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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:RAD9A-CLPB (FusionGDB2 ID:71346)

Fusion Gene Summary for RAD9A-CLPB

Fusion gene summary

Fusion gene information	Fusion gene name: RAD9A-CLPB
	Fusion gene ID: 71346
		Hgene	Tgene
	Gene symbol	RAD9A	CLPB
	Gene ID	5883	81570
	Gene name	RAD9 checkpoint clamp component A	caseinolytic mitochondrial matrix peptidase chaperone subunit B
	Synonyms	RAD9	ANKCLB\|HSP78\|MEGCANN\|MGCA7\|SKD3
	Cytomap	11q13.2	11q13.4
	Type of gene	protein-coding	protein-coding
	Description	cell cycle checkpoint control protein RAD9ADNA repair exonuclease rad9 homolog ARAD9 homolog AhRAD9	caseinolytic peptidase B protein homologClpB caseinolytic peptidase B homologClpB homolog, mitochondrial AAA ATPase chaperoninankyrin-repeat containing bacterial clp fusionsuppressor of potassium transport defect 3testicular secretory protein Li 11
	Modification date	20200322	20200313
	UniProtAcc	.	Q9H078
	Ensembl transtripts involved in fusion gene	ENST00000307980, ENST00000535644,	ENST00000294053, ENST00000538039, ENST00000437826, ENST00000340729, ENST00000543042, ENST00000445069, ENST00000538021, ENST00000542555,
Fusion gene scores	* DoF score	8 X 50 X 13=5200	12 X 11 X 8=1056
	# samples	48	15
	** MAII score	log2(48/5200*10)=-3.4374053123073 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(15/1056*10)=-2.81557542886257 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: RAD9A [Title/Abstract] AND CLPB [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	RAD9A(67159549)-CLPB(72141407), # samples:2
Anticipated loss of major functional domain due to fusion event.	RAD9A-CLPB seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. RAD9A-CLPB seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.

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

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
Hgene	RAD9A	GO:0006974	cellular response to DNA damage stimulus	9872989
Hgene	RAD9A	GO:0071479	cellular response to ionizing radiation	21659603
Tgene	CLPB	GO:0034605	cellular response to heat	2745427

Fusion gene breakpoints across RAD9A (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 CLPB (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	SKCM	TCGA-EE-A2GR-06A	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
ChimerDB4	SKCM	TCGA-EE-A2GR-06A	RAD9A	chr11	67159549	-	CLPB	chr11	72141407	-

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Fusion Gene ORF analysis for RAD9A-CLPB

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	ENST00000307980	ENST00000294053	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
In-frame	ENST00000307980	ENST00000538039	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
Frame-shift	ENST00000307980	ENST00000437826	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
In-frame	ENST00000307980	ENST00000340729	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
5CDS-intron	ENST00000307980	ENST00000543042	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
5CDS-intron	ENST00000307980	ENST00000445069	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
5CDS-intron	ENST00000307980	ENST00000538021	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
5CDS-5UTR	ENST00000307980	ENST00000542555	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-3CDS	ENST00000535644	ENST00000294053	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-3CDS	ENST00000535644	ENST00000538039	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-3CDS	ENST00000535644	ENST00000437826	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-3CDS	ENST00000535644	ENST00000340729	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-intron	ENST00000535644	ENST00000543042	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-intron	ENST00000535644	ENST00000445069	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-intron	ENST00000535644	ENST00000538021	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-
intron-5UTR	ENST00000535644	ENST00000542555	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-

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)
ENST00000307980	RAD9A	chr11	67159549	+	ENST00000294053	CLPB	chr11	72141407	-	2790	127	72	1847	591
ENST00000307980	RAD9A	chr11	67159549	+	ENST00000538039	CLPB	chr11	72141407	-	2679	127	72	1757	561
ENST00000307980	RAD9A	chr11	67159549	+	ENST00000340729	CLPB	chr11	72141407	-	1735	127	72	1670	532

