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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:PTPN11-CUX2 (FusionGDB2 ID:69744)

Fusion Gene Summary for PTPN11-CUX2

check button Fusion gene summary
Fusion gene informationFusion gene name: PTPN11-CUX2
Fusion gene ID: 69744
HgeneTgene
Gene symbol

PTPN11

CUX2

Gene ID

5781

23316

Gene nameprotein tyrosine phosphatase non-receptor type 11cut like homeobox 2
SynonymsBPTP3|CFC|JMML|METCDS|NS1|PTP-1D|PTP2C|SH-PTP2|SH-PTP3|SHP2CDP2|CUTL2|EIEE67
Cytomap

12q24.13

12q24.11-q24.12

Type of geneprotein-codingprotein-coding
Descriptiontyrosine-protein phosphatase non-receptor type 11protein-tyrosine phosphatase 1Dprotein-tyrosine phosphatase 2Chomeobox protein cut-like 2homeobox protein cux-2
Modification date2020032920200313
UniProtAcc.

O14529

Ensembl transtripts involved in fusion geneENST00000531326, ENST00000392597, 
ENST00000351677, 		ENST00000261726, 
ENST00000551604, 
Fusion gene scores* DoF score10 X 10 X 5=5007 X 7 X 5=245
# samples 108
** MAII scorelog2(10/500*10)=-2.32192809488736
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/245*10)=-1.61470984411521
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PTPN11 [Title/Abstract] AND CUX2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointPTPN11(112910844)-CUX2(111779584), # 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgenePTPN11

GO:0035335

peptidyl-tyrosine dephosphorylation

15133037

HgenePTPN11

GO:0038127

ERBB signaling pathway

15133037

HgenePTPN11

GO:0043254

regulation of protein complex assembly

7493946

HgenePTPN11

GO:0046326

positive regulation of glucose import

7493946

HgenePTPN11

GO:0046628

positive regulation of insulin receptor signaling pathway

7493946

HgenePTPN11

GO:0048013

ephrin receptor signaling pathway

10655584

TgeneCUX2

GO:0000122

negative regulation of transcription by RNA polymerase II

15656993


check buttonFusion gene breakpoints across PTPN11 (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 CUX2 (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
ChimerDB4UCSTCGA-N6-A4VG-01APTPN11chr12

112910844

+CUX2chr12

111779584

+
ChimerDB4UCSTCGA-N6-A4VGPTPN11chr12

112910844

+CUX2chr12

111779584

+
ChimerDB4UCSTCGA-N6-A4VG-01APTPN11chr12

112910844

-CUX2chr12

111779584

+


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Fusion Gene ORF analysis for PTPN11-CUX2

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-3CDSENST00000531326ENST00000261726PTPN11chr12

112910844

+CUX2chr12

111779584

+
intron-intronENST00000531326ENST00000551604PTPN11chr12

112910844

+CUX2chr12

111779584

+
In-frameENST00000392597ENST00000261726PTPN11chr12

112910844

+CUX2chr12

111779584

+
5CDS-intronENST00000392597ENST00000551604PTPN11chr12

112910844

+CUX2chr12

111779584

+
In-frameENST00000351677ENST00000261726PTPN11chr12

112910844

+CUX2chr12

111779584

+
5CDS-intronENST00000351677ENST00000551604PTPN11chr12

112910844

+CUX2chr12

111779584

+

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)
ENST00000392597PTPN11chr12112910844+ENST00000261726CUX2chr12111779584+436110562032131642
ENST00000351677PTPN11chr12112910844+ENST00000261726CUX2chr12111779584+435610511982126642

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
ENST00000392597ENST00000261726PTPN11chr12112910844+CUX2chr12111779584+0.0012984280.9987016
ENST00000351677ENST00000261726PTPN11chr12112910844+CUX2chr12111779584+0.0012979210.99870205

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Fusion Genomic Features for PTPN11-CUX2


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)
PTPN11chr12112910844+CUX2chr12111779583+2.68E-060.9999974
PTPN11chr12112910844+CUX2chr12111779583+2.68E-060.9999974
PTPN11chr12112910844+CUX2chr12111779583+2.68E-060.9999974
PTPN11chr12112910844+CUX2chr12111779583+2.68E-060.9999974

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 PTPN11-CUX2


check button Go to

FGviewer for the breakpoints of chr12:112910844-chr12:111779584

.
- 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
.CUX2

O14529

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: Transcription factor involved in the control of neuronal proliferation and differentiation in the brain. Regulates dendrite development and branching, dendritic spine formation, and synaptogenesis in cortical layers II-III. Binds to DNA in a sequence-specific manner. {ECO:0000250|UniProtKB:P70298}.

