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Center for Computational Systems Medicine level2
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein Structure

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pLDDT scores

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Ramachandran Plot of Fusion Protein Structure

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:SOX6-PTPRJ

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: SOX6-PTPRJ
FusionPDB ID: 85354
FusionGDB2.0 ID: 85354
HgeneTgene
Gene symbol

SOX6

PTPRJ

Gene ID

55553

5795

Gene nameSRY-box transcription factor 6protein tyrosine phosphatase receptor type J
SynonymsHSSOX6|SOXDCD148|DEP1|HPTPeta|R-PTP-ETA|SCC1
Cytomap

11p15.2

11p11.2

Type of geneprotein-codingprotein-coding
Descriptiontranscription factor SOX-6SRY (sex determining region Y)-box 6SRY-box 6SRY-box containing gene 6receptor-type tyrosine-protein phosphatase etaCD148 antigenDEP-1HPTP etaR-PTP-Jdensity-enhanced phosphatase 1human density enhanced phosphatase-1protein tyrosine phosphatase, receptor type, J polypeptideprotein-tyrosine phosphatase etasusceptibil
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST idsENST00000316399, ENST00000352083, 
ENST00000396356, ENST00000527619, 
ENST00000528252, ENST00000528429, 
ENST00000533658, 		ENST00000526550, 
ENST00000418331, ENST00000440289, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score13 X 12 X 8=12485 X 6 X 3=90
# samples 146
** MAII scorelog2(14/1248*10)=-3.15611920191728
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(6/90*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: SOX6 [Title/Abstract] AND PTPRJ [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)SOX6(16362558)-PTPRJ(48134299), # samples:4
Anticipated loss of major functional domain due to fusion event.SOX6-PTPRJ seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
SOX6-PTPRJ seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
SOX6-PTPRJ seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
SOX6-PTPRJ seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
SOX6-PTPRJ seems lost the major protein functional domain in Hgene partner, which is a transcription factor due to the frame-shifted ORF.
SOX6-PTPRJ seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
SOX6-PTPRJ seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneSOX6

GO:0032332

positive regulation of chondrocyte differentiation

21401405

HgeneSOX6

GO:0061036

positive regulation of cartilage development

21401405

HgeneSOX6

GO:0071560

cellular response to transforming growth factor beta stimulus

21401405

HgeneSOX6

GO:2000741

positive regulation of mesenchymal stem cell differentiation

21401405

TgenePTPRJ

GO:0008285

negative regulation of cell proliferation

14709717|16682945

TgenePTPRJ

GO:0010642

negative regulation of platelet-derived growth factor receptor signaling pathway

14709717

TgenePTPRJ

GO:0030308

negative regulation of cell growth

14709717

TgenePTPRJ

GO:0030336

negative regulation of cell migration

16682945

TgenePTPRJ

GO:0035335

peptidyl-tyrosine dephosphorylation

9531590|10821867|12913111|18348712|18936167|19332538

TgenePTPRJ

GO:0043116

negative regulation of vascular permeability

19332538

TgenePTPRJ

GO:0043407

negative regulation of MAP kinase activity

19494114

TgenePTPRJ

GO:0050860

negative regulation of T cell receptor signaling pathway

12913111

TgenePTPRJ

GO:0050918

positive chemotaxis

14709717


check buttonFusion gene breakpoints across SOX6 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4LGGTCGA-FG-5963-01ASOX6chr11

16362558

-PTPRJchr11

48134299

+
ChimerDB4LGGTCGA-FG-5963-02ASOX6chr11

16362558

-PTPRJchr11

48134299

+
ChimerDB4LGGTCGA-FG-5963SOX6chr11

16362557

-PTPRJchr11

48134298

+
ChimerDB4LGGTCGA-FG-5963SOX6chr11

16362558

-PTPRJchr11

48134299

+


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000528252SOX6chr1116362558-ENST00000418331PTPRJchr1148134299+508342839443261310
ENST00000528252SOX6chr1116362558-ENST00000440289PTPRJchr1148134299+31384283941932512
ENST00000528429SOX6chr1116362558-ENST00000418331PTPRJchr1148134299+496030527142031310
ENST00000528429SOX6chr1116362558-ENST00000440289PTPRJchr1148134299+30153052711809512
ENST00000528252SOX6chr1116362557-ENST00000418331PTPRJchr1148134298+508342839443261310
ENST00000528252SOX6chr1116362557-ENST00000440289PTPRJchr1148134298+31384283941932512
ENST00000528429SOX6chr1116362557-ENST00000418331PTPRJchr1148134298+496030527142031310
ENST00000528429SOX6chr1116362557-ENST00000440289PTPRJchr1148134298+30153052711809512