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
ENST00000307980	ENST00000294053	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-	0.0066585	0.9933415
ENST00000307980	ENST00000538039	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-	0.00552645	0.9944735
ENST00000307980	ENST00000340729	RAD9A	chr11	67159549	+	CLPB	chr11	72141407	-	0.002576396	0.99742365

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Fusion Genomic Features for RAD9A-CLPB

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)

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 RAD9A-CLPB

Go to
FGviewer for the breakpoints of chr11:67159549-chr11:72141407
.
- 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
.	CLPB Q9H078
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: May function as a regulatory ATPase and be related to secretion/protein trafficking process. Involved in mitochondrial-mediated antiviral innate immunity, activates RIG-I-mediated signal transduction and production of IFNB1 and proinflammatory cytokine IL6 (PubMed:31522117). {ECO:0000269\|PubMed:31522117}.

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

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000294053

381_388

134.33333333333334

708.0

Nucleotide binding

ATP

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000340729

381_388

134.33333333333334

649.0

Nucleotide binding

ATP

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000437826

381_388

53.666666666666664

663.0

Nucleotide binding

ATP

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000538039

381_388

134.33333333333334

678.0

Nucleotide binding

ATP

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000294053

133_162

134.33333333333334

708.0

Repeat

Note=ANK 1

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000294053

166_195

134.33333333333334

708.0

Repeat

Note=ANK 2

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000294053

265_295

134.33333333333334

708.0

Repeat

Note=ANK 3

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000294053

298_327

134.33333333333334

708.0

Repeat

Note=ANK 4

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000340729

133_162

134.33333333333334

649.0

Repeat

Note=ANK 1

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000340729

166_195

134.33333333333334

649.0

Repeat

Note=ANK 2

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000340729

265_295

134.33333333333334

649.0

Repeat

Note=ANK 3

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000340729

298_327

134.33333333333334

649.0

Repeat

Note=ANK 4

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000437826

133_162

53.666666666666664

663.0

Repeat

Note=ANK 1

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000437826

166_195

53.666666666666664

663.0

Repeat

Note=ANK 2

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000437826

265_295

53.666666666666664

663.0

Repeat

Note=ANK 3

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000437826

298_327

53.666666666666664

663.0

Repeat

Note=ANK 4

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000538039

133_162

134.33333333333334

678.0

Repeat

Note=ANK 1

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000538039

166_195

134.33333333333334

678.0

Repeat

Note=ANK 2

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000538039

265_295

134.33333333333334

678.0

Repeat

Note=ANK 3

Tgene

CLPB

chr11:67159549

chr11:72141407

ENST00000538039

298_327

134.33333333333334

678.0

Repeat

Note=ANK 4

- 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

RAD9A

chr11:67159549

chr11:72141407

ENST00000307980

51_91

11.333333333333334

392.0

Region

Note=Possesses 3'-5' exonuclease activity

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Fusion Gene Sequence for RAD9A-CLPB