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
HgenePTPN11chr12:112910844chr12:111779584ENST00000351677+716112_216284.33333333333331886.3333333333333DomainSH2 2
HgenePTPN11chr12:112910844chr12:111779584ENST00000351677+7166_102284.33333333333331886.3333333333333DomainSH2 1
HgenePTPN11chr12:112910844chr12:111779584ENST00000392597+711112_216284.3333333333333461.0DomainSH2 2
HgenePTPN11chr12:112910844chr12:111779584ENST00000392597+7116_102284.3333333333333461.0DomainSH2 1
TgeneCUX2chr12:112910844chr12:111779584ENST0000026172619221327_14371128.33333333333331487.0Compositional biasNote=Pro-rich
TgeneCUX2chr12:112910844chr12:111779584ENST0000026172619221168_12271128.33333333333331487.0DNA bindingHomeobox

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgenePTPN11chr12:112910844chr12:111779584ENST00000351677+716247_517284.33333333333331886.3333333333333DomainTyrosine-protein phosphatase
HgenePTPN11chr12:112910844chr12:111779584ENST00000392597+711247_517284.3333333333333461.0DomainTyrosine-protein phosphatase
HgenePTPN11chr12:112910844chr12:111779584ENST00000351677+716459_465284.33333333333331886.3333333333333RegionSubstrate binding
HgenePTPN11chr12:112910844chr12:111779584ENST00000392597+711459_465284.3333333333333461.0RegionSubstrate binding
TgeneCUX2chr12:112910844chr12:111779584ENST000002617261922195_3741128.33333333333331487.0Coiled coilOntology_term=ECO:0000255
TgeneCUX2chr12:112910844chr12:111779584ENST000002617261922690_7171128.33333333333331487.0Coiled coilOntology_term=ECO:0000255
TgeneCUX2chr12:112910844chr12:111779584ENST000002617261922440_5351128.33333333333331487.0Compositional biasNote=Pro-rich
TgeneCUX2chr12:112910844chr12:111779584ENST000002617261922802_8131128.33333333333331487.0Compositional biasNote=Poly-Ser
TgeneCUX2chr12:112910844chr12:111779584ENST0000026172619221038_11251128.33333333333331487.0DNA bindingCUT 3
TgeneCUX2chr12:112910844chr12:111779584ENST000002617261922544_6311128.33333333333331487.0DNA bindingCUT 1
TgeneCUX2chr12:112910844chr12:111779584ENST000002617261922887_9741128.33333333333331487.0DNA bindingCUT 2


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Fusion Gene Sequence for PTPN11-CUX2


