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	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:RBM39-WFDC13 (FusionGDB2 ID:72443)

Fusion Gene Summary for RBM39-WFDC13

Fusion gene summary

Fusion gene information	Fusion gene name: RBM39-WFDC13
	Fusion gene ID: 72443
		Hgene	Tgene
	Gene symbol	RBM39	WFDC13
	Gene ID	9584	164237
	Gene name	RNA binding motif protein 39	WAP four-disulfide core domain 13
	Synonyms	CAPER\|CAPERalpha\|FSAP59\|HCC1\|RNPC2	C20orf138\|WAP13\|dJ601O1.3
	Cytomap	20q11.22	20q13.12
	Type of gene	protein-coding	protein-coding
	Description	RNA-binding protein 39CAPER alphaRNA-binding region (RNP1, RRM) containing 2coactivator of activating protein-1 and estrogen receptorsepididymis secretory sperm binding proteinfunctional spliceosome-associated protein 59hepatocellular carcinoma prot	WAP four-disulfide core domain protein 13protease inhibitor WAP13protein WFDC13
	Modification date	20200327	20200313
	UniProtAcc	.	.
	Ensembl transtripts involved in fusion gene	ENST00000253363, ENST00000361162, ENST00000528062, ENST00000407261, ENST00000397370, ENST00000463098,	ENST00000305479,
Fusion gene scores	* DoF score	17 X 20 X 10=3400	2 X 1 X 2=4
	# samples	23	3
	** MAII score	log2(23/3400*10)=-3.88582898008069 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(3/4*10)=2.90689059560852
Context	PubMed: RBM39 [Title/Abstract] AND WFDC13 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	RBM39(34300941)-WFDC13(44333083), # samples:3
Anticipated loss of major functional domain due to fusion event.

* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner

Gene

GO ID

GO term

PubMed ID

Fusion gene breakpoints across RBM39 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across WFDC13 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	PRAD	TCGA-EJ-5514-01A	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+
ChimerDB4	PRAD	TCGA-EJ-5514	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+
ChimerDB4	PRAD	TCGA-EJ-5514-01A	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+

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Fusion Gene ORF analysis for RBM39-WFDC13

Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
In-frame	ENST00000253363	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+
In-frame	ENST00000361162	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+
In-frame	ENST00000528062	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+
In-frame	ENST00000407261	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+
intron-3CDS	ENST00000397370	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+
intron-3CDS	ENST00000463098	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000253363	RBM39	chr20	34300941	-	ENST00000305479	WFDC13	chr20	44333083	+	2374	1198	24	1391	455
ENST00000361162	RBM39	chr20	34300941	-	ENST00000305479	WFDC13	chr20	44333083	+	2735	1559	385	1752	455
ENST00000528062	RBM39	chr20	34300941	-	ENST00000305479	WFDC13	chr20	44333083	+	2595	1419	311	1612	433
ENST00000407261	RBM39	chr20	34300941	-	ENST00000305479	WFDC13	chr20	44333083	+	2751	1575	473	1768	431

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000253363	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+	0.00493387	0.99506605
ENST00000361162	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+	0.00585898	0.99414104
ENST00000528062	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+	0.003705869	0.9962941
ENST00000407261	ENST00000305479	RBM39	chr20	34300941	-	WFDC13	chr20	44333083	+	0.00871741	0.9912826

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Fusion Genomic Features for RBM39-WFDC13

FusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.

Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	1-p	p (fusion gene breakpoint)
RBM39	chr20	34300940	-	WFDC13	chr20	44333082	+	0.000465153	0.99953485
RBM39	chr20	34300940	-	WFDC13	chr20	44333082	+	0.000465153	0.99953485
RBM39	chr20	34300940	-	WFDC13	chr20	44333082	+	0.000465153	0.99953485
RBM39	chr20	34300940	-	WFDC13	chr20	44333082	+	0.000465153	0.99953485

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for RBM39-WFDC13

Go to
FGviewer for the breakpoints of chr20:34300941-chr20:44333083
.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
.	.
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.	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.

Retention 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.

