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	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:SGCD-RARA

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: SGCD-RARA
	FusionPDB ID: 81252
	FusionGDB2.0 ID: 81252
		Hgene	Tgene
	Gene symbol	SGCD	RARA
	Gene ID	6444	5914
	Gene name	sarcoglycan delta	retinoic acid receptor alpha
	Synonyms	35DAG\|CMD1L\|DAGD\|LGMDR6\|SG-delta\|SGCDP\|SGD	NR1B1\|RAR
	Cytomap	5q33.2-q33.3	17q21.2
	Type of gene	protein-coding	protein-coding
	Description	delta-sarcoglycan35 kDa dystrophin-associated glycoproteindelta-SGdystrophin associated glycoprotein, delta sarcoglycanplacental delta sarcoglycansarcoglycan, delta (35kDa dystrophin-associated glycoprotein)	retinoic acid receptor alphaRAR-alphanuclear receptor subfamily 1 group B member 1nucleophosmin-retinoic acid receptor alpha fusion protein NPM-RAR long formretinoic acid nuclear receptor alpha variant 1retinoic acid nuclear receptor alpha variant 2
	Modification date	20200328	20200327
	UniProtAcc	.	P10276
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000337851, ENST00000435422, ENST00000447401, ENST00000517913,	ENST00000394081, ENST00000394086, ENST00000420042, ENST00000425707, ENST00000254066, ENST00000394089,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	12 X 10 X 6=720	29 X 39 X 17=19227
	# samples	13	55
	** MAII score	log2(13/720*10)=-2.46948528330122 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(55/19227*10)=-5.12755824682814 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: SGCD [Title/Abstract] AND RARA [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	SGCD(156022061)-RARA(38504568), # samples:2
Anticipated loss of major functional domain due to fusion event.	SGCD-RARA 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. SGCD-RARA 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. SGCD-RARA 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. SGCD-RARA 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.

* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

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	RARA	GO:0007165	signal transduction	2825025
Tgene	RARA	GO:0030853	negative regulation of granulocyte differentiation	19917671
Tgene	RARA	GO:0032689	negative regulation of interferon-gamma production	18416830
Tgene	RARA	GO:0032720	negative regulation of tumor necrosis factor production	18416830
Tgene	RARA	GO:0032736	positive regulation of interleukin-13 production	18416830
Tgene	RARA	GO:0032753	positive regulation of interleukin-4 production	18416830
Tgene	RARA	GO:0032754	positive regulation of interleukin-5 production	18416830
Tgene	RARA	GO:0045630	positive regulation of T-helper 2 cell differentiation	18416830
Tgene	RARA	GO:0045892	negative regulation of transcription, DNA-templated	20080953
Tgene	RARA	GO:0045893	positive regulation of transcription, DNA-templated	18845237\|19850744\|20080953
Tgene	RARA	GO:0045944	positive regulation of transcription by RNA polymerase II	19850744\|21131358
Tgene	RARA	GO:0071300	cellular response to retinoic acid	19917671
Tgene	RARA	GO:0071391	cellular response to estrogen stimulus	20080953

Fusion gene breakpoints across SGCD (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 RARA (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 Sample Information

Fusion gene information from FusionGDB2.0.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	BRCA	TCGA-BH-A1EV-01A	SGCD	chr5	156022061	+	RARA	chr17	38504568	+

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Fusion ORF Analysis

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000517913	SGCD	chr5	156022061	+	ENST00000254066	RARA	chr17	38504568	+	2645	864	362	2074	570
ENST00000517913	SGCD	chr5	156022061	+	ENST00000394089	RARA	chr17	38504568	+	2180	864	362	2074	570
ENST00000435422	SGCD	chr5	156022061	+	ENST00000254066	RARA	chr17	38504568	+	2767	986	352	2196	614
ENST00000435422	SGCD	chr5	156022061	+	ENST00000394089	RARA	chr17	38504568	+	2302	986	352	2196	614
ENST00000447401	SGCD	chr5	156022061	+	ENST00000254066	RARA	chr17	38504568	+	2802	1021	519	2231	570
ENST00000447401	SGCD	chr5	156022061	+	ENST00000394089	RARA	chr17	38504568	+	2337	1021	519	2231	570
ENST00000337851	SGCD	chr5	156022061	+	ENST00000254066	RARA	chr17	38504568	+	2802	1021	519	2231	570
ENST00000337851	SGCD	chr5	156022061	+	ENST00000394089	RARA	chr17	38504568	+	2337	1021	519	2231	570

