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	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein Structure
	pLDDT scores
	Ramachandran Plot of Fusion Protein Structure
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:SLC35B1-IGFBP4

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: SLC35B1-IGFBP4
	FusionPDB ID: 82950
	FusionGDB2.0 ID: 82950
		Hgene	Tgene
	Gene symbol	SLC35B1	IGFBP4
	Gene ID	10237	3487
	Gene name	solute carrier family 35 member B1	insulin like growth factor binding protein 4
	Synonyms	UGTREL1	BP-4\|HT29-IGFBP\|IBP4\|IGFBP-4
	Cytomap	17q21.33	17q21.2
	Type of gene	protein-coding	protein-coding
	Description	solute carrier family 35 member B1UDP-galactose transporter relatedUDP-galactose transporter-related protein 1	insulin-like growth factor-binding protein 4IBP-4IGF-binding protein 4
	Modification date	20200313	20200315
	UniProtAcc	.	P22692
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000240333, ENST00000415270,	ENST00000269593, ENST00000542955,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	3 X 4 X 2=24	13 X 12 X 5=780
	# samples	3	16
	** MAII score	log2(3/24*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0	log2(16/780*10)=-2.28540221886225 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: SLC35B1 [Title/Abstract] AND IGFBP4 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	SLC35B1(47784327)-IGFBP4(38609237), # samples:3
Anticipated loss of major functional domain due to fusion event.	SLC35B1-IGFBP4 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. SLC35B1-IGFBP4 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. SLC35B1-IGFBP4 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. SLC35B1-IGFBP4 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

Fusion gene breakpoints across SLC35B1 (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 IGFBP4 (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-A2-A04W-01A	SLC35B1	chr17	47784326	-	IGFBP4	chr17	38609236	+
ChimerDB4	BRCA	TCGA-A2-A04W-01A	SLC35B1	chr17	47784327	-	IGFBP4	chr17	38609237	+
ChimerDB4	BRCA	TCGA-A2-A04W	SLC35B1	chr17	47784326	-	IGFBP4	chr17	38609236	+

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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)
ENST00000240333	SLC35B1	chr17	47784327	-	ENST00000542955	IGFBP4	chr17	38609237	+	1258	330	11	757	248
ENST00000240333	SLC35B1	chr17	47784327	-	ENST00000269593	IGFBP4	chr17	38609237	+	1906	330	11	757	248
ENST00000415270	SLC35B1	chr17	47784327	-	ENST00000542955	IGFBP4	chr17	38609237	+	1254	326	7	753	248
ENST00000415270	SLC35B1	chr17	47784327	-	ENST00000269593	IGFBP4	chr17	38609237	+	1902	326	7	753	248
ENST00000240333	SLC35B1	chr17	47784326	-	ENST00000542955	IGFBP4	chr17	38609236	+	1258	330	11	757	248
ENST00000240333	SLC35B1	chr17	47784326	-	ENST00000269593	IGFBP4	chr17	38609236	+	1906	330	11	757	248
ENST00000415270	SLC35B1	chr17	47784326	-	ENST00000542955	IGFBP4	chr17	38609236	+	1254	326	7	753	248
ENST00000415270	SLC35B1	chr17	47784326	-	ENST00000269593	IGFBP4	chr17	38609236	+	1902	326	7	753	248

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
ENST00000240333	ENST00000542955	SLC35B1	chr17	47784327	-	IGFBP4	chr17	38609237	+	0.13068658	0.86931336
ENST00000240333	ENST00000269593	SLC35B1	chr17	47784327	-	IGFBP4	chr17	38609237	+	0.07378481	0.92621523
ENST00000415270	ENST00000542955	SLC35B1	chr17	47784327	-	IGFBP4	chr17	38609237	+	0.14497845	0.85502154
ENST00000415270	ENST00000269593	SLC35B1	chr17	47784327	-	IGFBP4	chr17	38609237	+	0.0745048	0.9254952
ENST00000240333	ENST00000542955	SLC35B1	chr17	47784326	-	IGFBP4	chr17	38609236	+	0.13068658	0.86931336
ENST00000240333	ENST00000269593	SLC35B1	chr17	47784326	-	IGFBP4	chr17	38609236	+	0.07378481	0.92621523
ENST00000415270	ENST00000542955	SLC35B1	chr17	47784326	-	IGFBP4	chr17	38609236	+	0.14497845	0.85502154
ENST00000415270	ENST00000269593	SLC35B1	chr17	47784326	-	IGFBP4	chr17	38609236	+	0.0745048	0.9254952

