T, ELF5, ERG, ETS1, ETV4, FEV, FOS, FOXI1, GATA2, GATA3, GCM1, HNF1B, HNF4A, IRF1, IRF4, KLF3, KLF4, KLF5, LHX1, LHX2, LHX3, LHX4, MYOD1, NFIA, NFIB, NFIC, NFIX, PAX6, PAX7, PAX8, PAX9, SOX10, SOX15, SOX17, SOX9, SP7, TBR1, TEAD1, TLX1, TLX2, TLX3, BRD3,


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
ARID1Aall structure
SEC11A


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 ARID1A-SEC11A


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 ARID1A-SEC11A


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
HgeneARID1AC0024623Malignant neoplasm of stomach3CTD_human
HgeneARID1AC0038356Stomach Neoplasms3CTD_human
HgeneARID1AC1708349Hereditary Diffuse Gastric Cancer3CTD_human
HgeneARID1AC2239176Liver carcinoma3CTD_human
HgeneARID1AC0033578Prostatic Neoplasms2CTD_human
HgeneARID1AC0376358Malignant neoplasm of prostate2CTD_human
HgeneARID1AC0001418Adenocarcinoma1CTD_human
HgeneARID1AC0005684Malignant neoplasm of urinary bladder1CTD_human
HgeneARID1AC0005695Bladder Neoplasm1CTD_human
HgeneARID1AC0006413Burkitt Lymphoma1CTD_human
HgeneARID1AC0007138Carcinoma, Transitional Cell1CTD_human
HgeneARID1AC0009402Colorectal Carcinoma1CTD_human
HgeneARID1AC0009404Colorectal Neoplasms1CTD_human
HgeneARID1AC0010606Adenoid Cystic Carcinoma1CTD_human
HgeneARID1AC0014170Endometrial Neoplasms1CTD_human
HgeneARID1AC0027708Nephroblastoma1CTD_human
HgeneARID1AC0027819Neuroblastoma1CTD_human
HgeneARID1AC0036920Sezary Syndrome1CTD_human
HgeneARID1AC0079772T-Cell Lymphoma1CTD_human
HgeneARID1AC0079773Lymphoma, T-Cell, Cutaneous1CTD_human
HgeneARID1AC0205641Adenocarcinoma, Basal Cell1CTD_human
HgeneARID1AC0205642Adenocarcinoma, Oxyphilic1CTD_human
HgeneARID1AC0205643Carcinoma, Cribriform1CTD_human
HgeneARID1AC0205644Carcinoma, Granular Cell1CTD_human
HgeneARID1AC0205645Adenocarcinoma, Tubular1CTD_human
HgeneARID1AC0206656Embryonal Rhabdomyosarcoma1CTD_human
HgeneARID1AC0206698Cholangiocarcinoma1CTD_human
HgeneARID1AC0265338Coffin-Siris syndrome1CTD_human;GENOMICS_ENGLAND
HgeneARID1AC0279628Adenocarcinoma Of Esophagus1CTD_human
HgeneARID1AC0343640African Burkitt's lymphoma1CTD_human
HgeneARID1AC0345905Intrahepatic Cholangiocarcinoma1CTD_human
HgeneARID1AC0376407Granulomatous Slack Skin1CTD_human
HgeneARID1AC0476089Endometrial Carcinoma1CTD_human
HgeneARID1AC0920269Microsatellite Instability1CTD_human
HgeneARID1AC1721098Replication Error Phenotype1CTD_human
HgeneARID1AC2930471Bilateral Wilms Tumor1CTD_human
HgeneARID1AC2931822Nasopharyngeal carcinoma1CTD_human
HgeneARID1AC3805278Extrahepatic Cholangiocarcinoma1CTD_human
HgeneARID1AC4721444Burkitt Leukemia1CTD_human