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	Fusion Gene Summary
	Fusion Gene Breakpoints
	Tumorigenic MoA (Mechanism of Action) Scenarios of Fusion Geness
	Fusion Genomic Features
	Fusion Gene ORF Annotations
	Fusion Protein Retained/Non-Retained Functional Features
	Fusion Transcript Sequences
	Fusion Protein Sequences
	Personalized Fusion Protein Sequences
	Fusion Gene Expressed Samples
	Related Drugs

Fusion gene:ADAMTS9_CHL1 (FusionGDB2 ID:HG56999TG10752)

Fusion Gene Summary for ADAMTS9_CHL1

Fusion gene summary

Fusion gene information	Fusion gene name: ADAMTS9_CHL1
	Fusion gene ID: hg56999tg10752
		Hgene	Tgene
	Gene symbol	ADAMTS9	CHL1
	Gene ID	56999	10752
	Gene name	ADAM metallopeptidase with thrombospondin type 1 motif 9	cell adhesion molecule L1 like
	Synonyms	-	CALL\|L1CAM2
	Cytomap	3p14.1	3p26.3
	Type of gene	protein-coding	protein-coding
	Description	A disintegrin and metalloproteinase with thrombospondin motifs 9a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 9	neural cell adhesion molecule L1-like proteinL1 cell adhesion molecule 2cell adhesion molecule with homology to L1CAM (close homolog of L1)cell adhesion molecule with homology to L1CAM (close homologue of L1)close homolog of L1
	Modification date	20240305	20240403
	UniProtAcc	.	.
	Ensembl transtripts involved in fusion gene	ENST00000295903, ENST00000498707, ENST00000459780, ENST00000467257,
Fusion gene scores	* DoF score	* DoF score (Degree of Frequency) = # partners X # break points X # disease types 12 X 15 X 8=1440	* DoF score (Degree of Frequency) = # partners X # break points X # disease types 4 X 11 X 7=308
	# samples	46	10
	** MAII score	** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score10) log2(46/144010)=-1.6463630453853 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score10) log2(10/30810)=-1.62293035092018 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: ADAMTS9 [Title/Abstract] AND CHL1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	ADAMTS9(64619373)-CHL1(447177), # samples:1

Fusion gene breakpoints across ADAMTS9 (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 CHL1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Gene Breakpoints for ADAMTS9_CHL1

RNA-seq based exon junction arranged fusion gene breakpoints from 8 resources (TCGA, CCLE, cBioPortal, GenBank, ChimerDB, ChimerKB, ChildHoodFusions, and GTEx). For the expressed sample information, go to Fusion Gene Sample section.

Hgene	Hchr	Hbp	Tgene	Tchr	Tbp
ADAMTS9	chr3	64619373	CHL1	chr3	64619373
ADAMTS9	chr3	64619374	CHL1	chr3	447178

DNA-seq based exon junction arranged fusion gene breakpoints from dbVar. For the expressed sample information, go to Fusion Gene Sample section.

Hgene

Hchr

Hbp

Tgene

Tchr

Tbp

SV type

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Tumorigenic MoA (Mechanism of Action) Scenarios of Fusion Genes for ADAMTS9_CHL1

To generate these tumorigenic scenario annotations, we implemented a deduction-first, retrieval-later computational framework. The pipeline first applies rule-guided reasoning across ten core mechanistic categories (M1–M10) derived from fusion gene biology to infer candidate mechanisms, tumorigenic scenarios, targeting points, and targeting backgrounds. To ensure empirical accountability, a governed Python workflow retrieves literature candidates via NCBI E-utilities and Europe PMC using tiered searches. Using JSON Schema-constrained LLM evidence judges (GPT-5.6 Luna and Terra), retrieved articles are evaluated for specificity and confidence without de novo PMID generation. This produces two distinct versions: a strict version restricted to high- or medium-confidence fusion-specific evidence, and an extended version incorporating broader gene-, pathway-, and contextual evidence.

* We have 10 tumorigenic mechanism categories of fusion genes as shown below.

Constitutively Active Kinases, Catalytic Domain Dysregulation, & Transmembrane Ligand Fusions	Aberrant Chimeric Transcription Factor / Fusion Transcription Factor Activity	Epigenetic Reprogramming / Histone Modifier Dysregulation	Chromatin Remodeling Dysregulation	Condensate-Driven Transcriptional Rewiring / LLP	Promoter / Enhancer Hijacking	Dominant-Negative Antagonism	Cell Cycle / Checkpoint Bypass / RNA Processing Dysregulation	Subcellular Mislocalization / Spatial Dysregulation	Nuclear Body / Sub-organellar Architecture Disruption & Differentiation Blockade

* Strict version: Restricted to high- or medium-confidence fusion-specific evidence.