- In-frame and retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000253363

41_90

391.3333333333333

531.0

Compositional bias

Note=Arg/Ser-rich (RS domain)

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000361162

41_90

391.3333333333333

525.0

Compositional bias

Note=Arg/Ser-rich (RS domain)

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000528062

41_90

369.3333333333333

509.0

Compositional bias

Note=Arg/Ser-rich (RS domain)

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000253363

153_230

391.3333333333333

531.0

Domain

RRM 1

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000253363

250_328

391.3333333333333

531.0

Domain

RRM 2

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000361162

153_230

391.3333333333333

525.0

Domain

RRM 1

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000361162

250_328

391.3333333333333

525.0

Domain

RRM 2

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000528062

153_230

369.3333333333333

509.0

Domain

RRM 1

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000528062

250_328

369.3333333333333

509.0

Domain

RRM 2

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000253363

291_355

391.3333333333333

531.0

Region

Activating domain

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000361162

291_355

391.3333333333333

525.0

Region

Activating domain

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000528062

291_355

369.3333333333333

509.0

Region

Activating domain

- In-frame and not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000253363

409_416

391.3333333333333

531.0

Compositional bias

Note=Poly-Ala

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000361162

409_416

391.3333333333333

525.0

Compositional bias

Note=Poly-Ala

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000528062

409_416

369.3333333333333

509.0

Compositional bias

Note=Poly-Ala

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000253363

445_508

391.3333333333333

531.0

Domain

RRM 3

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000361162

445_508

391.3333333333333

525.0

Domain

RRM 3

Hgene

RBM39

chr20:34300941

chr20:44333083

ENST00000528062

445_508

369.3333333333333

509.0

Domain

RRM 3

Tgene

WFDC13

chr20:34300941

chr20:44333083

ENST00000305479

24_73

29.333333333333332

348.6666666666667

Domain

Note=WAP%3B atypical

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Fusion Gene Sequence for RBM39-WFDC13