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	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000517913	ENST00000254066	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.014586484	0.98541343
ENST00000517913	ENST00000394089	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.01802113	0.98197895
ENST00000435422	ENST00000254066	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.01330395	0.9866961
ENST00000435422	ENST00000394089	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.017598141	0.9824019
ENST00000447401	ENST00000254066	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.01975693	0.980243
ENST00000447401	ENST00000394089	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.024930619	0.9750694
ENST00000337851	ENST00000254066	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.01975693	0.980243
ENST00000337851	ENST00000394089	SGCD	chr5	156022061	+	RARA	chr17	38504568	+	0.024930619	0.9750694

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Fusion Amino Acid Sequences

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

>81252_81252_1_SGCD-RARA_SGCD_chr5_156022061_ENST00000337851_RARA_chr17_38504568_ENST00000254066_length(amino acids)=570AA_BP=166
MMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILILVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLY
AKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYGKKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIV
PSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDR
NKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTL
TIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDL
EQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGR

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

>81252_81252_2_SGCD-RARA_SGCD_chr5_156022061_ENST00000337851_RARA_chr17_38504568_ENST00000394089_length(amino acids)=570AA_BP=166
MMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILILVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLY
AKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYGKKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIV
PSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDR
NKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTL
TIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDL
EQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGR

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

>81252_81252_3_SGCD-RARA_SGCD_chr5_156022061_ENST00000435422_RARA_chr17_38504568_ENST00000254066_length(amino acids)=614AA_BP=210
MGQLLSAGWACTHSAGRVATSFRAAQHALGSRAVFIGRFVKRTREMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILI
LVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLYAKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYG
KKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQK
NMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKY
TTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMH
NAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSIS

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

>81252_81252_4_SGCD-RARA_SGCD_chr5_156022061_ENST00000435422_RARA_chr17_38504568_ENST00000394089_length(amino acids)=614AA_BP=210
MGQLLSAGWACTHSAGRVATSFRAAQHALGSRAVFIGRFVKRTREMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILI
LVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLYAKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYG
KKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIVPSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQK
NMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKY
TTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMH
NAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSIS

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

>81252_81252_5_SGCD-RARA_SGCD_chr5_156022061_ENST00000447401_RARA_chr17_38504568_ENST00000254066_length(amino acids)=570AA_BP=166
MMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILILVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLY
AKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYGKKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIV
PSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDR
NKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTL
TIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDL
EQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGR

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

>81252_81252_6_SGCD-RARA_SGCD_chr5_156022061_ENST00000447401_RARA_chr17_38504568_ENST00000394089_length(amino acids)=570AA_BP=166
MMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILILVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLY
AKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYGKKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIV
PSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDR
NKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTL
TIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDL
EQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGR

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

>81252_81252_7_SGCD-RARA_SGCD_chr5_156022061_ENST00000517913_RARA_chr17_38504568_ENST00000254066_length(amino acids)=570AA_BP=166
MMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILILVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLY
AKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYGKKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIV
PSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDR
NKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTL
TIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDL
EQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGR

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

>81252_81252_8_SGCD-RARA_SGCD_chr5_156022061_ENST00000517913_RARA_chr17_38504568_ENST00000394089_length(amino acids)=570AA_BP=166
MMPQEQYTHHRSTMPGSVGPQVYKVGIYGWRKRCLYFFVLLLMILILVNLAMTIWILKVMNFTIDGMGNLRITEKGLKLEGDSEFLQPLY
AKEIQSRPGNALYFKSARNVTVNILNDQTKVLTQLITGPKAVEAYGKKFEVKTVSGKLLFSADNNEVVVGAERLRVLAIETQSSSSEEIV
PSPPSPPPLPRIYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDR
NKKKKEVPKPECSESYTLTPEVGELIEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTL
TIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDL
EQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGLDTLSGQPGGGGR

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

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Fusion Protein Functional Features

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr5:156022061/chr17:38504568)
- 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.