Fusion Gene Name	Mechanism Category	Mechanism PubMed	Tumorigenic Scenarios	Tumorigenic Scenario PubMed	Targeting Points	Targeting PubMed	Mechanism Background	Mechanism Background PubMed
ADAMTS9-CHL1	Promoter / Enhancer Hijacking M6		Disruption of neural cell adhesion molecule L1 impairs contact inhibition and drives cell motility, invasion, and metastasis.		Integrin antagonists; FAK/Src inhibitors		Neuroendocrine and breast carcinomas

* Extended version: Includes all strict-level fusion evidence plus broader gene-, pathway-, and low-confidence contextual evidence.

Fusion Gene Name	Mechanism Category	Mechanism PubMed	Tumorigenic Scenarios	Tumorigenic Scenario PubMed	Targeting Points	Targeting PubMed	Mechanism Background	Mechanism Background PubMed
ADAMTS9-CHL1	Promoter / Enhancer Hijacking M6		Disruption of neural cell adhesion molecule L1 impairs contact inhibition and drives cell motility, invasion, and metastasis.	Evidence level: Indirect gene evidence; Confidence: Medium; PMID: 33187583; Title: miR-151-3p Inhibits Proliferation and Invasion of Colon Cancer Cell by Targeting Close Homolog of L1.	Integrin antagonists; FAK/Src inhibitors		Neuroendocrine and breast carcinomas

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

Hgene	Tgene
.	.

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	ADAMTS9	GO:0006508	proteolysis	12514189

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Fusion Genomic Features for ADAMTS9_CHL1

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) of In-frame fusion genes. 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)
ADAMTS9	chr3	64619373	-	CHL1	chr3	447177	+	1.71e-02	9.83e-01

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) of 5UTR-3CSD fusion genes (N-truncated cases).

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

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) of 5CDS-3UTR fusion genes (C-truncated cases).

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

Distribution of six genomic regulatory feature tracks across a ±5 kb window centered on the fusion breakpoints. We input the breakpoint sequences into AlphaGenome and obtained predicted genome tracks at single-base-pair resolution for each modality by running a single forward pass over the reference sequence. Specifically, for each breakpoint, AlphaGenome processed and returned predicted track data across diverse modalities, which were then averaged across all tracks within each output type and visualized across the ±5 kb window. The left panel shows the 5'-gene breakpoint ±5 kb area, and the right panel shows the 3'-gene breakpoint area, with tracks grouped by category: chromatin accessibility (DNase-seq, ATAC-seq), active transcription (RNA-seq, CAGE), and chromatin binding (ChIP-Histone, ChIP-TF).

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Fusion Gene ORF Annotations for ADAMTS9_CHL1

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
Frame-shift	ENST00000295903	ENST00000256509	ADAMTS9	chr3	64619373	-	CHL1	chr3	447177	+
Frame-shift	ENST00000498707	ENST00000256509	ADAMTS9	chr3	64619373	-	CHL1	chr3	447177	+
In-frame	ENST00000295903	ENST00000397491	ADAMTS9	chr3	64619373	-	CHL1	chr3	447177	+
In-frame	ENST00000498707	ENST00000397491	ADAMTS9	chr3	64619373	-	CHL1	chr3	447177	+

ORFfinder Result Based On The Fusion Transcript Sequences of the In-frame Fusion Genes.

Henst	Tenst	Hgene	Hchr	Hbp	Tgene	Tchr	Tbp	Seq length (transcript)	Seq length (peptide)
ENST00000295903	ENST00000397491	ADAMTS9	chr3	64619373	CHL1	chr3	447177	1976	374
ENST00000498707	ENST00000397491	ADAMTS9	chr3	64619373	CHL1	chr3	447177	2381	678

ORFfinder Result Based On The Fusion Transcript Sequences of the 5UTR-3CDS Fusion Genes for N-Truncated Protein Search.

Henst

Tenst

Hgene

Hchr

Hbp

Tgene

Tchr

Tbp

Seq length
(transcript)

Seq length
(peptide)

ORFfinder Result Based On The Fusion Transcript Sequences of the 5CDS-3UTR Fusion Genes for C-Truncated Protein Search.