For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

>In-frame_ENST00000253363_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(transcript)=2374nt_BP=1198nt
GGCCGGAACAGGCGTTTAGAGAAAATGGCAGACGATATTGATATTGAAGCAATGCTTGAGGCTCCTTACAAGAAGGATGAGAACAAGTTG
AGCAGTGCCAACGGCCATGAAGAACGTAGCAAAAAGAGGAAAAAAAGCAAGAGCAGAAGTCGTAGTCATGAACGAAAGAGAAGCAAAAGT
AAGGAACGGAAGCGAAGTAGAGACAGAGAAAGGAAAAAGAGCAAAAGCCGTGAAAGAAAGCGAAGTAGAAGCAAAGAGAGGCGACGGAGC
CGCTCAAGAAGTCGAGATCGAAGATTTAGAGGCCGCTACAGAAGTCCTTACTCCGGACCAAAATTTAACAGTGCCATCCGAGGAAAGATT
GGGTTGCCTCATAGCATCAAATTAAGCAGACGACGTTCCCGAAGCAAAAGTCCATTCAGAAAAGACAAGAGCCCTGTGAGAGAACCTATT
GATAATTTAACTCCTGAGGAAAGAGATGCAAGGACAGTCTTCTGTATGCAGCTGGCGGCAAGAATTCGACCAAGGGATTTGGAAGAGTTT
TTCTCTACAGTAGGAAAGGTTCGAGATGTGAGGATGATTTCTGACAGAAATTCAAGACGTTCCAAAGGAATTGCTTATGTGGAGTTCGTC
GATGTTAGCTCAGTGCCTCTAGCAATAGGATTAACTGGCCAACGAGTTTTAGGCGTGCCAATCATAGTACAGGCATCACAGGCAGAAAAA
AACAGAGCTGCAGCAATGGCAAACAATTTACAAAAGGGAAGTGCTGGACCTATGAGGCTTTATGTGGGCTCATTACACTTCAACATAACT
GAAGATATGCTTCGTGGGATCTTTGAGCCTTTTGGAAGAATTGAAAGTATCCAGCTGATGATGGACAGTGAAACTGGTCGATCCAAGGGA
TATGGATTTATTACATTTTCTGACTCAGAATGTGCCAAAAAGGCTTTGGAACAACTTAATGGATTTGAACTAGCAGGAAGACCAATGAAA
GTTGGTCATGTTACTGAACGTACTGATGCTTCGAGTGCTAGTTCATTTTTGGACAGTGATGAACTGGAAAGGACTGGAATTGATTTGGGA
ACAACTGGTCGTCTTCAGTTAATGGCAAGACTTGCAGAGGGTACAGGTTTGCAGATTCCGCCAGCAGCACAGCAAGCTCTACAGATGAGT
GGCTCTTTGGCATTTGGTGCTGTGGCAGAGTATATCTTGGAACCTCCACCCTGCATATCAGCACCTGAAAACTGTACTCACCTGTGTACA
ATGCAGGAAGATTGCGAGAAAGGATTTCAGTGCTGTTCCTCCTTCTGTGGGATAGTCTGTTCATCAGAAACATTTCAAAAGCGCAACAGA
ATCAAACACAAGGGCTCAGAAGTCATCATGCCTGCCAACTGAGGCATATTTCCTAGATCATTTTGCCTCTACGATGTTTTTTCTTGGTCC
ACCTTTAGGAAGGTATTGAGAAGCAAGAAACTGGAGGCCCAATATCTAACCTGCAAATCGTTTTTGAGTTTGGCAATAAAGGCTAATCTA
CCATAAAACTCTTGAAGCTTAAGCTTTAGGTCAACACTTGCAAGAGCCCCTTCCAAAGCTCAGCACAGTTTCCTCCTGGGATGAGGAGAG
GAATCAGAAACCCCACTTTGGCATAGAGACAAGCAGCACTGTTCCAGTCCAGGGATGCTGTGTGTGCCCTGGTGGTGGTCTTAAGGACCT
ACCACATCAACATCTGGACAACCCTCACTGATTACCTGCCCTTGGTTGCACTCATCAGGCTAATTGATCCCATATTTAACCTCAAGGAGA
AATATCAACCAGACACTGCATGGCAACCTCCTTGGGGCCAGCCTTCAAGGCTTCATGGCCATATCATGAACCCAGGACAGGCACAGTGGG
GGTGGTGAGGACCTGATAGAGTTGGATCAGTGACTAAGAGGCTGCAATAAGGTGCCATGAAATCAAAATCAAAGGGCTAGAACTCTCCAA
GGTCTTGCCCCCGGCATGTAGCACCACCTGAGCCAGAAACTGCAGAGGACATGACAGTGTGGCATTACTGATAAGTTATGGAAATGGAAA
TAATCTTTCCTAAACTACCAATAATAACTTTAAATTTTTGATCAACCATGCTAGAGCAAAGATTGAATTATCCTTCTGTTCTCTCTACAG
AAATGATATAAAAACTATAGTCATAAGAAGAGACAATCAAAAATAATCAGCCATAAAATATTAAAAAGGTATTATAAAGGTATTTAAAAT
AATAATAATAAAGTGTTATTTTCCTGGGATTCATGATATTTGATATATTCGTAAGCTTTTGTTAAGTTTGTAATTTGTTGCAATTTCTTT

>In-frame_ENST00000253363_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(amino acids)=455AA_start in transcript=24_stop in transcript=1391
MADDIDIEAMLEAPYKKDENKLSSANGHEERSKKRKKSKSRSRSHERKRSKSKERKRSRDRERKKSKSRERKRSRSKERRRSRSRSRDRR
FRGRYRSPYSGPKFNSAIRGKIGLPHSIKLSRRRSRSKSPFRKDKSPVREPIDNLTPEERDARTVFCMQLAARIRPRDLEEFFSTVGKVR
DVRMISDRNSRRSKGIAYVEFVDVSSVPLAIGLTGQRVLGVPIIVQASQAEKNRAAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIF
EPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTERTDASSASSFLDSDELERTGIDLGTTGRLQLM
ARLAEGTGLQIPPAAQQALQMSGSLAFGAVAEYILEPPPCISAPENCTHLCTMQEDCEKGFQCCSSFCGIVCSSETFQKRNRIKHKGSEV