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.
>In-frame_ENST00000392597_ENST00000261726_TCGA-N6-A4VG-01A_PTPN11_chr12_112910844_+_CUX2_chr12_111779584_length(transcript)=4361nt_BP=1056nt
GCGGAGGAGGAGCGAGCCGGGCCGGGGGGCAGCTGCACAGTCTCCGGGATCCCCAGGCCTGGAGGGGGGTCTGTGCGCGGCCGGCTGGCT
CTGCCCCGCGTCCGGTCCCGAGCGGGCCTCCCTCGGGCCAGCCCGATGTGACCGAGCCCAGCGGAGCCTGAGCAAGGAGCGGGTCCGTCG
CGGAGCCGGAGGGCGGGAGGAACATGACATCGCGGAGATGGTTTCACCCAAATATCACTGGTGTGGAGGCAGAAAACCTACTGTTGACAA
GAGGAGTTGATGGCAGTTTTTTGGCAAGGCCTAGTAAAAGTAACCCTGGAGACTTCACACTTTCCGTTAGAAGAAATGGAGCTGTCACCC
ACATCAAGATTCAGAACACTGGTGATTACTATGACCTGTATGGAGGGGAGAAATTTGCCACTTTGGCTGAGTTGGTCCAGTATTACATGG
AACATCACGGGCAATTAAAAGAGAAGAATGGAGATGTCATTGAGCTTAAATATCCTCTGAACTGTGCAGATCCTACCTCTGAAAGGTGGT
TTCATGGACATCTCTCTGGGAAAGAAGCAGAGAAATTATTAACTGAAAAAGGAAAACATGGTAGTTTTCTTGTACGAGAGAGCCAGAGCC
ACCCTGGAGATTTTGTTCTTTCTGTGCGCACTGGTGATGACAAAGGGGAGAGCAATGACGGCAAGTCTAAAGTGACCCATGTTATGATTC
GCTGTCAGGAACTGAAATACGACGTTGGTGGAGGAGAACGGTTTGATTCTTTGACAGATCTTGTGGAACATTATAAGAAGAATCCTATGG
TGGAAACATTGGGTACAGTACTACAACTCAAGCAGCCCCTTAACACGACTCGTATAAATGCTGCTGAAATAGAAAGCAGAGTTCGAGAAC
TAAGCAAATTAGCTGAGACCACAGATAAAGTCAAACAAGGCTTTTGGGAAGAATTTGAGACACTACAACAACAGGAGTGCAAACTTCTCT
ACAGCCGAAAAGAGGGTCAAAGGCAAGAAAACAAAAACAAAAATAGATATAAAAACATCCTGCCCTCCTACCTGAAACGTCGCTATGGCC
TCATCAGCACCGGCTCAGACAGTGAGTCCCCGGCCACCCGCTCAGAGTGCCCCAGCCCCTGCCTGCAGCCCCAGGACCTGAGCCTCCTGC
AGATCAAGAAGCCCCGGGTGGTGCTGGCACCCGAGGAGAAGGAGGCACTGCGGAAGGCCTATCAGCTGGAACCCTACCCCTCGCAGCAGA
CCATCGAGCTCCTCTCCTTCCAGCTCAACCTCAAGACCAACACCGTCATCAACTGGTTCCACAACTACAGGTCCCGGATGCGCCGGGAGA
TGTTGGTGGAGGGGACCCAGGATGAGCCAGACCTTGATCCAAGCGGGGGTCCTGGAATCCTACCGCCAGGCCACTCCCACCCAGACCCCA
CCCCGCAGAGCCCTGACTCTGAGACTGAGGACCAGAAGCCAACCGTGAAGGAACTGGAGCTTCAGGAGGGCCCTGAGGAGAACAGCACAC
CCCTGACCACCCAGGACAAGGCCCAAGTGAGGATCAAGCAGGAACAGATGGAGGAGGATGCTGAGGAAGAGGCAGGCAGCCAGCCCCAGG
ACTCAGGGGAGCTGGACAAAGGCCAAGGTCCCCCCAAAGAGGAGCATCCCGACCCTCCGGGTAATGATGGACTCCCAAAAGTGGCTCCCG
GGCCCCTCCTTCCAGGTGGATCCACCCCAGACTGTCCCTCACTTCATCCCCAACAGGAGAGTGAGGCCGGGGAGCGACTTCACCCGGACC
CTTTAAGTTTTAAGTCAGCCTCAGAGTCCTCACGCTGCAGCCTGGAGGTGTCACTGAACTCGCCCTCGGCCGCCTCCTCACCAGGCCTCA
TGATGTCTGTGTCACCTGTCCCCTCCTCCTCAGCTCCCATCTCCCCATCCCCACCTGGCGCCCCCCCTGCCAAAGTGCCGAGTGCCAGCC
CCACTGCTGACATGGCTGGAGCCTTGCACCCCAGTGCCAAGGTGAACCCCAACTTGCAGCGGCGGCATGAGAAGATGGCCAATCTGAACA
ACATCATTTACCGAGTAGAGCGGGCTGCCAATCGGGAGGAGGCCCTGGAGTGGGAGTTCTGAAGGCAGGGTGAGGGGGCAAGGGACATAC
CCTGGTAACTACCTTCCTTCTCGCACTTACTCTCCTCAACAGGATGGGGTAAGGGAGGGAGGAACTCAACCATCAAAATGTGGACAGCAA
TGTTATGCCGTTTACGTTTTTTGTTGTAATCCTAGTTCTATGAAGCTGTGTGAGCAGGTGGGTCAAATGCCATTGCCTCCACTTTTCTGC
ACCCCCCTGCTCCTCTTCACCCTGACCCCTCTGCAGGAGGCAGAAGCAAAATGGCACCACATATTCACCTGAAAACTCCAAACTCTTTTA
GAAAAATAAATAAATATTTATAGACCTCTTTTAGATATTTTAATAAAGGATCCTTTGGAATTTATCCCAGCTGATGCTGTTTTGATATTA
CAGAGAGTTATAAAATCAGGATGCTGTCACAACTGTTGCGAAGTATACACTGAAGTTGTGTCGTTTTTGCCACTAGATGAGATTAAAAGA
AGACAATTATTCAAAGCCATCACAAAACACTATAAGACTGACCAAAATTTAGATAACCTTTGAACCACGATTTTTTTCCACATCTGTCTG
TGAGACACAGCGCAATGCTACTGCCCTTCCAGAAACTGTGCTAAAAAGAGAAAGTCCAAAAGACTCTAAACAAAAACCTCGACGCCGTTG
AGGATGTGTTTCATTCTGGTGGTCTGTTTTGCAAGCTTGATAACAGAATGTCCGTGCCATTGTAAATGTTGTAGAGATGTGGGCCGTGGC
CCAACCGTCCTATATGAGATGTAGCATGGTACAGAACAAACTGCTTACACAGGTCTCACTAGTTAGAAACCTGTGGGCCATGGAGGTCAG
ACATCCATCTTGTCCATCTATAGGCAAGAAGTGTTTCCAGATCCTTTGGAAAGGTGGGCATGGGGCAGGTGCTTGGAGAGTGGCGTTTGA
GCCAGAGCGACCCCATTTCCCGTGTGAACCATAGGCACAACCCAGGAAGTTTCCCCACTTGTAGGAGTGTGGGTATTCCAGAGCAAGACT
GTGGCCACCATCTTCCCCTCTTGGTGTTTTCCGAAAGTGACAGTGTTGGTCATCCCATGACCACTGAAGCTTAGTAACCAGCGCCAAAAA
GTAGATTCATCAAACTAGAGACCCCAGCTCCCCTTCTCGCCATCTTCTTTCTCAAGTTGACCGTGGTGCTGTTTCTGGAAGGCATCTGCA
ACTCCAAGTCCATGCAGAACTCTGGAAGGCCAAGTTCATCGCAGCATGTTCACCATATCCCAGCCTCCAAATCTATCCTCCTACCTTCCA
ACGCATGACCTGTTGGGGAGCAGAGACTTAACCCCCAACTCAGAGGAACCCTTCCTCCAGCGTCTTTGGCATGGTTTCTAGGGTGAGAGT
TCCCAATTTGGATAGAACGGCCACCATATTGGTTACTGAATCTCTCTCCCTTGTTTTTATTACGTTTCCTTTTTCAAACTGTCCATGGGA
AGGCTGAATTGAGTGACTCCCCAGAATGAAGATGAGAAGGTGAATATAATCAATGCCAATGTAATGCCAGCGGGTGAGATGGCCGATGGA
GGTTTCAAAGATGTAGCTAGCATTTTGAAACCATATGGGCAAAACCCGGCAACCAGAAGGGGACAGATAAGGACCGTTCCAGAAATCCCA
ACTCTCACACCCAGCCCAGGCTGCAGTCTCCACACCAAACAGTCAACAAAACACAAACCCTGAAGGAAAACCTTTTCCATACACCCAGGC
TATGCATTGAAGAGTTTTCCACTGTATACATTTTTATCCAGATGAAGGTATTTTTATATTTTGACAATAGGAAACAGTGACCATTTTCAG
AGTAATCAAATCTGGAACAAATGAAACATCTTTTAGCCACCACCACCCTGTTGCAATTAAGACAACCGTGGGGGAACACACCACTTTTTA
CTGTTGAAACCAACACAACGTTGAAATCCAGGCTTATACGCAGACTCCGATTCCTAGAGAACTAAATTTGGCTTTAGTGTGACGGGATTT
GATTAAGCACTTAGTATAGTCTTTTGAACACGGAAATCCTGTTGTACTTAAAGCTAGCGGACCCGTGAACAACTTTGTCAGGTTCACGTC
CTATAACGGTTAAAAAACACACACACACATACACAAACCGTTTCTATGAGAGATTGATGAACTTTGTTTAAAATTTTAAAAAAAGGAACA