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
ENST00000528252ENST00000418331SOX6chr1116362558-PTPRJchr1148134299+0.0006718980.99932814
ENST00000528252ENST00000440289SOX6chr1116362558-PTPRJchr1148134299+0.0007945930.9992054
ENST00000528429ENST00000418331SOX6chr1116362558-PTPRJchr1148134299+0.0006255440.99937445
ENST00000528429ENST00000440289SOX6chr1116362558-PTPRJchr1148134299+0.0008111560.99918884
ENST00000528252ENST00000418331SOX6chr1116362557-PTPRJchr1148134298+0.0006718980.99932814
ENST00000528252ENST00000440289SOX6chr1116362557-PTPRJchr1148134298+0.0007945930.9992054
ENST00000528429ENST00000418331SOX6chr1116362557-PTPRJchr1148134298+0.0006255440.99937445
ENST00000528429ENST00000440289SOX6chr1116362557-PTPRJchr1148134298+0.0008111560.99918884

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>85354_85354_1_SOX6-PTPRJ_SOX6_chr11_16362557_ENST00000528252_PTPRJ_chr11_48134298_ENST00000418331_length(amino acids)=1310AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH
DAESFQMHITQEGAGNSRVEITTNQSIIIGGLFPGTKYCFEIVPKGPNGTEGASRTVCNRTVPSAVFDIHVVYVTTTEMWLDWKSPDGAS
EYVYHLVIESKHGSNHTSTYDKAITLQGLIPGTLYNITISPEVDHVWGDPNSTAQYTRPSNVSNIDVSTNTTAATLSWQNFDDASPTYSY
CLLIEKAGNSSNATQVVTDIGITDATVTELIPGSSYTVEIFAQVGDGIKSLEPGRKSFCTDPASMASFDCEVVPKEPALVLKWTCPPGAN
AGFELEVSSGAWNNATHLESCSSENGTEYRTEVTYLNFSTSYNISITTVSCGKMAAPTRNTCTTGITDPPPPDGSPNITSVSHNSVKVKF
SGFEASHGPIKAYAVILTTGEAGHPSADVLKYTYEDFKKGASDTYVTYLIRTEEKGRSQSLSEVLKYEIDVGNESTTLGYYNGKLEPLGS
YRACVAGFTNITFHPQNKGLIDGAESYVSFSRYSDAVSLPQDPGVICGAVFGCIFGALVIVTVGGFIFWRKKRKDAKNNEVSFSQIKPKK
SKLIRVENFEAYFKKQQADSNCGFAEEYEDLKLVGISQPKYAAELAENRGKNRYNNVLPYDISRVKLSVQTHSTDDYINANYMPGYHSKK
DFIATQGPLPNTLKDFWRMVWEKNVYAIIMLTKCVEQGRTKCEEYWPSKQAQDYGDITVAMTSEIVLPEWTIRDFTVKNIQTSESHPLRQ
FHFTSWPDHGVPDTTDLLINFRYLVRDYMKQSPPESPILVHCSAGVGRTGTFIAIDRLIYQIENENTVDVYGIVYDLRMHRPLMVQTEDQ

--------------------------------------------------------------

>85354_85354_2_SOX6-PTPRJ_SOX6_chr11_16362557_ENST00000528252_PTPRJ_chr11_48134298_ENST00000440289_length(amino acids)=512AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH

--------------------------------------------------------------

>85354_85354_3_SOX6-PTPRJ_SOX6_chr11_16362557_ENST00000528429_PTPRJ_chr11_48134298_ENST00000418331_length(amino acids)=1310AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH
DAESFQMHITQEGAGNSRVEITTNQSIIIGGLFPGTKYCFEIVPKGPNGTEGASRTVCNRTVPSAVFDIHVVYVTTTEMWLDWKSPDGAS
EYVYHLVIESKHGSNHTSTYDKAITLQGLIPGTLYNITISPEVDHVWGDPNSTAQYTRPSNVSNIDVSTNTTAATLSWQNFDDASPTYSY
CLLIEKAGNSSNATQVVTDIGITDATVTELIPGSSYTVEIFAQVGDGIKSLEPGRKSFCTDPASMASFDCEVVPKEPALVLKWTCPPGAN
AGFELEVSSGAWNNATHLESCSSENGTEYRTEVTYLNFSTSYNISITTVSCGKMAAPTRNTCTTGITDPPPPDGSPNITSVSHNSVKVKF
SGFEASHGPIKAYAVILTTGEAGHPSADVLKYTYEDFKKGASDTYVTYLIRTEEKGRSQSLSEVLKYEIDVGNESTTLGYYNGKLEPLGS
YRACVAGFTNITFHPQNKGLIDGAESYVSFSRYSDAVSLPQDPGVICGAVFGCIFGALVIVTVGGFIFWRKKRKDAKNNEVSFSQIKPKK
SKLIRVENFEAYFKKQQADSNCGFAEEYEDLKLVGISQPKYAAELAENRGKNRYNNVLPYDISRVKLSVQTHSTDDYINANYMPGYHSKK
DFIATQGPLPNTLKDFWRMVWEKNVYAIIMLTKCVEQGRTKCEEYWPSKQAQDYGDITVAMTSEIVLPEWTIRDFTVKNIQTSESHPLRQ
FHFTSWPDHGVPDTTDLLINFRYLVRDYMKQSPPESPILVHCSAGVGRTGTFIAIDRLIYQIENENTVDVYGIVYDLRMHRPLMVQTEDQ

--------------------------------------------------------------

>85354_85354_4_SOX6-PTPRJ_SOX6_chr11_16362557_ENST00000528429_PTPRJ_chr11_48134298_ENST00000440289_length(amino acids)=512AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH

--------------------------------------------------------------

>85354_85354_5_SOX6-PTPRJ_SOX6_chr11_16362558_ENST00000528252_PTPRJ_chr11_48134299_ENST00000418331_length(amino acids)=1310AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH
DAESFQMHITQEGAGNSRVEITTNQSIIIGGLFPGTKYCFEIVPKGPNGTEGASRTVCNRTVPSAVFDIHVVYVTTTEMWLDWKSPDGAS
EYVYHLVIESKHGSNHTSTYDKAITLQGLIPGTLYNITISPEVDHVWGDPNSTAQYTRPSNVSNIDVSTNTTAATLSWQNFDDASPTYSY
CLLIEKAGNSSNATQVVTDIGITDATVTELIPGSSYTVEIFAQVGDGIKSLEPGRKSFCTDPASMASFDCEVVPKEPALVLKWTCPPGAN
AGFELEVSSGAWNNATHLESCSSENGTEYRTEVTYLNFSTSYNISITTVSCGKMAAPTRNTCTTGITDPPPPDGSPNITSVSHNSVKVKF
SGFEASHGPIKAYAVILTTGEAGHPSADVLKYTYEDFKKGASDTYVTYLIRTEEKGRSQSLSEVLKYEIDVGNESTTLGYYNGKLEPLGS
YRACVAGFTNITFHPQNKGLIDGAESYVSFSRYSDAVSLPQDPGVICGAVFGCIFGALVIVTVGGFIFWRKKRKDAKNNEVSFSQIKPKK
SKLIRVENFEAYFKKQQADSNCGFAEEYEDLKLVGISQPKYAAELAENRGKNRYNNVLPYDISRVKLSVQTHSTDDYINANYMPGYHSKK
DFIATQGPLPNTLKDFWRMVWEKNVYAIIMLTKCVEQGRTKCEEYWPSKQAQDYGDITVAMTSEIVLPEWTIRDFTVKNIQTSESHPLRQ
FHFTSWPDHGVPDTTDLLINFRYLVRDYMKQSPPESPILVHCSAGVGRTGTFIAIDRLIYQIENENTVDVYGIVYDLRMHRPLMVQTEDQ

--------------------------------------------------------------

>85354_85354_6_SOX6-PTPRJ_SOX6_chr11_16362558_ENST00000528252_PTPRJ_chr11_48134299_ENST00000440289_length(amino acids)=512AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH

--------------------------------------------------------------

>85354_85354_7_SOX6-PTPRJ_SOX6_chr11_16362558_ENST00000528429_PTPRJ_chr11_48134299_ENST00000418331_length(amino acids)=1310AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH
DAESFQMHITQEGAGNSRVEITTNQSIIIGGLFPGTKYCFEIVPKGPNGTEGASRTVCNRTVPSAVFDIHVVYVTTTEMWLDWKSPDGAS
EYVYHLVIESKHGSNHTSTYDKAITLQGLIPGTLYNITISPEVDHVWGDPNSTAQYTRPSNVSNIDVSTNTTAATLSWQNFDDASPTYSY
CLLIEKAGNSSNATQVVTDIGITDATVTELIPGSSYTVEIFAQVGDGIKSLEPGRKSFCTDPASMASFDCEVVPKEPALVLKWTCPPGAN
AGFELEVSSGAWNNATHLESCSSENGTEYRTEVTYLNFSTSYNISITTVSCGKMAAPTRNTCTTGITDPPPPDGSPNITSVSHNSVKVKF
SGFEASHGPIKAYAVILTTGEAGHPSADVLKYTYEDFKKGASDTYVTYLIRTEEKGRSQSLSEVLKYEIDVGNESTTLGYYNGKLEPLGS
YRACVAGFTNITFHPQNKGLIDGAESYVSFSRYSDAVSLPQDPGVICGAVFGCIFGALVIVTVGGFIFWRKKRKDAKNNEVSFSQIKPKK
SKLIRVENFEAYFKKQQADSNCGFAEEYEDLKLVGISQPKYAAELAENRGKNRYNNVLPYDISRVKLSVQTHSTDDYINANYMPGYHSKK
DFIATQGPLPNTLKDFWRMVWEKNVYAIIMLTKCVEQGRTKCEEYWPSKQAQDYGDITVAMTSEIVLPEWTIRDFTVKNIQTSESHPLRQ
FHFTSWPDHGVPDTTDLLINFRYLVRDYMKQSPPESPILVHCSAGVGRTGTFIAIDRLIYQIENENTVDVYGIVYDLRMHRPLMVQTEDQ

--------------------------------------------------------------

>85354_85354_8_SOX6-PTPRJ_SOX6_chr11_16362558_ENST00000528429_PTPRJ_chr11_48134299_ENST00000440289_length(amino acids)=512AA_BP=11
MGQRSVISAKNAPSPIPDPSVATVATGENGITQISSTAESFHKQNGTGTPQVETNTSEDGESSGANDSLRTPEQGSNGTDGASQKTPSST
GPSPVFDIKAVSISPTNVILTWKSNDTAASEYKYVVKHKMENEKTITVVHQPWCNITGLRPATSYVFSITPGIGNETWGDPRVIKVITEP
IPVSDLRVALTGVRKAALSWSNGNGTASCRVLLESIGSHEELTQDSRLQVNISGLKPGVQYNINPYLLQSNKTKGDPLGTEGGLDASNTE
RSRAGSPTAPVHDESLVGPVDPSSGQQSRDTEVLLVGLEPGTRYNATVYSQAANGTEGQPQAIEFRTNAIQVFDVTAVNISATSLTLIWK
VSDNESSSNYTYKIHVAGETDSSNLNVSEPRAVIPGLRSSTFYNITVCPVLGDIEGTPGFLQVHTPPVPVSDFRVTVVSTTEIGLAWSSH

--------------------------------------------------------------

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Fusion Protein Functional Features