--------------------------------------------------------------
>In-frame_ENST00000361162_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(transcript)=2735nt_BP=1559nt
GCGAGAGCCCGTGCTGAGGGCTCTGTGAGGCCCCGTGTGTTTGTGTGTGTGTATGTGTGCTGGTGAATGTGAGTACAGGGAAGCAGCGGC
CGCCATTTCAGGGAGCTTGTCGACGCTGTCGCAGGGGTGGATCCTGAGCTGCCGAAGCCGCCGTCCTGCTCTCCCGCGTGGGCTTCTCTA
ATTCCATTGTTTTTTTTAGATTCTCTCGGGCCTAGCCGTCCTTGGAACCCGATATTCGGGCTGGGCGGTTCCGCGGCCTGGGCCTAGGGG
CTTAACAGTAGCAACAGAAGCGGCGGCGGCGGCAGCAGCAGCAGCAGCAGCAGCAATCTCTTCCCGAACACGAGCACCACAGGCGCCCGA
AGGCCGGAACAGGCGTTTAGAGAAAATGGCAGACGATATTGATATTGAAGCAATGCTTGAGGCTCCTTACAAGAAGGATGAGAACAAGTT
GAGCAGTGCCAACGGCCATGAAGAACGTAGCAAAAAGAGGAAAAAAAGCAAGAGCAGAAGTCGTAGTCATGAACGAAAGAGAAGCAAAAG
TAAGGAACGGAAGCGAAGTAGAGACAGAGAAAGGAAAAAGAGCAAAAGCCGTGAAAGAAAGCGAAGTAGAAGCAAAGAGAGGCGACGGAG
CCGCTCAAGAAGTCGAGATCGAAGATTTAGAGGCCGCTACAGAAGTCCTTACTCCGGACCAAAATTTAACAGTGCCATCCGAGGAAAGAT
TGGGTTGCCTCATAGCATCAAATTAAGCAGACGACGTTCCCGAAGCAAAAGTCCATTCAGAAAAGACAAGAGCCCTGTGAGAGAACCTAT
TGATAATTTAACTCCTGAGGAAAGAGATGCAAGGACAGTCTTCTGTATGCAGCTGGCGGCAAGAATTCGACCAAGGGATTTGGAAGAGTT
TTTCTCTACAGTAGGAAAGGTTCGAGATGTGAGGATGATTTCTGACAGAAATTCAAGACGTTCCAAAGGAATTGCTTATGTGGAGTTCGT
CGATGTTAGCTCAGTGCCTCTAGCAATAGGATTAACTGGCCAACGAGTTTTAGGCGTGCCAATCATAGTACAGGCATCACAGGCAGAAAA
AAACAGAGCTGCAGCAATGGCAAACAATTTACAAAAGGGAAGTGCTGGACCTATGAGGCTTTATGTGGGCTCATTACACTTCAACATAAC
TGAAGATATGCTTCGTGGGATCTTTGAGCCTTTTGGAAGAATTGAAAGTATCCAGCTGATGATGGACAGTGAAACTGGTCGATCCAAGGG
ATATGGATTTATTACATTTTCTGACTCAGAATGTGCCAAAAAGGCTTTGGAACAACTTAATGGATTTGAACTAGCAGGAAGACCAATGAA
AGTTGGTCATGTTACTGAACGTACTGATGCTTCGAGTGCTAGTTCATTTTTGGACAGTGATGAACTGGAAAGGACTGGAATTGATTTGGG
AACAACTGGTCGTCTTCAGTTAATGGCAAGACTTGCAGAGGGTACAGGTTTGCAGATTCCGCCAGCAGCACAGCAAGCTCTACAGATGAG
TGGCTCTTTGGCATTTGGTGCTGTGGCAGAGTATATCTTGGAACCTCCACCCTGCATATCAGCACCTGAAAACTGTACTCACCTGTGTAC
AATGCAGGAAGATTGCGAGAAAGGATTTCAGTGCTGTTCCTCCTTCTGTGGGATAGTCTGTTCATCAGAAACATTTCAAAAGCGCAACAG
AATCAAACACAAGGGCTCAGAAGTCATCATGCCTGCCAACTGAGGCATATTTCCTAGATCATTTTGCCTCTACGATGTTTTTTCTTGGTC
CACCTTTAGGAAGGTATTGAGAAGCAAGAAACTGGAGGCCCAATATCTAACCTGCAAATCGTTTTTGAGTTTGGCAATAAAGGCTAATCT
ACCATAAAACTCTTGAAGCTTAAGCTTTAGGTCAACACTTGCAAGAGCCCCTTCCAAAGCTCAGCACAGTTTCCTCCTGGGATGAGGAGA
GGAATCAGAAACCCCACTTTGGCATAGAGACAAGCAGCACTGTTCCAGTCCAGGGATGCTGTGTGTGCCCTGGTGGTGGTCTTAAGGACC
TACCACATCAACATCTGGACAACCCTCACTGATTACCTGCCCTTGGTTGCACTCATCAGGCTAATTGATCCCATATTTAACCTCAAGGAG
AAATATCAACCAGACACTGCATGGCAACCTCCTTGGGGCCAGCCTTCAAGGCTTCATGGCCATATCATGAACCCAGGACAGGCACAGTGG
GGGTGGTGAGGACCTGATAGAGTTGGATCAGTGACTAAGAGGCTGCAATAAGGTGCCATGAAATCAAAATCAAAGGGCTAGAACTCTCCA
AGGTCTTGCCCCCGGCATGTAGCACCACCTGAGCCAGAAACTGCAGAGGACATGACAGTGTGGCATTACTGATAAGTTATGGAAATGGAA
ATAATCTTTCCTAAACTACCAATAATAACTTTAAATTTTTGATCAACCATGCTAGAGCAAAGATTGAATTATCCTTCTGTTCTCTCTACA
GAAATGATATAAAAACTATAGTCATAAGAAGAGACAATCAAAAATAATCAGCCATAAAATATTAAAAAGGTATTATAAAGGTATTTAAAA
TAATAATAATAAAGTGTTATTTTCCTGGGATTCATGATATTTGATATATTCGTAAGCTTTTGTTAAGTTTGTAATTTGTTGCAATTTCTT