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_ENST00000307980_ENST00000294053_TCGA-EE-A2GR-06A_RAD9A_chr11_67159549_+_CLPB_chr11_72141407_length(transcript)=2790nt_BP=127nt
GGGCCGGCAGGGGCGGTGCGCGGGAAGGGACCCCGGACCCGGAGGTCGCGGAGAGCTGGGCAGTGTTGGCCGCTGGCGGAGCGCTGGGGC
AGCATGAAGTGCCTGGTCACGGGCGGCAACGTGAAGGATGCAGCCCTGTTGGAAGCTGCCCGTGCCAACAATATGCAAGAAGTCAGCAGG
CTGTTGTCAGAAGGTGCAGATGTCAATGCAAAGCACAGACTTGGCTGGACAGCACTCATGGTGGCAGCCATCAACCGAAACAACAGTGTG
GTACAGGTCCTGCTTGCTGCTGGGGCTGATCCAAACCTTGGAGATGATTTCAGCAGTGTTTACAAGACTGCCAAGGAACAGGGAATCCAT
TCTTTGGAAGATGGGGGACAGGACGGTGCAAGCCGGCACATCACAAACCAGTGGACAAGTGCCCTGGAGTTCAGGAGATGGCTAGGACTC
CCCGCTGGCGTCCTGATCACCCGAGAGGATGACTTCAACAACAGGCTGAACAACCGCGCCAGTTTCAAGGGCTGCACGGCCTTGCACTAT
GCTGTTCTTGCTGATGACTACCGCACTGTCAAGGAGCTGCTTGATGGAGGAGCCAACCCCCTGCAGAGGAATGAAATGGGACACACACCC
TTGGATTATGCCCGAGAAGGGGAAGTGATGAAGCTTCTGAGGACTTCTGAAGCCAAGTACCAAGAGAAGCAGCGGAAGCGTGAGGCTGAG
GAGCGGCGCCGCTTCCCCCTGGAGCAGCGACTAAAGGAGCACATCATTGGCCAGGAGAGCGCCATCGCCACAGTGGGTGCTGCGATCCGG
AGGAAGGAGAATGGCTGGTACGATGAAGAACACCCTCTGGTCTTCCTCTTCTTGGGATCATCTGGAATAGGAAAAACAGAGCTGGCCAAG
CAGACAGCCAAATATATGCACAAAGATGCTAAAAAGGGCTTCATCAGGCTGGACATGTCCGAGTTCCAGGAGCGACACGAGGTGGCCAAG
TTTATTGGGTCTCCACCAGGCTACGTTGGCCATGAGGAGGGTGGCCAGCTGACCAAGAAGTTGAAGCAGTGCCCCAATGCTGTGGTGCTC
TTTGATGAAGTAGACAAGGCCCATCCAGATGTGCTCACCATCATGCTGCAGCTGTTTGATGAGGGCCGGCTGACAGATGGAAAAGGGAAG
ACCATTGATTGCAAGGACGCCATCTTCATCATGACCTCCAATGTGGCCAGCGACGAGATCGCACAGCACGCGCTGCAGCTGAGGCAGGAA
GCTTTGGAGATGAGCCGTAACCGTATTGCCGAAAACCTGGGGGATGTCCAGATAAGTGACAAGATCACCATCTCAAAGAACTTCAAGGAG
AATGTGATTCGCCCTATCCTGAAAGCTCACTTCCGGAGGGATGAGTTTCTGGGACGGATCAATGAGATCGTCTACTTCCTCCCCTTCTGC
CACTCGGAGCTCATCCAACTCGTCAACAAGGAACTAAACTTCTGGGCCAAGAGAGCCAAGCAAAGGCACAACATCACGCTGCTCTGGGAC
CGCGAGGTGGCAGATGTGCTGGTCGACGGCTACAATGTGCACTATGGCGCCCGCTCCATCAAACATGAGGTAGAACGCCGTGTGGTGAAC
CAGCTGGCAGCAGCCTATGAGCAGGACCTGCTGCCAGGGGGCTGTACTTTGCGCATCACGGTGGAGGACTCAGACAAGCAGCTACTCAAA
AGCCCAGAACTGCCCTCACCCCAGGCTGAGAAGCGCCTCCCCAAGCTGCGTCTGGAGATCATCGACAAGGACAGCAAGACTCGCAGACTG
GACATCCGGGCACCACTGCACCCTGAGAAGGTGTGCAACACCATCTAGCAGCCACCTGCCTGCTCCTATGTGCCCTCACCATCCAATAAA
GGCCCCTTGGCTGTGGCATGGCAACTGACTTACCTTCCCCTCATGCCGCTCCCATCTCTACCCAGTCTCAGGCCTGCTTACCTCCTCACA
GCCCATGAAGACCCCTTCTCAGCCCCAAAACCTGAAGGAGGAATTTCGCCCTACTCTGGCCCCTTTGTTGTGGGCCCATAACCTGCTAAC
AAGCCTTCAGGAGAGGAGCTGCCTTTCCACCCCCTTCAAGGCAAGGAGGGATGGAGGTCCCTTATTTCCTTCAGAATGATCCCCATCCCC
CATAGTCGCCAGACTTTCTCATGTTCCCAGGAAGCTCAGAAGTATGGCAGCTAAGAACACAGCTGGCTGGAAGAAGACAGGGACCAGACT
GAACTGCCACCCTCTGCTAGTCCTCATGCAACTCAGTCCCCAGAATGGCTCCACTGGGAGTGGAGGAAGAGCTCAGAGGCCCAGGTGCAG
ATAGTTCTGCAATTTAGTCTGTAGCCTCCTCGTTCCCTACCCTAAAATTCTAAGGGGAAGGGACCCATAGAGGCTTGCCTGTTTCCGCTA
CTATATTATGCCCAGTGTTCCTCCTCACCCCACGTCCTGGGGTCAGGCCAGACCATGTTTCGTCAGCCTTGGGGACTAGGCCAGTGTTGG
GCACCTCCAGGAGGAGGCCTGACTGGTTCATTACCCTCCCCTACTCAGACTGAGCAGCAGTCCCAGATAACCAAGCAAGCTCAGCTCTGT
GGGGGCCTCCTTCAAAAGACCAACATCGCAGACATTAGGAAGCTGTAGGAAGAGAGATCATGGGTTTGACCTCTGCCCACATGGCCATGG
AGTCAGCCTCAGCCCTGTCTGTACTGCTCGTCCAGCTAAACGAGCCTGGAATAAACATGCAGTTTATTCAGTCTGCATGTTAGTCACAAA