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr11:16362558/chr11:48134299)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgenePTPRJchr11:16362557chr11:48134298ENST000004183311251041_129838.3333333333333361338.0DomainTyrosine-protein phosphatase
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125121_20938.3333333333333361338.0DomainFibronectin type-III 1
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125207_29138.3333333333333361338.0DomainFibronectin type-III 2
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125271_36438.3333333333333361338.0DomainFibronectin type-III 3
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125368_45638.3333333333333361338.0DomainFibronectin type-III 4
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125457_54138.3333333333333361338.0DomainFibronectin type-III 5
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125542_62338.3333333333333361338.0DomainFibronectin type-III 6
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125625_72038.3333333333333361338.0DomainFibronectin type-III 7
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125721_81738.3333333333333361338.0DomainFibronectin type-III 8
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125816_90238.3333333333333361338.0DomainFibronectin type-III 9
TgenePTPRJchr11:16362557chr11:48134298ENST00000440289191041_129838.333333333333336540.0DomainTyrosine-protein phosphatase
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919121_20938.333333333333336540.0DomainFibronectin type-III 1
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919207_29138.333333333333336540.0DomainFibronectin type-III 2
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919271_36438.333333333333336540.0DomainFibronectin type-III 3
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919368_45638.333333333333336540.0DomainFibronectin type-III 4
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919457_54138.333333333333336540.0DomainFibronectin type-III 5
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919542_62338.333333333333336540.0DomainFibronectin type-III 6
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919625_72038.333333333333336540.0DomainFibronectin type-III 7
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919721_81738.333333333333336540.0DomainFibronectin type-III 8
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919816_90238.333333333333336540.0DomainFibronectin type-III 9
TgenePTPRJchr11:16362558chr11:48134299ENST000004183311251041_129838.3333333333333361338.0DomainTyrosine-protein phosphatase
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125121_20938.3333333333333361338.0DomainFibronectin type-III 1
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125207_29138.3333333333333361338.0DomainFibronectin type-III 2
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125271_36438.3333333333333361338.0DomainFibronectin type-III 3
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125368_45638.3333333333333361338.0DomainFibronectin type-III 4
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125457_54138.3333333333333361338.0DomainFibronectin type-III 5
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125542_62338.3333333333333361338.0DomainFibronectin type-III 6
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125625_72038.3333333333333361338.0DomainFibronectin type-III 7
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125721_81738.3333333333333361338.0DomainFibronectin type-III 8
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125816_90238.3333333333333361338.0DomainFibronectin type-III 9
TgenePTPRJchr11:16362558chr11:48134299ENST00000440289191041_129838.333333333333336540.0DomainTyrosine-protein phosphatase
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919121_20938.333333333333336540.0DomainFibronectin type-III 1
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919207_29138.333333333333336540.0DomainFibronectin type-III 2
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919271_36438.333333333333336540.0DomainFibronectin type-III 3
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919368_45638.333333333333336540.0DomainFibronectin type-III 4
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919457_54138.333333333333336540.0DomainFibronectin type-III 5
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919542_62338.333333333333336540.0DomainFibronectin type-III 6
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919625_72038.333333333333336540.0DomainFibronectin type-III 7
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919721_81738.333333333333336540.0DomainFibronectin type-III 8
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919816_90238.333333333333336540.0DomainFibronectin type-III 9
TgenePTPRJchr11:16362557chr11:48134298ENST000004183311251239_124538.3333333333333361338.0RegionSubstrate binding
TgenePTPRJchr11:16362557chr11:48134298ENST00000440289191239_124538.333333333333336540.0RegionSubstrate binding
TgenePTPRJchr11:16362558chr11:48134299ENST000004183311251239_124538.3333333333333361338.0RegionSubstrate binding
TgenePTPRJchr11:16362558chr11:48134299ENST00000440289191239_124538.333333333333336540.0RegionSubstrate binding
TgenePTPRJchr11:16362557chr11:48134298ENST0000041833112536_97538.3333333333333361338.0Topological domainExtracellular
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125997_133738.3333333333333361338.0Topological domainCytoplasmic
TgenePTPRJchr11:16362557chr11:48134298ENST000004402891936_97538.333333333333336540.0Topological domainExtracellular
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919997_133738.333333333333336540.0Topological domainCytoplasmic
TgenePTPRJchr11:16362558chr11:48134299ENST0000041833112536_97538.3333333333333361338.0Topological domainExtracellular
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125997_133738.3333333333333361338.0Topological domainCytoplasmic
TgenePTPRJchr11:16362558chr11:48134299ENST000004402891936_97538.333333333333336540.0Topological domainExtracellular
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919997_133738.333333333333336540.0Topological domainCytoplasmic
TgenePTPRJchr11:16362557chr11:48134298ENST00000418331125976_99638.3333333333333361338.0TransmembraneHelical
TgenePTPRJchr11:16362557chr11:48134298ENST0000044028919976_99638.333333333333336540.0TransmembraneHelical
TgenePTPRJchr11:16362558chr11:48134299ENST00000418331125976_99638.3333333333333361338.0TransmembraneHelical
TgenePTPRJchr11:16362558chr11:48134299ENST0000044028919976_99638.333333333333336540.0TransmembraneHelical