>In-frame_ENST00000361162_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(amino acids)=455AA_start in transcript=385_stop in transcript=1752
MADDIDIEAMLEAPYKKDENKLSSANGHEERSKKRKKSKSRSRSHERKRSKSKERKRSRDRERKKSKSRERKRSRSKERRRSRSRSRDRR
FRGRYRSPYSGPKFNSAIRGKIGLPHSIKLSRRRSRSKSPFRKDKSPVREPIDNLTPEERDARTVFCMQLAARIRPRDLEEFFSTVGKVR
DVRMISDRNSRRSKGIAYVEFVDVSSVPLAIGLTGQRVLGVPIIVQASQAEKNRAAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIF
EPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTERTDASSASSFLDSDELERTGIDLGTTGRLQLM
ARLAEGTGLQIPPAAQQALQMSGSLAFGAVAEYILEPPPCISAPENCTHLCTMQEDCEKGFQCCSSFCGIVCSSETFQKRNRIKHKGSEV

--------------------------------------------------------------
>In-frame_ENST00000528062_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(transcript)=2595nt_BP=1419nt
ACAGGGAAGCAGCGGCCGCCATTTCAGGGAGCTTGTCGACGCTGTCGCAGGGGTGGATCCTGAGCTGCCGAAGCCGCCGTCCTGCTCTCC
CGCGTGGGCTTCTCTAATTCCATTGTTTTTTTTAGATTCTCTCGGGCCTAGCCGTCCTTGGAACCCGATATTCGGGCTGGGCGGTTCCGC
GGCCTGGGCCTAGGGGCTTAACAGTAGCAACAGAAGCGGCGGCGGCGGCAGCAGCAGCAGCAGCAGCAGCAATCTCTTCCCGAACACGAG
CACCACAGGCGCCCGAAGGCCGGAACAGGCGTTTAGAGAAAATGGCAGACGATATTGATATTGAAGCAATGCTTGAGGCTCCTTACAAGA
AGGATGAGAACAAGTTGAGCAGTGCCAACGGCCATGAAGAACGTAGCAAAAAGAGGAAAAAAAGCAAGAGCAGAAGTCGTAGTCATGAAC
GAAAGAGAAGCAAAAGTAAGGAACGGAAGCGAAGTAGAGACAGAGAAAGGAAAAAGAGCAAAAGCCGTGAAAGAAAGCGAAGTAGAAGCA
AAGAGAGGCGACGGAGCCGCTCAAGAAGTCGAGATCGAAGATTTAGAGGCCGCTACAGAAGTCCTTACAGACGACGTTCCCGAAGCAAAA
GTCCATTCAGAAAAGACAAGAGCCCTGTGAGAGAACCTATTGATAATTTAACTCCTGAGGAAAGAGATGCAAGGACAGTCTTCTGTATGC
AGCTGGCGGCAAGAATTCGACCAAGGGATTTGGAAGAGTTTTTCTCTACAGTAGGAAAGGTTCGAGATGTGAGGATGATTTCTGACAGAA
ATTCAAGACGTTCCAAAGGAATTGCTTATGTGGAGTTCGTCGATGTTAGCTCAGTGCCTCTAGCAATAGGATTAACTGGCCAACGAGTTT
TAGGCGTGCCAATCATAGTACAGGCATCACAGGCAGAAAAAAACAGAGCTGCAGCAATGGCAAACAATTTACAAAAGGGAAGTGCTGGAC
CTATGAGGCTTTATGTGGGCTCATTACACTTCAACATAACTGAAGATATGCTTCGTGGGATCTTTGAGCCTTTTGGAAGAATTGAAAGTA
TCCAGCTGATGATGGACAGTGAAACTGGTCGATCCAAGGGATATGGATTTATTACATTTTCTGACTCAGAATGTGCCAAAAAGGCTTTGG