>In-frame_ENST00000307980_ENST00000294053_TCGA-EE-A2GR-06A_RAD9A_chr11_67159549_+_CLPB_chr11_72141407_length(amino acids)=591AA_start in transcript=72_stop in transcript=1847
MAERWGSMKCLVTGGNVKDAALLEAARANNMQEVSRLLSEGADVNAKHRLGWTALMVAAINRNNSVVQVLLAAGADPNLGDDFSSVYKTA
KEQGIHSLEDGGQDGASRHITNQWTSALEFRRWLGLPAGVLITREDDFNNRLNNRASFKGCTALHYAVLADDYRTVKELLDGGANPLQRN
EMGHTPLDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLEQRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIG
KTELAKQTAKYMHKDAKKGFIRLDMSEFQERHEVAKFIGSPPGYVGHEEGGQLTKKLKQCPNAVVLFDEVDKAHPDVLTIMLQLFDEGRL
TDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNRIAENLGDVQISDKITISKNFKENVIRPILKAHFRRDEFLGRINEIV
YFLPFCHSELIQLVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAYEQDLLPGGCTLRITVEDS

--------------------------------------------------------------
>In-frame_ENST00000307980_ENST00000538039_TCGA-EE-A2GR-06A_RAD9A_chr11_67159549_+_CLPB_chr11_72141407_length(transcript)=2679nt_BP=127nt
GGGCCGGCAGGGGCGGTGCGCGGGAAGGGACCCCGGACCCGGAGGTCGCGGAGAGCTGGGCAGTGTTGGCCGCTGGCGGAGCGCTGGGGC
AGCATGAAGTGCCTGGTCACGGGCGGCAACGTGAAGGATGCAGCCCTGTTGGAAGCTGCCCGTGCCAACAATATGCAAGAAGTCAGCAGG
CTGTTGTCAGAAGGTGCAGATGTCAATGCAAAGCACAGACTTGGCTGGACAGCACTCATGGTGGCAGCCATCAACCGAAACAACAGTGTG
GTACAGGTCCTGCTTGCTGCTGGGGCTGATCCAAACCTTGGAGATGATTTCAGCAGTGTTTACAAGACTGCCAAGGAACAGGGAATCCAT
TCTTTGGAAGTCCTGATCACCCGAGAGGATGACTTCAACAACAGGCTGAACAACCGCGCCAGTTTCAAGGGCTGCACGGCCTTGCACTAT
GCTGTTCTTGCTGATGACTACCGCACTGTCAAGGAGCTGCTTGATGGAGGAGCCAACCCCCTGCAGAGGAATGAAATGGGACACACACCC
TTGGATTATGCCCGAGAAGGGGAAGTGATGAAGCTTCTGAGGACTTCTGAAGCCAAGTACCAAGAGAAGCAGCGGAAGCGTGAGGCTGAG
GAGCGGCGCCGCTTCCCCCTGGAGCAGCGACTAAAGGAGCACATCATTGGCCAGGAGAGCGCCATCGCCACAGTGGGTGCTGCGATCCGG
AGGAAGGAGAATGGCTGGTACGATGAAGAACACCCTCTGGTCTTCCTCTTCTTGGGATCATCTGGAATAGGAAAAACAGAGCTGGCCAAG
