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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:WT1-SLC1A2 (FusionGDB2 ID:98761)

Fusion Gene Summary for WT1-SLC1A2

check button Fusion gene summary
Fusion gene informationFusion gene name: WT1-SLC1A2
Fusion gene ID: 98761
HgeneTgene
Gene symbol

WT1

SLC1A2

Gene ID

7490

6506

Gene nameWT1 transcription factorsolute carrier family 1 member 2
SynonymsAWT1|GUD|NPHS4|WAGR|WIT-2|WT33EAAT2|EIEE41|GLT-1|HBGT
Cytomap

11p13

11p13

Type of geneprotein-codingprotein-coding
DescriptionWilms tumor proteinWilms tumor 1excitatory amino acid transporter 2excitotoxic amino acid transporter 2glutamate/aspartate transporter IIsodium-dependent glutamate/aspartate transporter 2solute carrier family 1 (glial high affinity glutamate transporter), member 2
Modification date2020032020200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000379079, ENST00000332351, 
ENST00000530998, ENST00000448076, 
ENST00000278379, ENST00000395750, 
ENST00000395753, ENST00000606205, 
ENST00000479543, 
Fusion gene scores* DoF score2 X 2 X 2=810 X 10 X 6=600
# samples 213
** MAII scorelog2(2/8*10)=1.32192809488736log2(13/600*10)=-2.20645087746743
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: WT1 [Title/Abstract] AND SLC1A2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointWT1(32457392)-SLC1A2(35339063), # samples:2
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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneWT1

GO:0000122

negative regulation of transcription by RNA polymerase II

7585606

HgeneWT1

GO:0007530

sex determination

9815658

HgeneWT1

GO:0008285

negative regulation of cell proliferation

9553041|9765217

HgeneWT1

GO:0030308

negative regulation of cell growth

9553041|9765217

HgeneWT1

GO:0045892

negative regulation of transcription, DNA-templated

1332065|7585606|7720589|8119964|12802290|14701728|19050011

HgeneWT1

GO:0045893

positive regulation of transcription, DNA-templated

8132626|9178767|9553041|9765217|12802290|14701728|16467207|21390327

HgeneWT1

GO:0045944

positive regulation of transcription by RNA polymerase II

23042785

HgeneWT1

GO:0071371

cellular response to gonadotropin stimulus

15961562

TgeneSLC1A2

GO:0015813

L-glutamate transmembrane transport

26690923

TgeneSLC1A2

GO:0070207

protein homotrimerization

15265858|15483603

TgeneSLC1A2

GO:0070779

D-aspartate import across plasma membrane

7521911

TgeneSLC1A2

GO:0098712

L-glutamate import across plasma membrane

7521911|15265858|26690923


check buttonFusion gene breakpoints across WT1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across SLC1A2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4BRCATCGA-GI-A2C8-01AWT1chr11

32457392

+SLC1A2chr11

35339063

-
ChimerDB4BRCATCGA-GI-A2C8-01AWT1chr11

32457392

+SLC1A2chr11

35339063

-


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Fusion Gene ORF analysis for WT1-SLC1A2

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
intron-3CDSENST00000379079ENST00000278379WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000379079ENST00000395750WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000379079ENST00000395753WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000379079ENST00000606205WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-intronENST00000379079ENST00000479543WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-3CDSENST00000332351ENST00000278379WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000332351ENST00000395750WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000332351ENST00000395753WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000332351ENST00000606205WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-intronENST00000332351ENST00000479543WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-3CDSENST00000530998ENST00000278379WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000530998ENST00000395750WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000530998ENST00000395753WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000530998ENST00000606205WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-intronENST00000530998ENST00000479543WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-3CDSENST00000448076ENST00000278379WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000448076ENST00000395750WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000448076ENST00000395753WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-5UTRENST00000448076ENST00000606205WT1chr11

32457392

+SLC1A2chr11

35339063

-
intron-intronENST00000448076ENST00000479543WT1chr11

32457392

+SLC1A2chr11

35339063

-

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for WT1-SLC1A2


check buttonFusionAI 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.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution 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.

check buttonDistribution 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 WT1-SLC1A2


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
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.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page


* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for WT1-SLC1A2


check button 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.

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Fusion Gene PPI Analysis for WT1-SLC1A2