AACAACTTAATGGATTTGAACTAGCAGGAAGACCAATGAAAGTTGGTCATGTTACTGAACGTACTGATGCTTCGAGTGCTAGTTCATTTT
TGGACAGTGATGAACTGGAAAGGACTGGAATTGATTTGGGAACAACTGGTCGTCTTCAGTTAATGGCAAGACTTGCAGAGGGTACAGGTT
TGCAGATTCCGCCAGCAGCACAGCAAGCTCTACAGATGAGTGGCTCTTTGGCATTTGGTGCTGTGGCAGAGTATATCTTGGAACCTCCAC
CCTGCATATCAGCACCTGAAAACTGTACTCACCTGTGTACAATGCAGGAAGATTGCGAGAAAGGATTTCAGTGCTGTTCCTCCTTCTGTG
GGATAGTCTGTTCATCAGAAACATTTCAAAAGCGCAACAGAATCAAACACAAGGGCTCAGAAGTCATCATGCCTGCCAACTGAGGCATAT
TTCCTAGATCATTTTGCCTCTACGATGTTTTTTCTTGGTCCACCTTTAGGAAGGTATTGAGAAGCAAGAAACTGGAGGCCCAATATCTAA
CCTGCAAATCGTTTTTGAGTTTGGCAATAAAGGCTAATCTACCATAAAACTCTTGAAGCTTAAGCTTTAGGTCAACACTTGCAAGAGCCC
CTTCCAAAGCTCAGCACAGTTTCCTCCTGGGATGAGGAGAGGAATCAGAAACCCCACTTTGGCATAGAGACAAGCAGCACTGTTCCAGTC
CAGGGATGCTGTGTGTGCCCTGGTGGTGGTCTTAAGGACCTACCACATCAACATCTGGACAACCCTCACTGATTACCTGCCCTTGGTTGC
ACTCATCAGGCTAATTGATCCCATATTTAACCTCAAGGAGAAATATCAACCAGACACTGCATGGCAACCTCCTTGGGGCCAGCCTTCAAG
GCTTCATGGCCATATCATGAACCCAGGACAGGCACAGTGGGGGTGGTGAGGACCTGATAGAGTTGGATCAGTGACTAAGAGGCTGCAATA
AGGTGCCATGAAATCAAAATCAAAGGGCTAGAACTCTCCAAGGTCTTGCCCCCGGCATGTAGCACCACCTGAGCCAGAAACTGCAGAGGA
CATGACAGTGTGGCATTACTGATAAGTTATGGAAATGGAAATAATCTTTCCTAAACTACCAATAATAACTTTAAATTTTTGATCAACCAT
GCTAGAGCAAAGATTGAATTATCCTTCTGTTCTCTCTACAGAAATGATATAAAAACTATAGTCATAAGAAGAGACAATCAAAAATAATCA
GCCATAAAATATTAAAAAGGTATTATAAAGGTATTTAAAATAATAATAATAAAGTGTTATTTTCCTGGGATTCATGATATTTGATATATT

>In-frame_ENST00000528062_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(amino acids)=433AA_start in transcript=311_stop in transcript=1612
MADDIDIEAMLEAPYKKDENKLSSANGHEERSKKRKKSKSRSRSHERKRSKSKERKRSRDRERKKSKSRERKRSRSKERRRSRSRSRDRR
FRGRYRSPYRRRSRSKSPFRKDKSPVREPIDNLTPEERDARTVFCMQLAARIRPRDLEEFFSTVGKVRDVRMISDRNSRRSKGIAYVEFV
DVSSVPLAIGLTGQRVLGVPIIVQASQAEKNRAAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKG
YGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTERTDASSASSFLDSDELERTGIDLGTTGRLQLMARLAEGTGLQIPPAAQQALQMS