>In-frame_ENST00000392597_ENST00000261726_TCGA-N6-A4VG-01A_PTPN11_chr12_112910844_+_CUX2_chr12_111779584_length(amino acids)=642AA_start in transcript=203_stop in transcript=2131
MTSRRWFHPNITGVEAENLLLTRGVDGSFLARPSKSNPGDFTLSVRRNGAVTHIKIQNTGDYYDLYGGEKFATLAELVQYYMEHHGQLKE
KNGDVIELKYPLNCADPTSERWFHGHLSGKEAEKLLTEKGKHGSFLVRESQSHPGDFVLSVRTGDDKGESNDGKSKVTHVMIRCQELKYD
VGGGERFDSLTDLVEHYKKNPMVETLGTVLQLKQPLNTTRINAAEIESRVRELSKLAETTDKVKQGFWEEFETLQQQECKLLYSRKEGQR
QENKNKNRYKNILPSYLKRRYGLISTGSDSESPATRSECPSPCLQPQDLSLLQIKKPRVVLAPEEKEALRKAYQLEPYPSQQTIELLSFQ
LNLKTNTVINWFHNYRSRMRREMLVEGTQDEPDLDPSGGPGILPPGHSHPDPTPQSPDSETEDQKPTVKELELQEGPEENSTPLTTQDKA
QVRIKQEQMEEDAEEEAGSQPQDSGELDKGQGPPKEEHPDPPGNDGLPKVAPGPLLPGGSTPDCPSLHPQQESEAGERLHPDPLSFKSAS
ESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGAPPAKVPSASPTADMAGALHPSAKVNPNLQRRHEKMANLNNIIYRVER

--------------------------------------------------------------
>In-frame_ENST00000351677_ENST00000261726_TCGA-N6-A4VG-01A_PTPN11_chr12_112910844_+_CUX2_chr12_111779584_length(transcript)=4356nt_BP=1051nt
GGAGGAGCGAGCCGGGCCGGGGGGCAGCTGCACAGTCTCCGGGATCCCCAGGCCTGGAGGGGGGTCTGTGCGCGGCCGGCTGGCTCTGCC
CCGCGTCCGGTCCCGAGCGGGCCTCCCTCGGGCCAGCCCGATGTGACCGAGCCCAGCGGAGCCTGAGCAAGGAGCGGGTCCGTCGCGGAG
CCGGAGGGCGGGAGGAACATGACATCGCGGAGATGGTTTCACCCAAATATCACTGGTGTGGAGGCAGAAAACCTACTGTTGACAAGAGGA
GTTGATGGCAGTTTTTTGGCAAGGCCTAGTAAAAGTAACCCTGGAGACTTCACACTTTCCGTTAGAAGAAATGGAGCTGTCACCCACATC
AAGATTCAGAACACTGGTGATTACTATGACCTGTATGGAGGGGAGAAATTTGCCACTTTGGCTGAGTTGGTCCAGTATTACATGGAACAT
CACGGGCAATTAAAAGAGAAGAATGGAGATGTCATTGAGCTTAAATATCCTCTGAACTGTGCAGATCCTACCTCTGAAAGGTGGTTTCAT
GGACATCTCTCTGGGAAAGAAGCAGAGAAATTATTAACTGAAAAAGGAAAACATGGTAGTTTTCTTGTACGAGAGAGCCAGAGCCACCCT
GGAGATTTTGTTCTTTCTGTGCGCACTGGTGATGACAAAGGGGAGAGCAATGACGGCAAGTCTAAAGTGACCCATGTTATGATTCGCTGT
CAGGAACTGAAATACGACGTTGGTGGAGGAGAACGGTTTGATTCTTTGACAGATCTTGTGGAACATTATAAGAAGAATCCTATGGTGGAA
ACATTGGGTACAGTACTACAACTCAAGCAGCCCCTTAACACGACTCGTATAAATGCTGCTGAAATAGAAAGCAGAGTTCGAGAACTAAGC
AAATTAGCTGAGACCACAGATAAAGTCAAACAAGGCTTTTGGGAAGAATTTGAGACACTACAACAACAGGAGTGCAAACTTCTCTACAGC
CGAAAAGAGGGTCAAAGGCAAGAAAACAAAAACAAAAATAGATATAAAAACATCCTGCCCTCCTACCTGAAACGTCGCTATGGCCTCATC
AGCACCGGCTCAGACAGTGAGTCCCCGGCCACCCGCTCAGAGTGCCCCAGCCCCTGCCTGCAGCCCCAGGACCTGAGCCTCCTGCAGATC
AAGAAGCCCCGGGTGGTGCTGGCACCCGAGGAGAAGGAGGCACTGCGGAAGGCCTATCAGCTGGAACCCTACCCCTCGCAGCAGACCATC
GAGCTCCTCTCCTTCCAGCTCAACCTCAAGACCAACACCGTCATCAACTGGTTCCACAACTACAGGTCCCGGATGCGCCGGGAGATGTTG
GTGGAGGGGACCCAGGATGAGCCAGACCTTGATCCAAGCGGGGGTCCTGGAATCCTACCGCCAGGCCACTCCCACCCAGACCCCACCCCG
CAGAGCCCTGACTCTGAGACTGAGGACCAGAAGCCAACCGTGAAGGAACTGGAGCTTCAGGAGGGCCCTGAGGAGAACAGCACACCCCTG
ACCACCCAGGACAAGGCCCAAGTGAGGATCAAGCAGGAACAGATGGAGGAGGATGCTGAGGAAGAGGCAGGCAGCCAGCCCCAGGACTCA
GGGGAGCTGGACAAAGGCCAAGGTCCCCCCAAAGAGGAGCATCCCGACCCTCCGGGTAATGATGGACTCCCAAAAGTGGCTCCCGGGCCC
CTCCTTCCAGGTGGATCCACCCCAGACTGTCCCTCACTTCATCCCCAACAGGAGAGTGAGGCCGGGGAGCGACTTCACCCGGACCCTTTA
AGTTTTAAGTCAGCCTCAGAGTCCTCACGCTGCAGCCTGGAGGTGTCACTGAACTCGCCCTCGGCCGCCTCCTCACCAGGCCTCATGATG
TCTGTGTCACCTGTCCCCTCCTCCTCAGCTCCCATCTCCCCATCCCCACCTGGCGCCCCCCCTGCCAAAGTGCCGAGTGCCAGCCCCACT
GCTGACATGGCTGGAGCCTTGCACCCCAGTGCCAAGGTGAACCCCAACTTGCAGCGGCGGCATGAGAAGATGGCCAATCTGAACAACATC
ATTTACCGAGTAGAGCGGGCTGCCAATCGGGAGGAGGCCCTGGAGTGGGAGTTCTGAAGGCAGGGTGAGGGGGCAAGGGACATACCCTGG
TAACTACCTTCCTTCTCGCACTTACTCTCCTCAACAGGATGGGGTAAGGGAGGGAGGAACTCAACCATCAAAATGTGGACAGCAATGTTA
TGCCGTTTACGTTTTTTGTTGTAATCCTAGTTCTATGAAGCTGTGTGAGCAGGTGGGTCAAATGCCATTGCCTCCACTTTTCTGCACCCC
CCTGCTCCTCTTCACCCTGACCCCTCTGCAGGAGGCAGAAGCAAAATGGCACCACATATTCACCTGAAAACTCCAAACTCTTTTAGAAAA
ATAAATAAATATTTATAGACCTCTTTTAGATATTTTAATAAAGGATCCTTTGGAATTTATCCCAGCTGATGCTGTTTTGATATTACAGAG
AGTTATAAAATCAGGATGCTGTCACAACTGTTGCGAAGTATACACTGAAGTTGTGTCGTTTTTGCCACTAGATGAGATTAAAAGAAGACA
ATTATTCAAAGCCATCACAAAACACTATAAGACTGACCAAAATTTAGATAACCTTTGAACCACGATTTTTTTCCACATCTGTCTGTGAGA
CACAGCGCAATGCTACTGCCCTTCCAGAAACTGTGCTAAAAAGAGAAAGTCCAAAAGACTCTAAACAAAAACCTCGACGCCGTTGAGGAT
GTGTTTCATTCTGGTGGTCTGTTTTGCAAGCTTGATAACAGAATGTCCGTGCCATTGTAAATGTTGTAGAGATGTGGGCCGTGGCCCAAC
CGTCCTATATGAGATGTAGCATGGTACAGAACAAACTGCTTACACAGGTCTCACTAGTTAGAAACCTGTGGGCCATGGAGGTCAGACATC
CATCTTGTCCATCTATAGGCAAGAAGTGTTTCCAGATCCTTTGGAAAGGTGGGCATGGGGCAGGTGCTTGGAGAGTGGCGTTTGAGCCAG
AGCGACCCCATTTCCCGTGTGAACCATAGGCACAACCCAGGAAGTTTCCCCACTTGTAGGAGTGTGGGTATTCCAGAGCAAGACTGTGGC
CACCATCTTCCCCTCTTGGTGTTTTCCGAAAGTGACAGTGTTGGTCATCCCATGACCACTGAAGCTTAGTAACCAGCGCCAAAAAGTAGA
TTCATCAAACTAGAGACCCCAGCTCCCCTTCTCGCCATCTTCTTTCTCAAGTTGACCGTGGTGCTGTTTCTGGAAGGCATCTGCAACTCC
AAGTCCATGCAGAACTCTGGAAGGCCAAGTTCATCGCAGCATGTTCACCATATCCCAGCCTCCAAATCTATCCTCCTACCTTCCAACGCA
TGACCTGTTGGGGAGCAGAGACTTAACCCCCAACTCAGAGGAACCCTTCCTCCAGCGTCTTTGGCATGGTTTCTAGGGTGAGAGTTCCCA
ATTTGGATAGAACGGCCACCATATTGGTTACTGAATCTCTCTCCCTTGTTTTTATTACGTTTCCTTTTTCAAACTGTCCATGGGAAGGCT
GAATTGAGTGACTCCCCAGAATGAAGATGAGAAGGTGAATATAATCAATGCCAATGTAATGCCAGCGGGTGAGATGGCCGATGGAGGTTT
CAAAGATGTAGCTAGCATTTTGAAACCATATGGGCAAAACCCGGCAACCAGAAGGGGACAGATAAGGACCGTTCCAGAAATCCCAACTCT
CACACCCAGCCCAGGCTGCAGTCTCCACACCAAACAGTCAACAAAACACAAACCCTGAAGGAAAACCTTTTCCATACACCCAGGCTATGC
ATTGAAGAGTTTTCCACTGTATACATTTTTATCCAGATGAAGGTATTTTTATATTTTGACAATAGGAAACAGTGACCATTTTCAGAGTAA
TCAAATCTGGAACAAATGAAACATCTTTTAGCCACCACCACCCTGTTGCAATTAAGACAACCGTGGGGGAACACACCACTTTTTACTGTT
GAAACCAACACAACGTTGAAATCCAGGCTTATACGCAGACTCCGATTCCTAGAGAACTAAATTTGGCTTTAGTGTGACGGGATTTGATTA
AGCACTTAGTATAGTCTTTTGAACACGGAAATCCTGTTGTACTTAAAGCTAGCGGACCCGTGAACAACTTTGTCAGGTTCACGTCCTATA
ACGGTTAAAAAACACACACACACATACACAAACCGTTTCTATGAGAGATTGATGAACTTTGTTTAAAATTTTAAAAAAAGGAACACGTTC