CAGACAGCCAAATATATGCACAAAGATGCTAAAAAGGGCTTCATCAGGCTGGACATGTCCGAGTTCCAGGAGCGACACGAGGTGGCCAAG
TTTATTGGGTCTCCACCAGGCTACGTTGGCCATGAGGAGGGTGGCCAGCTGACCAAGAAGTTGAAGCAGTGCCCCAATGCTGTGGTGCTC
TTTGATGAAGTAGACAAGGCCCATCCAGATGTGCTCACCATCATGCTGCAGCTGTTTGATGAGGGCCGGCTGACAGATGGAAAAGGGAAG
ACCATTGATTGCAAGGACGCCATCTTCATCATGACCTCCAATGTGGCCAGCGACGAGATCGCACAGCACGCGCTGCAGCTGAGGCAGGAA
GCTTTGGAGATGAGCCGTAACCGTATTGCCGAAAACCTGGGGGATGTCCAGATAAGTGACAAGATCACCATCTCAAAGAACTTCAAGGAG
AATGTGATTCGCCCTATCCTGAAAGCTCACTTCCGGAGGGATGAGTTTCTGGGACGGATCAATGAGATCGTCTACTTCCTCCCCTTCTGC
CACTCGGAGCTCATCCAACTCGTCAACAAGGAACTAAACTTCTGGGCCAAGAGAGCCAAGCAAAGGCACAACATCACGCTGCTCTGGGAC
CGCGAGGTGGCAGATGTGCTGGTCGACGGCTACAATGTGCACTATGGCGCCCGCTCCATCAAACATGAGGTAGAACGCCGTGTGGTGAAC
CAGCTGGCAGCAGCCTATGAGCAGGACCTGCTGCCAGGGGGCTGTACTTTGCGCATCACGGTGGAGGACTCAGACAAGCAGCTACTCAAA
AGCCCAGAACTGCCCTCACCCCAGGCTGAGAAGCGCCTCCCCAAGCTGCGTCTGGAGATCATCGACAAGGACAGCAAGACTCGCAGACTG
GACATCCGGGCACCACTGCACCCTGAGAAGGTGTGCAACACCATCTAGCAGCCACCTGCCTGCTCCTATGTGCCCTCACCATCCAATAAA
GGCCCCTTGGCTGTGGCATGGCAACTGACTTACCTTCCCCTCATGCCGCTCCCATCTCTACCCAGTCTCAGGCCTGCTTACCTCCTCACA
GCCCATGAAGACCCCTTCTCAGCCCCAAAACCTGAAGGAGGAATTTCGCCCTACTCTGGCCCCTTTGTTGTGGGCCCATAACCTGCTAAC
AAGCCTTCAGGAGAGGAGCTGCCTTTCCACCCCCTTCAAGGCAAGGAGGGATGGAGGTCCCTTATTTCCTTCAGAATGATCCCCATCCCC
CATAGTCGCCAGACTTTCTCATGTTCCCAGGAAGCTCAGAAGTATGGCAGCTAAGAACACAGCTGGCTGGAAGAAGACAGGGACCAGACT
GAACTGCCACCCTCTGCTAGTCCTCATGCAACTCAGTCCCCAGAATGGCTCCACTGGGAGTGGAGGAAGAGCTCAGAGGCCCAGGTGCAG
ATAGTTCTGCAATTTAGTCTGTAGCCTCCTCGTTCCCTACCCTAAAATTCTAAGGGGAAGGGACCCATAGAGGCTTGCCTGTTTCCGCTA
CTATATTATGCCCAGTGTTCCTCCTCACCCCACGTCCTGGGGTCAGGCCAGACCATGTTTCGTCAGCCTTGGGGACTAGGCCAGTGTTGG
GCACCTCCAGGAGGAGGCCTGACTGGTTCATTACCCTCCCCTACTCAGACTGAGCAGCAGTCCCAGATAACCAAGCAAGCTCAGCTCTGT
GGGGGCCTCCTTCAAAAGACCAACATCGCAGACATTAGGAAGCTGTAGGAAGAGAGATCATGGGTTTGACCTCTGCCCACATGGCCATGG