--------------------------------------------------------------
>In-frame_ENST00000407261_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(transcript)=2751nt_BP=1575nt
GTGCTGGTGAATGTGAGTACAGGGAAGCAGCGGCCGCCATTTCAGGGAGCTTGTCGACGCTGTCGCAGGGGTGGATCCTGAGCTGCCGAA
GCCGCCGTCCTGCTCTCCCGCGTGGGCTTCTCTAATTCCATTGTTTTTTTTAGATTCTCTCGGGCCTAGCCGTCCTTGGAACCCGATATT
CGGGCTGGGCGGTTCCGCGGCCTGGGCCTAGGGGCTTAACAGTAGCAACAGAAGCGGCGGCGGCGGCAGCAGCAGCAGCAGCAGCAGCAA
TCTCTTCCCGAACACGAGCACCACAGGCGCCCGAAGGCCGGAACAGGCGTTTAGAGAAAATGGCAGACGATATTGATATTGAAGCAATGC
TTGAGGCTCCTTACAAGAAGGATGAGAACAAGTTGAGCAGTGCCAACGGCCATGAAGAACGTAGCAAAAAACAAACTTTCTGCCTCCTTG
GAAAGCTCTACATCTCCTTGTGATTGGAGTGTGGGTTTCAAGATTCCAGAAGGAGGAAAAAAAGCAAGAGCAGAAGTCGTAGTCATGAAC
GAAAGAGAAGCAAAAGTAAGGAACGGAAGCGAAGTAGAGACAGAGAAAGGAAAAAGAGCAAAAGCCGTGAAAGAAAGCGAAGTAGAAGCA
AAGAGAGGCGACGGAGCCGCTCAAGAAGTCGAGATCGAAGATTTAGAGGCCGCTACAGAAGTCCTTACTCCGGACCAAAATTTAACAGTG
CCATCCGAGGAAAGATTGGGTTGCCTCATAGCATCAAATTAAGCAGACGACGTTCCCGAAGCAAAAGTCCATTCAGAAAAGACAAGAGCC
CTGTGAGAGAACCTATTGATAATTTAACTCCTGAGGAAAGAGATGCAAGGACAGTCTTCTGTATGCAGCTGGCGGCAAGAATTCGACCAA
GGGATTTGGAAGAGTTTTTCTCTACAGTAGGAAAGGTTCGAGATGTGAGGATGATTTCTGACAGAAATTCAAGACGTTCCAAAGGAATTG
CTTATGTGGAGTTCGTCGATGTTAGCTCAGTGCCTCTAGCAATAGGATTAACTGGCCAACGAGTTTTAGGCGTGCCAATCATAGTACAGG
CATCACAGGCAGAAAAAAACAGAGCTGCAGCAATGGCAAACAATTTACAAAAGGGAAGTGCTGGACCTATGAGGCTTTATGTGGGCTCAT
TACACTTCAACATAACTGAAGATATGCTTCGTGGGATCTTTGAGCCTTTTGGAAGAATTGAAAGTATCCAGCTGATGATGGACAGTGAAA
CTGGTCGATCCAAGGGATATGGATTTATTACATTTTCTGACTCAGAATGTGCCAAAAAGGCTTTGGAACAACTTAATGGATTTGAACTAG
CAGGAAGACCAATGAAAGTTGGTCATGTTACTGAACGTACTGATGCTTCGAGTGCTAGTTCATTTTTGGACAGTGATGAACTGGAAAGGA
CTGGAATTGATTTGGGAACAACTGGTCGTCTTCAGTTAATGGCAAGACTTGCAGAGGGTACAGGTTTGCAGATTCCGCCAGCAGCACAGC
AAGCTCTACAGATGAGTGGCTCTTTGGCATTTGGTGCTGTGGCAGAGTATATCTTGGAACCTCCACCCTGCATATCAGCACCTGAAAACT
GTACTCACCTGTGTACAATGCAGGAAGATTGCGAGAAAGGATTTCAGTGCTGTTCCTCCTTCTGTGGGATAGTCTGTTCATCAGAAACAT
TTCAAAAGCGCAACAGAATCAAACACAAGGGCTCAGAAGTCATCATGCCTGCCAACTGAGGCATATTTCCTAGATCATTTTGCCTCTACG
ATGTTTTTTCTTGGTCCACCTTTAGGAAGGTATTGAGAAGCAAGAAACTGGAGGCCCAATATCTAACCTGCAAATCGTTTTTGAGTTTGG
CAATAAAGGCTAATCTACCATAAAACTCTTGAAGCTTAAGCTTTAGGTCAACACTTGCAAGAGCCCCTTCCAAAGCTCAGCACAGTTTCC
TCCTGGGATGAGGAGAGGAATCAGAAACCCCACTTTGGCATAGAGACAAGCAGCACTGTTCCAGTCCAGGGATGCTGTGTGTGCCCTGGT
GGTGGTCTTAAGGACCTACCACATCAACATCTGGACAACCCTCACTGATTACCTGCCCTTGGTTGCACTCATCAGGCTAATTGATCCCAT
ATTTAACCTCAAGGAGAAATATCAACCAGACACTGCATGGCAACCTCCTTGGGGCCAGCCTTCAAGGCTTCATGGCCATATCATGAACCC
AGGACAGGCACAGTGGGGGTGGTGAGGACCTGATAGAGTTGGATCAGTGACTAAGAGGCTGCAATAAGGTGCCATGAAATCAAAATCAAA
GGGCTAGAACTCTCCAAGGTCTTGCCCCCGGCATGTAGCACCACCTGAGCCAGAAACTGCAGAGGACATGACAGTGTGGCATTACTGATA
AGTTATGGAAATGGAAATAATCTTTCCTAAACTACCAATAATAACTTTAAATTTTTGATCAACCATGCTAGAGCAAAGATTGAATTATCC
TTCTGTTCTCTCTACAGAAATGATATAAAAACTATAGTCATAAGAAGAGACAATCAAAAATAATCAGCCATAAAATATTAAAAAGGTATT
ATAAAGGTATTTAAAATAATAATAATAAAGTGTTATTTTCCTGGGATTCATGATATTTGATATATTCGTAAGCTTTTGTTAAGTTTGTAA