>In-frame_ENST00000351677_ENST00000261726_TCGA-N6-A4VG-01A_PTPN11_chr12_112910844_+_CUX2_chr12_111779584_length(amino acids)=642AA_start in transcript=198_stop in transcript=2126
MTSRRWFHPNITGVEAENLLLTRGVDGSFLARPSKSNPGDFTLSVRRNGAVTHIKIQNTGDYYDLYGGEKFATLAELVQYYMEHHGQLKE
KNGDVIELKYPLNCADPTSERWFHGHLSGKEAEKLLTEKGKHGSFLVRESQSHPGDFVLSVRTGDDKGESNDGKSKVTHVMIRCQELKYD
VGGGERFDSLTDLVEHYKKNPMVETLGTVLQLKQPLNTTRINAAEIESRVRELSKLAETTDKVKQGFWEEFETLQQQECKLLYSRKEGQR
QENKNKNRYKNILPSYLKRRYGLISTGSDSESPATRSECPSPCLQPQDLSLLQIKKPRVVLAPEEKEALRKAYQLEPYPSQQTIELLSFQ
LNLKTNTVINWFHNYRSRMRREMLVEGTQDEPDLDPSGGPGILPPGHSHPDPTPQSPDSETEDQKPTVKELELQEGPEENSTPLTTQDKA
QVRIKQEQMEEDAEEEAGSQPQDSGELDKGQGPPKEEHPDPPGNDGLPKVAPGPLLPGGSTPDCPSLHPQQESEAGERLHPDPLSFKSAS
ESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGAPPAKVPSASPTADMAGALHPSAKVNPNLQRRHEKMANLNNIIYRVER