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSOX6chr11:16362557chr11:48134298ENST00000316399-115184_26279.0809.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362557chr11:48134298ENST00000352083-216184_26279.0829.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362557chr11:48134298ENST00000396356-216184_26279.0809.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362557chr11:48134298ENST00000527619-215184_26282.0805.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362557chr11:48134298ENST00000528252-215184_26279.0802.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362557chr11:48134298ENST00000528429-216184_26279.0829.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362558chr11:48134299ENST00000316399-115184_26279.0809.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362558chr11:48134299ENST00000352083-216184_26279.0829.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362558chr11:48134299ENST00000396356-216184_26279.0809.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362558chr11:48134299ENST00000527619-215184_26282.0805.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362558chr11:48134299ENST00000528252-215184_26279.0802.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362558chr11:48134299ENST00000528429-216184_26279.0829.0Coiled coilOntology_term=ECO:0000255
HgeneSOX6chr11:16362557chr11:48134298ENST00000316399-115219_26179.0809.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362557chr11:48134298ENST00000316399-115280_28579.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000316399-115313_31779.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000352083-216219_26179.0829.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362557chr11:48134298ENST00000352083-216280_28579.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000352083-216313_31779.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000396356-216219_26179.0809.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362557chr11:48134298ENST00000396356-216280_28579.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000396356-216313_31779.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000527619-215219_26182.0805.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362557chr11:48134298ENST00000527619-215280_28582.0805.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000527619-215313_31782.0805.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000528252-215219_26179.0802.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362557chr11:48134298ENST00000528252-215280_28579.0802.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000528252-215313_31779.0802.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000528429-216219_26179.0829.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362557chr11:48134298ENST00000528429-216280_28579.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000528429-216313_31779.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000316399-115219_26179.0809.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362558chr11:48134299ENST00000316399-115280_28579.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000316399-115313_31779.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000352083-216219_26179.0829.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362558chr11:48134299ENST00000352083-216280_28579.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000352083-216313_31779.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000396356-216219_26179.0809.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362558chr11:48134299ENST00000396356-216280_28579.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000396356-216313_31779.0809.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000527619-215219_26182.0805.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362558chr11:48134299ENST00000527619-215280_28582.0805.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000527619-215313_31782.0805.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000528252-215219_26179.0802.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362558chr11:48134299ENST00000528252-215280_28579.0802.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000528252-215313_31779.0802.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000528429-216219_26179.0829.0Compositional biasNote=Gln-rich
HgeneSOX6chr11:16362558chr11:48134299ENST00000528429-216280_28579.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362558chr11:48134299ENST00000528429-216313_31779.0829.0Compositional biasNote=Poly-Ala
HgeneSOX6chr11:16362557chr11:48134298ENST00000316399-115621_68979.0809.0DNA bindingHMG box
HgeneSOX6chr11:16362557chr11:48134298ENST00000352083-216621_68979.0829.0DNA bindingHMG box
HgeneSOX6chr11:16362557chr11:48134298ENST00000396356-216621_68979.0809.0DNA bindingHMG box
HgeneSOX6chr11:16362557chr11:48134298ENST00000527619-215621_68982.0805.0DNA bindingHMG box
HgeneSOX6chr11:16362557chr11:48134298ENST00000528252-215621_68979.0802.0DNA bindingHMG box
HgeneSOX6chr11:16362557chr11:48134298ENST00000528429-216621_68979.0829.0DNA bindingHMG box
HgeneSOX6chr11:16362558chr11:48134299ENST00000316399-115621_68979.0809.0DNA bindingHMG box
HgeneSOX6chr11:16362558chr11:48134299ENST00000352083-216621_68979.0829.0DNA bindingHMG box
HgeneSOX6chr11:16362558chr11:48134299ENST00000396356-216621_68979.0809.0DNA bindingHMG box
HgeneSOX6chr11:16362558chr11:48134299ENST00000527619-215621_68982.0805.0DNA bindingHMG box
HgeneSOX6chr11:16362558chr11:48134299ENST00000528252-215621_68979.0802.0DNA bindingHMG box
HgeneSOX6chr11:16362558chr11:48134299ENST00000528429-216621_68979.0829.0DNA bindingHMG box


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Fusion Protein Structures

check button PDB and CIF files of the predicted fusion proteins
* Here we show the 3D structure of the fusion proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.
Fusion protein PDB link (fusion AA seq ID in FusionPDB)HgeneHchrHbpHstrandTgeneTchrTbpTstrandAA seqLen(AA seq)


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pLDDT score distribution

check button pLDDT score distribution of the predicted wild-type structures of two partner proteins from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.
SOX6_pLDDT.png
all structure
all structure
PTPRJ_pLDDT.png
all structure
all structure

check button pLDDT score distribution of the predicted fusion protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.


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Ramachandran Plot of Fusion Protein Structure


check button Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this fusion protein peptide.
Fusion AA seq ID in FusionPDB and their Ramachandran plots

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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
SOX6
PTPRJ


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to SOX6-PTPRJ


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to SOX6-PTPRJ


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource