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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:LIN52_AHSA1 (FusionGDB2 ID:HG91750TG10598)

Fusion Gene Summary for LIN52_AHSA1

Fusion gene summary

Fusion gene information	Fusion gene name: LIN52_AHSA1
	Fusion gene ID: hg91750tg10598
		Hgene	Tgene
	Gene symbol	LIN52	AHSA1
	Gene ID	91750	10598
	Gene name	lin-52 DREAM MuvB core complex component	activator of HSP90 ATPase activity 1
	Synonyms	C14orf46\|c14_5549	AHA1\|C14orf3\|hAha1\|p38
	Cytomap	14q24.3	14q24.3
	Type of gene	protein-coding	protein-coding
	Description	protein lin-52 homologlin-52 homolog	activator of 90 kDa heat shock protein ATPase homolog 1AHA1, activator of heat shock 90kDa protein ATPase homolog 1
	Modification date	20240305	20240305
	UniProtAcc	.	.
	Ensembl transtripts involved in fusion gene	ENST00000554076, ENST00000555028,
Fusion gene scores	* DoF score	* DoF score (Degree of Frequency) = # partners X # break points X # disease types 13 X 8 X 10=1040	* DoF score (Degree of Frequency) = # partners X # break points X # disease types 1 X 9 X 5=45
	# samples	16	9
	** MAII score	** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score10) log2(16/104010)=-2.70043971814109 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(9/4510)=1 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0
Context	PubMed: LIN52 [Title/Abstract] AND AHSA1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	LIN52(74551696)-AHSA1(77928502), # samples:1

Fusion gene breakpoints across LIN52 (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 AHSA1 (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 LIN52_AHSA1

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
LIN52	chr14	74551696	AHSA1	chr14	74551696
LIN52	chr14	74551696	AHSA1	chr14	77928502
LIN52	chr14	74551696	AHSA1	chr14	77928503

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 LIN52_AHSA1

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

* 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

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
Tgene	AHSA1	GO:0032781	positive regulation of ATP-dependent activity	29127155

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Fusion Genomic Features for LIN52_AHSA1

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)
LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+	2.77e-01	7.23e-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 LIN52_AHSA1

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
3UTR-3CDS	ENST00000554076	ENST00000216479	LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+
3UTR-3CDS	ENST00000554076	ENST00000535854	LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+
3UTR-3UTR	ENST00000554076	ENST00000555457	LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+
5CDS-3UTR	ENST00000555028	ENST00000555457	LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+
In-frame	ENST00000555028	ENST00000216479	LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+
In-frame	ENST00000555028	ENST00000535854	LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+

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)
ENST00000555028	ENST00000216479	LIN52	chr14	74551696	AHSA1	chr14	77928502	198	562
ENST00000555028	ENST00000535854	LIN52	chr14	74551696	AHSA1	chr14	77928502	198	290

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
ENST00000555028	ENST00000216479	LIN52	chr14	74551696	AHSA1	chr14	77928502	3.76e-02	9.62e-01
ENST00000555028	ENST00000535854	LIN52	chr14	74551696	AHSA1	chr14	77928502	9.33e-02	9.07e-01

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
ENST00000555028	ENST00000555457	LIN52	chr14	74551696	AHSA1	chr14	77928502	0.00e+00	9.89e-01

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Fusion Protein Retained/Non-Retained Functional Features for LIN52_AHSA1

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).

No matching images found for ${hg}_${tg}.

- 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

- 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

- 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 LIN52_AHSA1

In-frame Fusion Transcript Sequences.

>LIN52_AHSA1_ENST00000555028_ENST00000216479_74551696_77928502 length=1169nt 
 Breakpoint=198nt
AACATCCGCGTAAGGGGCGTGGCTATACTTAGGGGCGGGGCTAGGCAAAGATTGCCCTATGAGGCGAGGGAATGAGACTGGGCTGCGAGTTGGGGATAGGGTTTCTCTTTGGGGGCGTGGCTTATGGAACCTCGTTTTCCCGCCGACGGT
TGGCCACGTCACGTGACATGGGTTGGAAGATGGCGTCTCCCACAGACGGTACTTCTAAGTCAGGAGTACAATACAAAGGACATGTGGAGATCCCCAATTTGTCTGATGAAAACAGCGTGGATGAAGTGGAGATTAGTGTGAGCCTTGCCA
AAGATGAGCCTGACACAAATCTCGTGGCCTTAATGAAGGAAGAAGGGGTGAAACTTCTAAGAGAAGCAATGGGAATTTACATCAGCACCCTCAAAACAGAGTTCACCCAGGGCATGATCTTACCTACAATGAATGGAGAGTCAGTAGACC
CAGTGGGGCAGCCAGCACTGAAAACTGAGGAGCGCAAGGCTAAGCCTGCTCCTTCAAAAACCCAGGCCAGACCTGTTGGAGTCAAAATCCCCACTTGTAAGATCACTCTTAAGGAAACCTTCCTGACGTCACCAGAGGAGCTCTATAGAG
TGTTTACCACCCAAGAGCTGGTGCAGGCCTTTACCCATGCTCCTGCAACATTAGAAGCAGACAGAGGTGGAAAGTTCCACATGGTAGATGGCAACGTCTCTGGGGAATTTACTGATCTGGTCCCTGAGAAACATATTGTGATGAAGTGGA
GGTTTAAATCTTGGCCAGAGGGACACTTTGCCACCATCACCTTGACCTTCATCGACAAGAACGGAGAGACTGAGCTGTGCATGGAAGGTCGAGGCATCCCTGCTCCTGAGGAAGAGCGGACGCGACAGGGCTGGCAGCGGTACTACTTTG
AGGGCATTAAACAGACCTTTGGCTATGGCGCACGCTTATTTTAGGGCCAGCGGCAGGGGACTCCAGCCTGCTGGACACTTCAGTCCAGCTCTCTCCTGACTGGGGCTTGCGACTCACAGGATTGCATCGTCCCAGCTGCTAACTTGGGGC
CGGGGCCCCTCCCTTCCACATATACCTTGGGTTTGTGCATGTTTTCTGCTGGGTGGGTTCAGAGGGCAATTTCTCTTTTATGTGTACATATGCTAAATAAACATAATTTAAAAAACATG

>LIN52_AHSA1_ENST00000555028_ENST00000535854_74551696_77928502 length=942nt 
 Breakpoint=198nt
AACATCCGCGTAAGGGGCGTGGCTATACTTAGGGGCGGGGCTAGGCAAAGATTGCCCTATGAGGCGAGGGAATGAGACTGGGCTGCGAGTTGGGGATAGGGTTTCTCTTTGGGGGCGTGGCTTATGGAACCTCGTTTTCCCGCCGACGGT
TGGCCACGTCACGTGACATGGGTTGGAAGATGGCGTCTCCCACAGACGGTACTTCTAAGTCAGGAGTACAATACAAAGGACATGTGGAGATCCCCAATTTGTCTGATGAAAACAGCGTGGATGAAGTGGAGATTAGTGTGAGCCTTGCCA
AAGATGAGCCTGACACAAATCTCGTGGCCTTAATGAAGGAAGAAGGGGTGAAACTTCTAAGAGAAGCAATGGGAATTTACATCAGCACCCTCAAAACAGAGTTCACCCAGGGCATGATCTTACCTACAATGAATGGAGAGTCAGTAGACC
CAGTGGGGCAGCCAGCACTGAAAACTGAGGAGCGCAAGGCTAAGCCTGCTCCTTCAAAAACCCAGGCCAGACCTGTTGGAGTCAAAATCCCCACTTGTAAGATCACTCTTAAGGAAACCTTCCTGACGTCACCAGAGGAGCTCTATAGAG
TGTTTACCACCCAAGAGCTGGTGCAGGCCTTTACCCATGCTCCTGCAACATTAGAAGCAGACAGAGGTGGAAAGTTCCACATGGTAGATGGCAACGTCTCTGGGGAATTTACTGATCTGGTCCCTGAGAAACATATTGTGATGAAGTGGA
GGTTTAAATCTTGGCCAGAGGGGTCTCACTGTCACTCAGGCTAGAGTGCAGTGGCATAATCACAGCAAACTGCAGCCTTAACCTCCCAGACCCAAACGATCCTCCTGCTTCAGCTTCCCAAGTAGCTGAGACTACGTGTGCCACCATGCC
AGCTTTTTTTTTTTTTTTTTTTTTTTTACTTTTTTACTTTTT

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

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

>LIN52_AHSA1_ENST00000555028_ENST00000555457_74551696_77928502 length=198nt 
 Breakpoint=198nt
AACATCCGCGTAAGGGGCGTGGCTATACTTAGGGGCGGGGCTAGGCAAAGATTGCCCTATGAGGCGAGGGAATGAGACTGGGCTGCGAGTTGGGGATAGGGTTTCTCTTTGGGGGCGTGGCTTATGGAACCTCGTTTTCCCGCCGACGGT
TGGCCACGTCACGTGACATGGGTTGGAAGATGGCGTCTCCCACAGACG

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Fusion Protein Sequence for LIN52_AHSA1

In-frame Fusion Protein Sequences.