>In-frame_ENST00000307980_ENST00000538039_TCGA-EE-A2GR-06A_RAD9A_chr11_67159549_+_CLPB_chr11_72141407_length(amino acids)=561AA_start in transcript=72_stop in transcript=1757
MAERWGSMKCLVTGGNVKDAALLEAARANNMQEVSRLLSEGADVNAKHRLGWTALMVAAINRNNSVVQVLLAAGADPNLGDDFSSVYKTA
KEQGIHSLEVLITREDDFNNRLNNRASFKGCTALHYAVLADDYRTVKELLDGGANPLQRNEMGHTPLDYAREGEVMKLLRTSEAKYQEKQ
RKREAEERRRFPLEQRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHKDAKKGFIRLDMSEFQE
RHEVAKFIGSPPGYVGHEEGGQLTKKLKQCPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHA
LQLRQEALEMSRNRIAENLGDVQISDKITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQLVNKELNFWAKRAKQRHN
ITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAYEQDLLPGGCTLRITVEDSDKQLLKSPELPSPQAEKRLPKLRLEIIDKD

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>In-frame_ENST00000307980_ENST00000340729_TCGA-EE-A2GR-06A_RAD9A_chr11_67159549_+_CLPB_chr11_72141407_length(transcript)=1735nt_BP=127nt
GGGCCGGCAGGGGCGGTGCGCGGGAAGGGACCCCGGACCCGGAGGTCGCGGAGAGCTGGGCAGTGTTGGCCGCTGGCGGAGCGCTGGGGC
AGCATGAAGTGCCTGGTCACGGGCGGCAACGTGAAGGATGCAGCCCTGTTGGAAGCTGCCCGTGCCAACAATATGCAAGAAGTCAGCAGT
GTGGTACAGGTCCTGCTTGCTGCTGGGGCTGATCCAAACCTTGGAGATGATTTCAGCAGTGTTTACAAGACTGCCAAGGAACAGGGAATC
CATTCTTTGGAAGTCCTGATCACCCGAGAGGATGACTTCAACAACAGGCTGAACAACCGCGCCAGTTTCAAGGGCTGCACGGCCTTGCAC
TATGCTGTTCTTGCTGATGACTACCGCACTGTCAAGGAGCTGCTTGATGGAGGAGCCAACCCCCTGCAGAGGAATGAAATGGGACACACA
CCCTTGGATTATGCCCGAGAAGGGGAAGTGATGAAGCTTCTGAGGACTTCTGAAGCCAAGTACCAAGAGAAGCAGCGGAAGCGTGAGGCT
GAGGAGCGGCGCCGCTTCCCCCTGGAGCAGCGACTAAAGGAGCACATCATTGGCCAGGAGAGCGCCATCGCCACAGTGGGTGCTGCGATC
CGGAGGAAGGAGAATGGCTGGTACGATGAAGAACACCCTCTGGTCTTCCTCTTCTTGGGATCATCTGGAATAGGAAAAACAGAGCTGGCC
AAGCAGACAGCCAAATATATGCACAAAGATGCTAAAAAGGGCTTCATCAGGCTGGACATGTCCGAGTTCCAGGAGCGACACGAGGTGGCC
AAGTTTATTGGGTCTCCACCAGGCTACGTTGGCCATGAGGAGGGTGGCCAGCTGACCAAGAAGTTGAAGCAGTGCCCCAATGCTGTGGTG
CTCTTTGATGAAGTAGACAAGGCCCATCCAGATGTGCTCACCATCATGCTGCAGCTGTTTGATGAGGGCCGGCTGACAGATGGAAAAGGG
AAGACCATTGATTGCAAGGACGCCATCTTCATCATGACCTCCAATGTGGCCAGCGACGAGATCGCACAGCACGCGCTGCAGCTGAGGCAG
GAAGCTTTGGAGATGAGCCGTAACCGTATTGCCGAAAACCTGGGGGATGTCCAGATAAGTGACAAGATCACCATCTCAAAGAACTTCAAG