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Fusion Gene PPI Analysis for PTPN11-CUX2


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 PTPN11-CUX2


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 PTPN11-CUX2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePTPN11C4551602Noonan Syndrome 125CTD_human;GENOMICS_ENGLAND;UNIPROT
HgenePTPN11C0028326Noonan Syndrome22CLINGEN;CTD_human;GENOMICS_ENGLAND;ORPHANET
HgenePTPN11C4551484Leopard Syndrome 116CTD_human;GENOMICS_ENGLAND;UNIPROT
HgenePTPN11C0175704LEOPARD Syndrome14CLINGEN;CTD_human;GENOMICS_ENGLAND
HgenePTPN11C0349639Juvenile Myelomonocytic Leukemia8CTD_human;ORPHANET;UNIPROT
HgenePTPN11C0041409Turner Syndrome, Male4CTD_human
HgenePTPN11C1527404Female Pseudo-Turner Syndrome4CTD_human
HgenePTPN11C0410530Metachondromatosis3CTD_human;GENOMICS_ENGLAND;ORPHANET
HgenePTPN11C0014084Enchondromatosis2CTD_human
HgenePTPN11C0024454Maffucci Syndrome2CTD_human
HgenePTPN11C0878544Cardiomyopathies2GENOMICS_ENGLAND
HgenePTPN11C1275081Cardio-facio-cutaneous syndrome2CLINGEN;CTD_human
HgenePTPN11C0001418Adenocarcinoma1CTD_human
HgenePTPN11C0004114Astrocytoma1CTD_human
HgenePTPN11C0005779Blood Coagulation Disorders1GENOMICS_ENGLAND
HgenePTPN11C0007137Squamous cell carcinoma1CTD_human
HgenePTPN11C0015306Hereditary Multiple Exostoses1CTD_human
HgenePTPN11C0023418leukemia1CTD_human
HgenePTPN11C0023467Leukemia, Myelocytic, Acute1CGI;CTD_human;UNIPROT
HgenePTPN11C0026998Acute Myeloid Leukemia, M11CTD_human
HgenePTPN11C0027819Neuroblastoma1CTD_human
HgenePTPN11C0029423Cartilaginous exostosis1CTD_human
HgenePTPN11C0205641Adenocarcinoma, Basal Cell1CTD_human
HgenePTPN11C0205642Adenocarcinoma, Oxyphilic1CTD_human
HgenePTPN11C0205643Carcinoma, Cribriform1CTD_human
HgenePTPN11C0205644Carcinoma, Granular Cell1CTD_human
HgenePTPN11C0205645Adenocarcinoma, Tubular1CTD_human
HgenePTPN11C0205768Subependymal Giant Cell Astrocytoma1CTD_human
HgenePTPN11C0280100Solid Neoplasm1GENOMICS_ENGLAND
HgenePTPN11C0280783Juvenile Pilocytic Astrocytoma1CTD_human
HgenePTPN11C0280785Diffuse Astrocytoma1CTD_human
HgenePTPN11C0334579Anaplastic astrocytoma1CTD_human
HgenePTPN11C0334580Protoplasmic astrocytoma1CTD_human
HgenePTPN11C0334581Gemistocytic astrocytoma1CTD_human
HgenePTPN11C0334582Fibrillary Astrocytoma1CTD_human
HgenePTPN11C0334583Pilocytic Astrocytoma1CTD_human
HgenePTPN11C0338070Childhood Cerebral Astrocytoma1CTD_human
HgenePTPN11C0547065Mixed oligoastrocytoma1CTD_human
HgenePTPN11C0587248Costello syndrome (disorder)1CLINGEN;CTD_human
HgenePTPN11C0750935Cerebral Astrocytoma1CTD_human
HgenePTPN11C0750936Intracranial Astrocytoma1CTD_human
HgenePTPN11C1458140Bleeding tendency1GENOMICS_ENGLAND
HgenePTPN11C1535926Neurodevelopmental Disorders1CTD_human
HgenePTPN11C1704230Grade I Astrocytoma1CTD_human
HgenePTPN11C1879321Acute Myeloid Leukemia (AML-M2)1CTD_human
TgeneCUX2C4748341EPILEPTIC ENCEPHALOPATHY, EARLY INFANTILE, 673GENOMICS_ENGLAND;UNIPROT
TgeneCUX2C0005586Bipolar Disorder1PSYGENET
TgeneCUX2C0036572Seizures1GENOMICS_ENGLAND
TgeneCUX2C0238111Lennox-Gastaut syndrome1ORPHANET
TgeneCUX2C0856975Autistic behavior1GENOMICS_ENGLAND
TgeneCUX2C1839839MAJOR AFFECTIVE DISORDER 21PSYGENET
TgeneCUX2C3714756Intellectual Disability1GENOMICS_ENGLAND