>LIN52_AHSA1_ENST00000555028_ENST00000216479_74551696_77928502 length=562nt
MESSGSRSCSGGRGELRAACLQPEVPGAPGLSWWPSTAGLRQSQTDLQLSLSIWCGKKMGSYLSVPAYFTSRDLFRCSECQDSLTNWYYEKDGKLYCPKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYAL
VQHATLYCGKCHNEVVLAPMFERLSTESVQEQLPYSVTLISMPATTEGRRGFSVSVESACSNYATTVQVKEVNRMHISPNNRNAIHPGDRILEINGTPVRTLRVEEVEDAISQTSQTLQLLIEHDPVSQRLDQLRLEARLAPHMQNAGHP
HALSTLDTKENLEGTLRRRSLRRSNSISKSPGPSSPKEPLLFSRDISRSESLRCSSSYSQQIFRPCDLIHGEVLGKGFFGQAIKVTHKATGKVMVMKELIRCDEETQKTFLTEVKVMRSLDHPNVLKFIGVLYKDKKLNLLTEYIEGGTL
KDFLRSMDPFPWQQKVRFAKGIASGMTKNRRCKLLPLVMAAPLSMEHGTVTVVGIPPETDSSDRKNFFGRAFEKAAESTSSRMLHNHFDLSVIELKAEDRSKFLDALISLLS

>LIN52_AHSA1_ENST00000555028_ENST00000535854_74551696_77928502 length=290nt
MRLGCELGIGFLFGGVAYGTSFSRRRLATSRDMGWKMASPTDGTSKSGVQYKGHVEIPNLSDENSVDEVEISVSLAKDEPDTNLVALMKEEGVKLLREAMGIYISTLKTEFTQGMILPTMNGESVDPVGQPALKTEERKAKPAPSKTQAR
PVGVKIPTCKITLKETFLTSPEELYRVFTTQELVQAFTHAPATLEADRGGKFHMVDGNVSGEFTDLVPEKHIVMKWRFKSWPEGHFATITLTFIDKNGETELCMEGRGIPAPEEERTRQGWQRYYFEGIKQTFGYGARLF

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

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

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Personalized Fusion Protein Sequence for LIN52_AHSA1

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

>LIN52_AHSA1_ENST00000555028_ENST00000535854_74551696_77928502_3-gene_p.V85I_290_M37I length=290AA
MRLGCELGIGFLFGGVAYGTSFSRRRLATSRDMGWKIASPTDGTSKSGVQYKGHVEIPNLSDENSVDEVEISVSLAKDEPDTNLVALMKEEGVKLLREAMGIYISTLKTEFTQGMILPTMNGESVDPVGQPALKTEERKAKPAPSKTQAR
PVGVKIPTCKITLKETFLTSPEELYRVFTTQELVQAFTHAPATLEADRGGKFHMVDGNVSGEFTDLVPEKHIVMKWRFKSWPEGHFATITLTFIDKNGETELCMEGRGIPAPEEERTRQGWQRYYFEGIKQTFGYGARLF

Fusion Protein ID	Sample ID	Mutated Partner	AAchange in WT	Seq. Length	AAchange in Fusion
ENST00000555028_ENST00000535854_74551696_77928502	TCGA-AX-A0J1-01A	3-gene	p.V85I	290	M37I

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 LIN52_AHSA1

RNA-seq based fusion gene expressed samples.

Source	Study	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB		ESCA	TCGA-IG-A6QS-01A	LIN52	chr14	74551696	+	AHSA1	chr14	74551696	+
ChimerDB		ESCA	TCGA-IG-A6QS-01A	LIN52	chr14	74551696	+	AHSA1	chr14	77928502	+
ChimerDB		ESCA	TCGA-IG-A6QS	LIN52	chr14	74551696	+	AHSA1	chr14	74551696	+
WashU		ESCA	TCGA-IG-A6QS-01A	LIN52	chr14	74551696	+	AHSA1	chr14	77928503	+

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 LIN52_AHSA1

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