Henst

Tenst

Hgene

Hchr

Hbp

Tgene

Tchr

Tbp

Seq length
(transcript)

Seq length
(peptide)

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	Tgene	Tchr	Tbp	No-coding score	Coding score
ENST00000295903	ENST00000397491	ADAMTS9	chr3	64619373	CHL1	chr3	447177	2.77e-04	1.00e+00
ENST00000498707	ENST00000397491	ADAMTS9	chr3	64619373	CHL1	chr3	447177	1.79e-04	1.00e+00

DeepORF Prediction of The Coding Potential Based on The Fusion Transcript Sequence of 5UTR-3CDS Fusion Genes (Potential N-Truncated Proteins).

Henst

Tenst

Hgene

Hchr

Hbp

Tgene

Tchr

Tbp

No-coding score

Coding score

DeepORF Prediction of The Coding Potential Based on The Fusion Transcript Sequence of 5CDS-3UTR Fusion Genes (Potential C-Truncated Proteins).

Henst

Tenst

Hgene

Hchr

Hbp

Tgene

Tchr

Tbp

No-coding score

Coding score

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Fusion Protein Retained/Non-Retained Functional Features for ADAMTS9_CHL1

Protein Level Annotation from FGviewer
* 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 (visualization across fusion protein length).

ADAMTS9_CHL1_chr3-64619373_chr3-447177.png

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

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

217_228

651.3333333333334

2196.6666666666665

Compositional bias

Basic and acidic residues

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

229_242

651.3333333333334

2196.6666666666665

Compositional bias

Basic residues

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

293_499

651.3333333333334

2196.6666666666665

Domain

Peptidase M12B

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

509_587

651.3333333333334

2196.6666666666665

Domain

Note=Disintegrin

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

588_643

651.3333333333334

2196.6666666666665

Domain

TSP type-1 1

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

221_228

651.3333333333334

2196.6666666666665

Motif

Cysteine switch

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

192_242

651.3333333333334

2196.6666666666665

Region

Disordered

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

1149_1161

1136.6666666666667

1209.0

Compositional bias

Polar residues

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

1194_1208

1136.6666666666667

1209.0

Compositional bias

Polar residues

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

1181_1185

1136.6666666666667

1209.0

Motif

Note=FIG[AQ]Y

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

1189_1208

1136.6666666666667

1209.0

Region

Disordered

- 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

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1289_1300

651.3333333333334

2196.6666666666665

Compositional bias

Polar residues

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1052_1109

651.3333333333334

2196.6666666666665

Domain

TSP type-1 5

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1110_1166

651.3333333333334

2196.6666666666665

Domain

TSP type-1 6

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1182_1240

651.3333333333334

2196.6666666666665

Domain

TSP type-1 7

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1241_1296

651.3333333333334

2196.6666666666665

Domain

TSP type-1 8

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1328_1379

651.3333333333334

2196.6666666666665

Domain

TSP type-1 9

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1382_1440

651.3333333333334

2196.6666666666665

Domain

TSP type-1 10

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1441_1494

651.3333333333334

2196.6666666666665

Domain

TSP type-1 11

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1497_1555

651.3333333333334

2196.6666666666665

Domain

TSP type-1 12

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1556_1611

651.3333333333334

2196.6666666666665

Domain

TSP type-1 13

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1612_1676

651.3333333333334

2196.6666666666665

Domain

TSP type-1 14

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1677_1734

651.3333333333334

2196.6666666666665

Domain

TSP type-1 15

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1735_1935

651.3333333333334

2196.6666666666665

Domain

GON

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

878_936

651.3333333333334

2196.6666666666665

Domain

TSP type-1 2

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

939_997

651.3333333333334

2196.6666666666665

Domain

TSP type-1 3

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

998_1049

651.3333333333334

2196.6666666666665

Domain

TSP type-1 4

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

1289_1330

651.3333333333334

2196.6666666666665

Region

Disordered

Hgene

ADAMTS9

chr3:64619373

chr3:447177

ENST00000295903

Q9P2N4

753_877

651.3333333333334

2196.6666666666665

Region

Note=Spacer

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

128_223

1136.6666666666667

1209.0

Domain

Note=Ig-like C2-type 2

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

235_328

1136.6666666666667

1209.0

Domain

Note=Ig-like C2-type 3

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

331_417

1136.6666666666667

1209.0

Domain

Note=Ig-like C2-type 4

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

35_124

1136.6666666666667

1209.0

Domain

Note=Ig-like C2-type 1

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

423_510

1136.6666666666667

1209.0

Domain

Note=Ig-like C2-type 5

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

515_607

1136.6666666666667

1209.0

Domain

Note=Ig-like C2-type 6

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

614_709

1136.6666666666667

1209.0

Domain

Fibronectin type-III 1

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

714_807

1136.6666666666667

1209.0

Domain

Fibronectin type-III 2

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

809_914

1136.6666666666667

1209.0

Domain

Fibronectin type-III 3

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

918_1015

1136.6666666666667

1209.0

Domain

Fibronectin type-III 4

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

555_558

1136.6666666666667

1209.0

Motif

Note=DGEA

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

1131_1163

1136.6666666666667

1209.0

Region

Disordered

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

693_716

1136.6666666666667

1209.0

Region

Disordered

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

1104_1208

1136.6666666666667

1209.0

Topological domain

Cytoplasmic

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

25_1082

1136.6666666666667

1209.0

Topological domain

Extracellular

Tgene

CHL1

chr3:64619373

chr3:447177

ENST00000397491

O00533

1083_1103

1136.6666666666667

1209.0

Transmembrane

Helical

- Retained PPIs in in-frame fusion.

Partner

Hgene

Hbp

Tgene

Tbp

ENST

UniProt

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Hgene

Hbp

Tgene

Tbp

ENST

UniProt

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Fusion Transcript Sequence for ADAMTS9_CHL1

In-frame Fusion Transcript Sequences.

>ADAMTS9_CHL1_ENST00000295903_ENST00000397491_64619373_447177 length=3334nt 
 Breakpoint=1976nt
GGAGGGAGGGGTGGGAAGCACCATGCAGTTTGTATCCTGGGCCACACTGCTAACGCTCCTGGTGCGGGACCTGGCCGAGATGGGGAGCCCAGACGCCGCGGCGGCCGTGCGCAAGGACAGGCTGCACCCGAGGCAAGTGAAATTATTAGA
GACCCTGAGCGAATACGAAATCGTGTCTCCCATCCGAGTGAACGCTCTCGGAGAACCCTTTCCCACGAACGTCCACTTCAAAAGAACGCGACGGAGCATTAACTCTGCCACTGACCCCTGGCCTGCCTTCGCCTCCTCCTCTTCCTCCTC
TACCTCCTCCCAGGCGCATTACCGCCTCTCTGCCTTCGGCCAGCAGTTTCTATTTAATCTCACCGCCAATGCCGGATTTATCGCTCCACTGTTCACTGTCACCCTCCTCGGGACGCCCGGGGTGAATCAGACCAAGTTTTATTCCGAAGA
GGAAGCGGAACTCAAGCACTGTTTCTACAAAGGCTATGTCAATACCAACTCCGAGCACACGGCCGTCATCAGCCTCTGCTCAGGAATGCTGGGCACATTCCGGTCTCATGATGGGGATTATTTTATTGAACCACTACAGTCTATGGATGA
ACAAGAAGATGAAGAGGAACAAAACAAACCCCACATCATTTATAGGCGCAGCGCCCCCCAGAGAGAGCCCTCAACAGGAAGGCATGCATGTGACACCTCAGAACACAAAAATAGGCACAGTAAAGACAAGAAGAAAACCAGAGCAAGAAA
ATGGGGAGAAAGGATTAACCTGGCTGGTGACGTAGCAGCATTAAACAGCGGCTTAGCAACAGAGGCATTTTCTGCTTATGGTAATAAGACGGACAACACAAGAGAAAAGAGGACCCACAGAAGGACAAAACGTTTTTTATCCTATCCACG
GTTTGTAGAAGTCTTGGTGGTGGCAGACAACAGAATGGTTTCATACCATGGAGAAAACCTTCAACACTATATTTTAACTTTAATGTCAATTGATGGGCCTTCCATATCTTTTAATGCTCAGACAACATTAAAAAACTTTTGCCAGTGGCA
GCATTCGAAGAACAGTCCAGGTGGAATCCATCATGATACTGCTGTTCTCTTAACAAGACAGGATATCTGCAGAGCTCACGACAAATGTGATACCTTAGGCCTGGCTGAACTGGGAACCATTTGTGATCCCTATAGAAGCTGTTCTATTAG
TGAAGATAGTGGATTGAGTACAGCTTTTACGATCGCCCATGAGCTGGGCCATGTGTTTAACATGCCTCATGATGACAACAACAAATGTAAAGAAGAAGGAGTTAAGAGTCCCCAGCATGTCATGGCTCCAACACTGAACTTCTACACCAA
CCCCTGGATGTGGTCAAAGTGTAGTCGAAAATATATCACTGAGTTTTTAGACACTGGTTATGGCGAGTGTTTGCTTAACGAACCTGAATCCAGACCCTACCCTTTGCCTGTCCAACTGCCAGGCATCCTTTACAACGTGAATAAACAATG
TGAATTGATTTTTGGACCAGGTTCTCAGGTGTGCCCATATATGATGCAGTGCAGACGGCTCTGGTGCAATAACGTCAATGGAGTACACAAAGGCTGCCGGACTCAGCACACACCCTGGGCCGATGGGACGGAGTGCGAGCCTGGAAAGCA
CTGCAAGTATGGATTTTGTGTTCCCAAAGAAATGGATGTCCCCGTGACAGATGGATCCTGGGGAAGTTGGAGTCCCTTTGGAACCTGCTCCAGAACATGTGGAGGGGGCATCAAAACAGCCATTCGAGAGTGCAACAGACCAGAACCAAA
AAATGGTGGAAAATACTGTGTAGGACGTAGAATGAAATTTAAGTCCTGCAACACGGAGCCATGTCTCAAGCAGAAGCGAGACTTCCGAGATGAACAGTGTGCTCACTTTGACGGGAAGCATTTTAACATCAACGGTCTGCTTCCCAATGT
GCGCTGGGTCCCTAAATACAGTGGAATGACAGTGATGAAAAGCCTCTCAAAGGAAGCCTTCGGTCCCTTAATAGGGATATGCAGCCTACTGAAAGTGCTGACAGCTTAGTCGAATACGGAGAGGGAGACCATGGTCTCTTCAGTGAAGAT
GGATCATTTATTGGTGCCTACGCTGGATCTAAGGAGAAGGGATCTGTTGAAAGCAATGGAAGTTCTACAGCAACTTTTCCCCTTCGGGCATAAACACAACATATGTAAGCAACGCTACTGGTTCACCCCAACCTTCCATATTTATCTGTT
CAAAGGAGCAAGAACTTTCATATAGGAATAGAAACATGCTGGCCGAAGATTTCATCCAGAAGTCAACATCCTGCAATTATGTTGAAAAGAGTAGTACTTTCTTCAAAATATAAAATGCCAAGCACTTCAGGCCTATGTTTTGCTTATATT
GTTTTCAGGTGCTCAAAATGCAAAACACAAAACAAATCCTGCATTTAGATACACCTCAACTAAATCCAAAGTCCCCATTCAGTATATTCCATATTTGCCTGATTTTACTATTCGGTGTGTTTGCATAGATGTTGCTACTTGGTGGGTTTT
TCTCCGTATGCACATTGGTATACAGTCTCTGAGAACTGGCTTGGTGACTTTGCTTCACTACAGGTTAAAAGACCATAAGCAAACTGGTTATTTAAAATGTAAAAAGGAATATGAAAGTCTTATTAAAACACTTCATTGAAAATATACAGT
CTAAATTTATTATTTAAATTTTACTAGCAAAAGTCTTAGGTGAACAATCAACTAGTATTTGTTGAGCTCCTATTTGCCCAGAGATGGTCATATTTAAACAGAAGTATACGTTTTTCAGTTTCAACATGAATTTTTTTATTTCTGTCAGTT
ATGACATCCACAAGCATCACTTTTTGTGTCTGTTTTTTTTTTTTTTCTTGGACTAAATTCAACTGCATGGAAGCGGTGGTCAGAAGGTTGTTTTATACGAGAACAGGCAGAAAGTGCCCATTGTTCAGGATTCTAATAGCTACATCTACT
TAATATCTTCATTTCTAAATTGACTGCTTTTACCTTTTTCTCATGTTTATATAATGGTATGCTTGCATATATTTCATGAATACATTGTACATATTATGTTAATATTTACACAATTTAAAATATAGATGTGTTTTATTTTGAAGTGAGAAA
ATGAACATTAACAGGCATGTTTGTACAGCTAGAATATATTAGTAAGATACTGTTTTTCGTCATTCCAGAGCTACAACTAATAACACGAGGTTCCAAAGCTGAAGACTTTGTATAAAGTATTTGGGTTTTGTTCTTGTATTGCTTTCTTTC
AACAGTTTCAAAATAAAATATCATATAAATATTG