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

Hgene	Tgene
.	RARA P10276
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: Receptor for retinoic acid (PubMed:19850744, PubMed:16417524, PubMed:20215566). Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes (PubMed:28167758). The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5'-AGGTCA-3' sites known as DR1-DR5 (PubMed:28167758, PubMed:19398580). In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone deacetylation, chromatin condensation and transcriptional suppression (PubMed:16417524). On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation (PubMed:9267036, PubMed:19850744, PubMed:20215566). Formation of a complex with histone deacetylases might lead to inhibition of RARE DNA element binding and to transcriptional repression (PubMed:28167758). Transcriptional activation and RARE DNA element binding might be supported by the transcription factor KLF2 (PubMed:28167758). RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis (By similarity). Has a role in the survival of early spermatocytes at the beginning prophase of meiosis (By similarity). In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes (By similarity). In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function (By similarity). Together with RXRA, positively regulates microRNA-10a expression, thereby inhibiting the GATA6/VCAM1 signaling response to pulsatile shear stress in vascular endothelial cells (PubMed:28167758). In association with HDAC3, HDAC5 and HDAC7 corepressors, plays a role in the repression of microRNA-10a and thereby promotes the inflammatory response (PubMed:28167758). {ECO:0000250\|UniProtKB:P11416, ECO:0000269\|PubMed:16417524, ECO:0000269\|PubMed:19398580, ECO:0000269\|PubMed:19850744, ECO:0000269\|PubMed:20215566, ECO:0000269\|PubMed:28167758, ECO:0000269\|PubMed:9267036}.

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.

- Retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000337851

1_35

167.33333333333334

291.0

Topological domain

Cytoplasmic

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000435422

1_35

166.33333333333334

290.0

Topological domain

Cytoplasmic

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000447401

1_35

167.33333333333334

257.0

Topological domain

Cytoplasmic

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000517913

1_35

167.33333333333334

257.0

Topological domain

Cytoplasmic

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000337851

36_56

167.33333333333334

291.0

Transmembrane

Helical%3B Signal-anchor for type II membrane protein

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000435422

36_56

166.33333333333334

290.0

Transmembrane

Helical%3B Signal-anchor for type II membrane protein

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000447401

36_56

167.33333333333334

257.0

Transmembrane

Helical%3B Signal-anchor for type II membrane protein

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000517913

36_56

167.33333333333334

257.0

Transmembrane

Helical%3B Signal-anchor for type II membrane protein

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

88_153

59.333333333333336

463.0

DNA binding

Nuclear receptor

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

88_153

54.333333333333336

458.0

DNA binding

Nuclear receptor

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

88_153

59.333333333333336

463.0

DNA binding

Nuclear receptor

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

88_153

366.0

DNA binding

Nuclear receptor

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

183_417

59.333333333333336

463.0

Domain

NR LBD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

183_417

54.333333333333336

458.0

Domain

NR LBD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

183_417

59.333333333333336

463.0

Domain

NR LBD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

183_417

366.0

Domain

NR LBD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

408_416

59.333333333333336

463.0

Motif

9aaTAD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

408_416

54.333333333333336

458.0

Motif

9aaTAD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

408_416

59.333333333333336

463.0

Motif

9aaTAD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

408_416

366.0

Motif

9aaTAD

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

154_182

59.333333333333336

463.0

Region

Note=Hinge

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

404_419

59.333333333333336

463.0

Region

Note=Required for binding corepressor NCOR1

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

154_182

54.333333333333336

458.0

Region

Note=Hinge

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

404_419

54.333333333333336

458.0

Region

Note=Required for binding corepressor NCOR1

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

154_182

59.333333333333336

463.0

Region

Note=Hinge

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

404_419

59.333333333333336

463.0

Region

Note=Required for binding corepressor NCOR1

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

154_182

366.0

Region

Note=Hinge

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

1_87

366.0

Region

Note=Modulating

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

404_419

366.0

Region

Note=Required for binding corepressor NCOR1

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

124_148

59.333333333333336

463.0

Zinc finger

NR C4-type

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

88_108

59.333333333333336

463.0

Zinc finger

NR C4-type

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

124_148

54.333333333333336

458.0

Zinc finger

NR C4-type

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

88_108

54.333333333333336

458.0

Zinc finger

NR C4-type

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

124_148

59.333333333333336

463.0

Zinc finger

NR C4-type

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

88_108

59.333333333333336

463.0

Zinc finger

NR C4-type

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

124_148

366.0

Zinc finger

NR C4-type

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000425707

88_108

366.0

Zinc finger

NR C4-type

- Not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000337851

57_289

167.33333333333334

291.0

Topological domain

Extracellular

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000435422

57_289

166.33333333333334

290.0

Topological domain

Extracellular

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000447401

57_289

167.33333333333334

257.0

Topological domain

Extracellular

Hgene

SGCD

chr5:156022061

chr17:38504568

ENST00000517913

57_289

167.33333333333334

257.0

Topological domain

Extracellular

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000254066

1_87

59.333333333333336

463.0

Region

Note=Modulating

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394081

1_87

54.333333333333336

458.0

Region

Note=Modulating

Tgene

RARA

chr5:156022061

chr17:38504568

ENST00000394089

1_87

59.333333333333336

463.0

Region

Note=Modulating

Top

Fusion Protein-Protein Interaction

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)

Gene

PPI interactors

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
SGCD
RARA

- Retained interactions in fusion protein (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost interactions due to fusion (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

Top

Related Drugs to SGCD-RARA

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to SGCD-RARA

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

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Tgene	RARA	C0023487	Acute Promyelocytic Leukemia	24	CTD_human;ORPHANET
Tgene	RARA	C0036341	Schizophrenia	3	PSYGENET
Tgene	RARA	C0006142	Malignant neoplasm of breast	1	CTD_human
Tgene	RARA	C0009363	Congenital ocular coloboma (disorder)	1	GENOMICS_ENGLAND
Tgene	RARA	C0010701	Phyllodes Tumor	1	CTD_human
Tgene	RARA	C0085183	Neoplasms, Second Primary	1	CTD_human
Tgene	RARA	C0086696	Neoplasms, Therapy-Associated	1	CTD_human
Tgene	RARA	C0149940	Sciatic Neuropathy	1	CTD_human
Tgene	RARA	C0154748	Lesion of Sciatic Nerve	1	CTD_human
Tgene	RARA	C0206650	Fibroadenoma	1	CTD_human
Tgene	RARA	C0242013	Sciatic Neuritis	1	CTD_human
Tgene	RARA	C0525045	Mood Disorders	1	PSYGENET
Tgene	RARA	C0600066	Malignant Cystosarcoma Phyllodes	1	CTD_human
Tgene	RARA	C0678222	Breast Carcinoma	1	CTD_human
Tgene	RARA	C0751924	Neuralgia-Neuritis, Sciatic Nerve	1	CTD_human
Tgene	RARA	C0751925	Sciatic Nerve Palsy	1	CTD_human
Tgene	RARA	C0877578	Treatment related secondary malignancy	1	CTD_human
Tgene	RARA	C1257931	Mammary Neoplasms, Human	1	CTD_human
Tgene	RARA	C1458155	Mammary Neoplasms	1	CTD_human
Tgene	RARA	C2239176	Liver carcinoma	1	CTD_human
Tgene	RARA	C4704874	Mammary Carcinoma, Human	1	CTD_human