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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

>82950_82950_1_SLC35B1-IGFBP4_SLC35B1_chr17_47784326_ENST00000240333_IGFBP4_chr17_38609236_ENST00000269593_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

>82950_82950_2_SLC35B1-IGFBP4_SLC35B1_chr17_47784326_ENST00000240333_IGFBP4_chr17_38609236_ENST00000542955_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

>82950_82950_3_SLC35B1-IGFBP4_SLC35B1_chr17_47784326_ENST00000415270_IGFBP4_chr17_38609236_ENST00000269593_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

>82950_82950_4_SLC35B1-IGFBP4_SLC35B1_chr17_47784326_ENST00000415270_IGFBP4_chr17_38609236_ENST00000542955_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

>82950_82950_5_SLC35B1-IGFBP4_SLC35B1_chr17_47784327_ENST00000240333_IGFBP4_chr17_38609237_ENST00000269593_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

>82950_82950_6_SLC35B1-IGFBP4_SLC35B1_chr17_47784327_ENST00000240333_IGFBP4_chr17_38609237_ENST00000542955_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

>82950_82950_7_SLC35B1-IGFBP4_SLC35B1_chr17_47784327_ENST00000415270_IGFBP4_chr17_38609237_ENST00000269593_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

>82950_82950_8_SLC35B1-IGFBP4_SLC35B1_chr17_47784327_ENST00000415270_IGFBP4_chr17_38609237_ENST00000542955_length(amino acids)=248AA_BP=107
MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL
TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS

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

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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/chr17:47784327/chr17:38609237)
- 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
.	IGFBP4 P22692
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: IGF-binding proteins prolong the half-life of the IGFs and have been shown to either inhibit or stimulate the growth promoting effects of the IGFs on cell culture. They alter the interaction of IGFs with their cell surface receptors.

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

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

12_32

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

51_71

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

12_32

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

51_71

69.33333333333333

323.0

Transmembrane

Helical

Tgene

IGFBP4

chr17:47784326

chr17:38609236

ENST00000269593

171_249

116.33333333333333

259.0

Domain

Thyroglobulin type-1

Tgene

IGFBP4

chr17:47784327

chr17:38609237

ENST00000269593

171_249

116.33333333333333

259.0

Domain

Thyroglobulin type-1

- 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

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

318_322

69.33333333333333

323.0

Motif

Note=Di-lysine motif

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

318_322

69.33333333333333

323.0

Motif

Note=Di-lysine motif

Hgene

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

136_156

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

168_188

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

210_230

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

243_263

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

285_305

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784326

chr17:38609236

ENST00000240333

85_105

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

136_156

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

168_188

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

210_230

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

243_263

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

285_305

69.33333333333333

323.0

Transmembrane

Helical

Hgene

SLC35B1

chr17:47784327

chr17:38609237

ENST00000240333

85_105

69.33333333333333

323.0

Transmembrane

Helical

Tgene

IGFBP4

chr17:47784326

chr17:38609236

ENST00000269593

23_103

116.33333333333333

259.0

Domain

IGFBP N-terminal

Tgene

IGFBP4

chr17:47784327

chr17:38609237

ENST00000269593

23_103

116.33333333333333

259.0

Domain

IGFBP N-terminal

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Fusion Protein Structures

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)	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	AA seq	Len(AA seq)
PDB file >>>407_SLC35B1_47784326_IGFBP4_38609236_ranked_0.pdb	SLC35B1	47784326	47784326	ENST00000269593	IGFBP4	chr17	38609236	+	MRPLPPVGDVRLELSPPPPLLPVPVVSGSPVGSSGRLMASSSSLVPDRLRLPLCFLGVFVCYFYYGILQEKITRGKYGEGAKQETFTFAL TLVFIQCVINAVFAKIYKDEGDHPNNSFSPCSAHDRRCLQKHFAKIRDRSTSGGKMKVNGAPREDARPVPQGSCQSELHRALERLAASQS	248

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pLDDT score distribution

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.

SLC35B1_pLDDT.png

IGFBP4_pLDDT.png

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

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

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
SLC35B1
IGFBP4

- 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

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Related Drugs to SLC35B1-IGFBP4

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

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to SLC35B1-IGFBP4

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