>ADAMTS9_CHL1_ENST00000498707_ENST00000397491_64619373_447177 length=3739nt 
 Breakpoint=2381nt
ACAGGGCGCCCGGCGCGCCTCGGAGCGCAAGTTCCTCGCCTTCTCCTGCCCGCTCGCTGGGCATTATGCGGCCAAGCAGCCGAGCCCCAGTCCTCCTCCTCCTCCTGCTCCTCCGGCTCCTCCTGCGGCCCGAGCGGCTCAGCTCTCGGC
AGGCGGCGGCGTTGCTCAGCCGAGCGCAGACGGGACCCTCGCAGCGAGACCTCAGCGACTCCTAAAGTCAAAAGTTGGCGGCGGGCGCCGGGCTCCGCGCGCTCTCCACGGCCGCTGCCTCGCGTCGCCGCCGCAGCCAAGGAGGGCAGG
AGGGAGGGGGGTGGGGGCAGCGGAGGGAGGGGTGGGAAGCACCATGCAGTTTGTATCCTGGGCCACACTGCTAACGCTCCTGGTGCGGGACCTGGCCGAGATGGGGAGCCCAGACGCCGCGGCGGCCGTGCGCAAGGACAGGCTGCACCC
GAGGCAAGTGAAATTATTAGAGACCCTGAGCGAATACGAAATCGTGTCTCCCATCCGAGTGAACGCTCTCGGAGAACCCTTTCCCACGAACGTCCACTTCAAAAGAACGCGACGGAGCATTAACTCTGCCACTGACCCCTGGCCTGCCTT
CGCCTCCTCCTCTTCCTCCTCTACCTCCTCCCAGGCGCATTACCGCCTCTCTGCCTTCGGCCAGCAGTTTCTATTTAATCTCACCGCCAATGCCGGATTTATCGCTCCACTGTTCACTGTCACCCTCCTCGGGACGCCCGGGGTGAATCA
GACCAAGTTTTATTCCGAAGAGGAAGCGGAACTCAAGCACTGTTTCTACAAAGGCTATGTCAATACCAACTCCGAGCACACGGCCGTCATCAGCCTCTGCTCAGGAATGCTGGGCACATTCCGGTCTCATGATGGGGATTATTTTATTGA
ACCACTACAGTCTATGGATGAACAAGAAGATGAAGAGGAACAAAACAAACCCCACATCATTTATAGGCGCAGCGCCCCCCAGAGAGAGCCCTCAACAGGAAGGCATGCATGTGACACCTCAGAACACAAAAATAGGCACAGTAAAGACAA
GAAGAAAACCAGAGCAAGAAAATGGGGAGAAAGGATTAACCTGGCTGGTGACGTAGCAGCATTAAACAGCGGCTTAGCAACAGAGGCATTTTCTGCTTATGGTAATAAGACGGACAACACAAGAGAAAAGAGGACCCACAGAAGGACAAA
ACGTTTTTTATCCTATCCACGGTTTGTAGAAGTCTTGGTGGTGGCAGACAACAGAATGGTTTCATACCATGGAGAAAACCTTCAACACTATATTTTAACTTTAATGTCAATTGTAGCCTCTATCTATAAAGACCCAAGTATTGGAAATTT
AATTAATATTGTTATTGTGAACTTAATTGTGATTCATAATGAACAGGATGGGCCTTCCATATCTTTTAATGCTCAGACAACATTAAAAAACTTTTGCCAGTGGCAGCATTCGAAGAACAGTCCAGGTGGAATCCATCATGATACTGCTGT
TCTCTTAACAAGACAGGATATCTGCAGAGCTCACGACAAATGTGATACCTTAGGCCTGGCTGAACTGGGAACCATTTGTGATCCCTATAGAAGCTGTTCTATTAGTGAAGATAGTGGATTGAGTACAGCTTTTACGATCGCCCATGAGCT
GGGCCATGTGTTTAACATGCCTCATGATGACAACAACAAATGTAAAGAAGAAGGAGTTAAGAGTCCCCAGCATGTCATGGCTCCAACACTGAACTTCTACACCAACCCCTGGATGTGGTCAAAGTGTAGTCGAAAATATATCACTGAGTT