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for WT1-SLC1A2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for WT1-SLC1A2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneWT1C0950121Denys-Drash Syndrome20CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneWT1C0027708Nephroblastoma8CGI;CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneWT1C3151568NEPHROTIC SYNDROME, TYPE 46CTD_human;GENOMICS_ENGLAND;UNIPROT
HgeneWT1C0950122Frasier Syndrome4CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneWT1C1837026MEACHAM SYNDROME (disorder)3CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneWT1C0023467Leukemia, Myelocytic, Acute2CGI;CTD_human
HgeneWT1C0026998Acute Myeloid Leukemia, M12CTD_human
HgeneWT1C0345967Malignant mesothelioma2CTD_human;GENOMICS_ENGLAND
HgeneWT1C1879321Acute Myeloid Leukemia (AML-M2)2CTD_human
HgeneWT1C2930471Bilateral Wilms Tumor2CTD_human
HgeneWT1C0006142Malignant neoplasm of breast1CTD_human
HgeneWT1C0007102Malignant tumor of colon1CTD_human
HgeneWT1C0009375Colonic Neoplasms1CTD_human
HgeneWT1C0017636Glioblastoma1CTD_human
HgeneWT1C0017658Glomerulonephritis1CTD_human
HgeneWT1C0018054Gonadal Dysgenesis, 46,XY1ORPHANET
HgeneWT1C0019284Diaphragmatic Hernia1CTD_human
HgeneWT1C0023418leukemia1CTD_human
HgeneWT1C0023473Myeloid Leukemia, Chronic1CTD_human
HgeneWT1C0023487Acute Promyelocytic Leukemia1CTD_human
HgeneWT1C0024121Lung Neoplasms1CTD_human
HgeneWT1C0027809Neurilemmoma1CTD_human
HgeneWT1C0029463Osteosarcoma1CTD_human
HgeneWT1C0030297Pancreatic Neoplasm1CTD_human
HgeneWT1C0031149Peritoneal Neoplasms1CTD_human
HgeneWT1C0085215Ovarian Failure, Premature1CTD_human
HgeneWT1C0086367Gonadotropin-Resistant Ovary Syndrome1CTD_human
HgeneWT1C0206115WAGR Syndrome1CTD_human;GENOMICS_ENGLAND;ORPHANET
HgeneWT1C0235833Congenital diaphragmatic hernia1CTD_human
HgeneWT1C0242379Malignant neoplasm of lung1CTD_human
HgeneWT1C0265699Congenital hernia of foramen of Morgagni1CTD_human
HgeneWT1C0265700Congenital hernia of foramen of Bochdalek1CTD_human
HgeneWT1C0334588Giant Cell Glioblastoma1CTD_human
HgeneWT1C0346647Malignant neoplasm of pancreas1CTD_human
HgeneWT1C0346990Carcinomatosis of peritoneal cavity1CTD_human
HgeneWT1C0678222Breast Carcinoma1CTD_human
HgeneWT1C0751374Schwannomatosis, Plexiform1CTD_human
HgeneWT1C1257931Mammary Neoplasms, Human1CTD_human
HgeneWT1C1458155Mammary Neoplasms1CTD_human
HgeneWT1C1621958Glioblastoma Multiforme1CTD_human
HgeneWT1C1704377Bright Disease1CTD_human
HgeneWT1C1840452Hyaloideoretinal degeneration of Wagner1GENOMICS_ENGLAND
HgeneWT1C1868672NEPHROTIC SYNDROME, STEROID-RESISTANT, AUTOSOMAL RECESSIVE1ORPHANET
HgeneWT1C2931803Deletion 11p131ORPHANET
HgeneWT1C2936694Swyer Syndrome1ORPHANET
HgeneWT1C3494522Hypergonadotropic Ovarian Failure, X-Linked1CTD_human
HgeneWT1C451074446,XY partial gonadal dysgenesis1ORPHANET
HgeneWT1C4552079Premature Ovarian Failure 11CTD_human
HgeneWT1C4704874Mammary Carcinoma, Human1CTD_human
TgeneSLC1A2C0005586Bipolar Disorder4PSYGENET
TgeneSLC1A2C0036341Schizophrenia4PSYGENET
TgeneSLC1A2C0001973Alcoholic Intoxication, Chronic3PSYGENET
TgeneSLC1A2C0011570Mental Depression3PSYGENET
TgeneSLC1A2C0011581Depressive disorder3PSYGENET
TgeneSLC1A2C4310717EPILEPTIC ENCEPHALOPATHY, EARLY INFANTILE, 413CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneSLC1A2C0002736Amyotrophic Lateral Sclerosis1CTD_human
TgeneSLC1A2C0009171Cocaine Abuse1CTD_human
TgeneSLC1A2C0011860Diabetes Mellitus, Non-Insulin-Dependent1CTD_human
TgeneSLC1A2C0014544Epilepsy1CTD_human
TgeneSLC1A2C0024623Malignant neoplasm of stomach1CTD_human
TgeneSLC1A2C0027746Nerve Degeneration1CTD_human
TgeneSLC1A2C0038356Stomach Neoplasms1CTD_human
TgeneSLC1A2C0086237Epilepsy, Cryptogenic1CTD_human
TgeneSLC1A2C0236018Aura1CTD_human
TgeneSLC1A2C0236736Cocaine-Related Disorders1CTD_human
TgeneSLC1A2C0393554Amyotrophic Lateral Sclerosis With Dementia1CTD_human
TgeneSLC1A2C0525045Mood Disorders1PSYGENET
TgeneSLC1A2C0543859Amyotrophic Lateral Sclerosis, Guam Form1CTD_human
TgeneSLC1A2C0543888Epileptic encephalopathy1GENOMICS_ENGLAND
TgeneSLC1A2C0600427Cocaine Dependence1CTD_human
TgeneSLC1A2C0751111Awakening Epilepsy1CTD_human
TgeneSLC1A2C1708349Hereditary Diffuse Gastric Cancer1CTD_human
TgeneSLC1A2C3714756Intellectual Disability1GENOMICS_ENGLAND