>In-frame_ENST00000407261_ENST00000305479_TCGA-EJ-5514-01A_RBM39_chr20_34300941_-_WFDC13_chr20_44333083_length(amino acids)=431AA_start in transcript=473_stop in transcript=1768
MECGFQDSRRRKKSKSRSRSHERKRSKSKERKRSRDRERKKSKSRERKRSRSKERRRSRSRSRDRRFRGRYRSPYSGPKFNSAIRGKIGL
PHSIKLSRRRSRSKSPFRKDKSPVREPIDNLTPEERDARTVFCMQLAARIRPRDLEEFFSTVGKVRDVRMISDRNSRRSKGIAYVEFVDV
SSVPLAIGLTGQRVLGVPIIVQASQAEKNRAAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYG
FITFSDSECAKKALEQLNGFELAGRPMKVGHVTERTDASSASSFLDSDELERTGIDLGTTGRLQLMARLAEGTGLQIPPAAQQALQMSGS

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

Top

Fusion Gene PPI Analysis for RBM39-WFDC13

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner	Gene	Hbp	Tbp	ENST	Strand	BPexon	TotalExon	Protein feature loci	*BPloci	TotalLen	Interaction lost with
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000253363	-	12	17	355_406	391.3333333333333	531.0	ESR1 and ESR2
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000361162	-	12	17	355_406	391.3333333333333	525.0	ESR1 and ESR2
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000528062	-	11	16	355_406	369.3333333333333	509.0	ESR1 and ESR2
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000253363	-	12	17	291_406	391.3333333333333	531.0	JUN
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000361162	-	12	17	291_406	391.3333333333333	525.0	JUN
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000528062	-	11	16	291_406	369.3333333333333	509.0	JUN
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000253363	-	12	17	406_530	391.3333333333333	531.0	NCOA6
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000361162	-	12	17	406_530	391.3333333333333	525.0	NCOA6
Hgene	RBM39	chr20:34300941	chr20:44333083	ENST00000528062	-	11	16	406_530	369.3333333333333	509.0	NCOA6

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

Top

Related Drugs for RBM39-WFDC13

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

Top

Related Diseases for RBM39-WFDC13

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source