TTTAGACACTGGTTATGGCGAGTGTTTGCTTAACGAACCTGAATCCAGACCCTACCCTTTGCCTGTCCAACTGCCAGGCATCCTTTACAACGTGAATAAACAATGTGAATTGATTTTTGGACCAGGTTCTCAGGTGTGCCCATATATGAT
GCAGTGCAGACGGCTCTGGTGCAATAACGTCAATGGAGTACACAAAGGCTGCCGGACTCAGCACACACCCTGGGCCGATGGGACGGAGTGCGAGCCTGGAAAGCACTGCAAGTATGGATTTTGTGTTCCCAAAGAAATGGATGTCCCCGT
GACAGATGGATCCTGGGGAAGTTGGAGTCCCTTTGGAACCTGCTCCAGAACATGTGGAGGGGGCATCAAAACAGCCATTCGAGAGTGCAACAGACCAGAACCAAAAAATGGTGGAAAATACTGTGTAGGACGTAGAATGAAATTTAAGTC
CTGCAACACGGAGCCATGTCTCAAGCAGAAGCGAGACTTCCGAGATGAACAGTGTGCTCACTTTGACGGGAAGCATTTTAACATCAACGGTCTGCTTCCCAATGTGCGCTGGGTCCCTAAATACAGTGGAATGACAGTGATGAAAAGCCT
CTCAAAGGAAGCCTTCGGTCCCTTAATAGGGATATGCAGCCTACTGAAAGTGCTGACAGCTTAGTCGAATACGGAGAGGGAGACCATGGTCTCTTCAGTGAAGATGGATCATTTATTGGTGCCTACGCTGGATCTAAGGAGAAGGGATCT
GTTGAAAGCAATGGAAGTTCTACAGCAACTTTTCCCCTTCGGGCATAAACACAACATATGTAAGCAACGCTACTGGTTCACCCCAACCTTCCATATTTATCTGTTCAAAGGAGCAAGAACTTTCATATAGGAATAGAAACATGCTGGCCG
AAGATTTCATCCAGAAGTCAACATCCTGCAATTATGTTGAAAAGAGTAGTACTTTCTTCAAAATATAAAATGCCAAGCACTTCAGGCCTATGTTTTGCTTATATTGTTTTCAGGTGCTCAAAATGCAAAACACAAAACAAATCCTGCATT
TAGATACACCTCAACTAAATCCAAAGTCCCCATTCAGTATATTCCATATTTGCCTGATTTTACTATTCGGTGTGTTTGCATAGATGTTGCTACTTGGTGGGTTTTTCTCCGTATGCACATTGGTATACAGTCTCTGAGAACTGGCTTGGT
GACTTTGCTTCACTACAGGTTAAAAGACCATAAGCAAACTGGTTATTTAAAATGTAAAAAGGAATATGAAAGTCTTATTAAAACACTTCATTGAAAATATACAGTCTAAATTTATTATTTAAATTTTACTAGCAAAAGTCTTAGGTGAAC
AATCAACTAGTATTTGTTGAGCTCCTATTTGCCCAGAGATGGTCATATTTAAACAGAAGTATACGTTTTTCAGTTTCAACATGAATTTTTTTATTTCTGTCAGTTATGACATCCACAAGCATCACTTTTTGTGTCTGTTTTTTTTTTTTT
TCTTGGACTAAATTCAACTGCATGGAAGCGGTGGTCAGAAGGTTGTTTTATACGAGAACAGGCAGAAAGTGCCCATTGTTCAGGATTCTAATAGCTACATCTACTTAATATCTTCATTTCTAAATTGACTGCTTTTACCTTTTTCTCATG
TTTATATAATGGTATGCTTGCATATATTTCATGAATACATTGTACATATTATGTTAATATTTACACAATTTAAAATATAGATGTGTTTTATTTTGAAGTGAGAAAATGAACATTAACAGGCATGTTTGTACAGCTAGAATATATTAGTAA
GATACTGTTTTTCGTCATTCCAGAGCTACAACTAATAACACGAGGTTCCAAAGCTGAAGACTTTGTATAAAGTATTTGGGTTTTGTTCTTGTATTGCTTTCTTTCAACAGTTTCAAAATAAAATATCATATAAATATTG