GAGAATGTGATTCGCCCTATCCTGAAAGCTCACTTCCGGAGGGATGAGTTTCTGGGACGGATCAATGAGATCGTCTACTTCCTCCCCTTC
TGCCACTCGGAGCTCATCCAACTCGTCAACAAGGAACTAAACTTCTGGGCCAAGAGAGCCAAGCAAAGGCACAACATCACGCTGCTCTGG
GACCGCGAGGTGGCAGATGTGCTGGTCGACGGCTACAATGTGCACTATGGCGCCCGCTCCATCAAACATGAGGTAGAACGCCGTGTGGTG
AACCAGCTGGCAGCAGCCTATGAGCAGGACCTGCTGCCAGGGGGCTGTACTTTGCGCATCACGGTGGAGGACTCAGACAAGCAGCTACTC
AAAAGCCCAGAACTGCCCTCACCCCAGGCTGAGAAGCGCCTCCCCAAGCTGCGTCTGGAGATCATCGACAAGGACAGCAAGACTCGCAGA
CTGGACATCCGGGCACCACTGCACCCTGAGAAGGTGTGCAACACCATCTAGCAGCCACCTGCCTGCTCCTATGTGCCCTCACCATCCAAT

>In-frame_ENST00000307980_ENST00000340729_TCGA-EE-A2GR-06A_RAD9A_chr11_67159549_+_CLPB_chr11_72141407_length(amino acids)=532AA_start in transcript=72_stop in transcript=1670
MAERWGSMKCLVTGGNVKDAALLEAARANNMQEVSSVVQVLLAAGADPNLGDDFSSVYKTAKEQGIHSLEVLITREDDFNNRLNNRASFK
GCTALHYAVLADDYRTVKELLDGGANPLQRNEMGHTPLDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLEQRLKEHIIGQESAIA
TVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHKDAKKGFIRLDMSEFQERHEVAKFIGSPPGYVGHEEGGQLTKKLKQ
CPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNRIAENLGDVQISDKIT
ISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQLVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARSIKHE

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Fusion Gene PPI Analysis for RAD9A-CLPB

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

- 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

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Related Drugs for RAD9A-CLPB

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

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Related Diseases for RAD9A-CLPB

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Hgene	RAD9A	C0085183	Neoplasms, Second Primary	1	CTD_human
Hgene	RAD9A	C0086696	Neoplasms, Therapy-Associated	1	CTD_human
Hgene	RAD9A	C0877578	Treatment related secondary malignancy	1	CTD_human
Tgene	CLPB	C4225393	3-methylglutaconic aciduria type 7	3	CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
Tgene	CLPB	C0014548	Epilepsy, Generalized	1	GENOMICS_ENGLAND
Tgene	CLPB	C0036572	Seizures	1	GENOMICS_ENGLAND