N-Truncated Transcript (5UTR-3CDS) Sequences

C-Truncated Transcript (5CDS-3UTR) Sequences

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Fusion Protein Sequence for ADAMTS9_CHL1

In-frame Fusion Protein Sequences.

>ADAMTS9_CHL1_ENST00000295903_ENST00000397491_64619373_447177 length=374nt
MHAGRACPEPDLGPGSDRTGRTRACARGHPAAARFLPCPAAPVPAAPRLCCAPSSCSSALWLPAPPDPHQVLLFCITAAMYMFFFRCKDGLKGFTFSALRFIVGKEEIPTHSFSPEAAYAKVEQKREQHEEKPGRMNMIGLVRKFVDSIC
KHGPRHRCCKHYEDNCISYCIKGFIRMFSVGYLIQCCLRIPSAFRHLFTQPSRLLSLFYNKENFQLGAFLGSFVSIYKGTSCFLRWIRNLDDELHAIIAGFLAGISMMFYKSTTISMYLASKLVETMYFKGIEAGKVPYFPHADTIIYSI
STAICFQAAVMEVQTLRPSYWKFLLRLTKGKFAVMNRKVLDVFGTGASKHFQDFIPRLDPRYTTVTPELPTEFS

>ADAMTS9_CHL1_ENST00000498707_ENST00000397491_64619373_447177 length=678nt
MQFVSWATLLTLLVRDLAEMGSPDAAAAVRKDRLHPRQVKLLETLSEYEIVSPIRVNALGEPFPTNVHFKRTRRSINSATDPWPAFASSSSSSTSSQAHYRLSAFGQQFLFNLTANAGFIAPLFTVTLLGTPGVNQTKFYSEEEAELKHC
FYKGYVNTNSEHTAVISLCSGMLGTFRSHDGDYFIEPLQSMDEQEDEEEQNKPHIIYRRSAPQREPSTGRHACDTSEHKNRHSKDKKKTRARKWGERINLAGDVAALNSGLATEAFSAYGNKTDNTREKRTHRRTKRFLSYPRFVEVLVV
ADNRMVSYHGENLQHYILTLMSIDGPSISFNAQTTLKNFCQWQHSKNSPGGIHHDTAVLLTRQDICRAHDKCDTLGLAELGTICDPYRSCSISEDSGLSTAFTIAHELGHVFNMPHDDNNKCKEEGVKSPQHVMAPTLNFYTNPWMWSKC
SRKYITEFLDTGYGECLLNEPESRPYPLPVQLPGILYNVNKQCELIFGPGSQVCPYMMQCRRLWCNNVNGVHKGCRTQHTPWADGTECEPGKHCKYGFCVPKEMDVPVTDGSWGSWSPFGTCSRTCGGGIKTAIRECNRPEPKNGGKYCV
GRRMKFKSCNTEPCLKQKRDFRDEQCAHFDGKHFNINGLLPNVRWVPKYSGMTVMKSLSKEAFGPLIGICSLLKVLTA

N-Truncated Protein (5UTR-3CDS) Sequences

C-Truncated Protein (5CDS-3UTR) Sequences

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Personalized Fusion Protein Sequence for ADAMTS9_CHL1

TCGA Kinase/DNA-binding Domain Mutated Fusion Protein Sequences

Num

Gene Group

Domain Loci

Fusion Protein ID

Fusion Gene Name

Partner

Mutated Residue in WT Protein

Seq. Length

Mutated Residue in Fusion Protein

CCLE Kinase/DNA-binding Domain Mutated Fusion Protein Sequences

Num

Gene Group

Domain Loci

Fusion Protein ID

Fusion Gene Name

Partner

Mutated Residue in WT Protein

Seq. Length

Mutated Residue in Fusion Protein

TCGA All Mutated Fusion Protein Sequences

Fusion Protein ID

Sample ID

Mutated Partner

AAchange in WT

Seq. Length

AAchange in Fusion

CCLE All Mutated Fusion Protein Sequences

Fusion Protein ID

Sample ID

Mutated Partner

AAchange in WT

Seq. Length

AAchange in Fusion

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Fusion Gene Exprssed Samples for ADAMTS9_CHL1

RNA-seq based fusion gene expressed samples.

Source	Study	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB		LUAD	TCGA-62-8395-01A	ADAMTS9	chr3	64619373	-	CHL1	chr3	64619373	+
TCGAfusionPortal		LUAD	TCGA-62-8395-01A	ADAMTS9	chr3	64619374	-	CHL1	chr3	447178	+

DNA-seq based fusion gene expressed samples.

Source

Study

Disease

Sample

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

SV type

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Related Drugs for ADAMTS9_CHL1

PubMed Abstract Search With ['A-B' AND 'drug'], ['A::B' AND 'drug']
* For more details on the Studied, Reported, Approved Drugs targeting this fusion gene, Go to FusionPub.

PMID

Fusion Gene Name

Drug

Study Title

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