UTHEALTH HOME ABOUT SBMI A-Z WEBMAIL INSIDE THE UNIVERSITY

Home

Download

Statistics

Examples

Help

Contact

level1

	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:SMYD2-PROX1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: SMYD2-PROX1
	FusionPDB ID: 84362
	FusionGDB2.0 ID: 84362
		Hgene	Tgene
	Gene symbol	SMYD2	PROX1
	Gene ID	56950	5629
	Gene name	SET and MYND domain containing 2	prospero homeobox 1
	Synonyms	HSKM-B\|KMT3C\|ZMYND14	-
	Cytomap	1q32.3	1q32.3
	Type of gene	protein-coding	protein-coding
	Description	N-lysine methyltransferase SMYD2SET and MYND domain-containing protein 2histone methyltransferase SMYD2lysine N-methyltransferase 3Czinc finger, MYND domain containing 14	prospero homeobox protein 1homeobox prospero-like protein PROX1prospero-related homeobox 1
	Modification date	20200320	20200313
	UniProtAcc	.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000491455, ENST00000366957, ENST00000415093,	ENST00000261454, ENST00000366958, ENST00000435016, ENST00000498508, ENST00000607726,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	10 X 7 X 7=490	4 X 4 X 3=48
	# samples	11	4
	** MAII score	log2(11/490*10)=-2.15527822547791 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(4/48*10)=-0.263034405833794 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: SMYD2 [Title/Abstract] AND PROX1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	SMYD2(214501067)-PROX1(214208992), # samples:3 PROX1(214178615)-SMYD2(214488105), # samples:1
Anticipated loss of major functional domain due to fusion event.	SMYD2-PROX1 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. SMYD2-PROX1 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. SMYD2-PROX1 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. SMYD2-PROX1 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. SMYD2-PROX1 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF. SMYD2-PROX1 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF. SMYD2-PROX1 seems lost the major protein functional domain in Tgene partner, which is a transcription factor due to the frame-shifted ORF. SMYD2-PROX1 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)

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
Hgene	SMYD2	GO:0018026	peptidyl-lysine monomethylation	17108971\|20870719
Tgene	PROX1	GO:0000122	negative regulation of transcription by RNA polymerase II	15205472
Tgene	PROX1	GO:0001938	positive regulation of endothelial cell proliferation	19210544
Tgene	PROX1	GO:0001946	lymphangiogenesis	12412020
Tgene	PROX1	GO:0008284	positive regulation of cell proliferation	12198161
Tgene	PROX1	GO:0010468	regulation of gene expression	12198161
Tgene	PROX1	GO:0010595	positive regulation of endothelial cell migration	19210544
Tgene	PROX1	GO:0043433	negative regulation of DNA-binding transcription factor activity	15205472\|16488887
Tgene	PROX1	GO:0045071	negative regulation of viral genome replication	19264593
Tgene	PROX1	GO:0045737	positive regulation of cyclin-dependent protein serine/threonine kinase activity	19210544
Tgene	PROX1	GO:0045892	negative regulation of transcription, DNA-templated	15143342\|15205472
Tgene	PROX1	GO:0060836	lymphatic endothelial cell differentiation	12198161

Fusion gene breakpoints across SMYD2 (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 PROX1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Top

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	LIHC	TCGA-ED-A7PX-01A	SMYD2	chr1	214501067	-	PROX1	chr1	214208992	+
ChimerDB4	LIHC	TCGA-ED-A7PX-01A	SMYD2	chr1	214501067	+	PROX1	chr1	214208992	+

Top

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)

ENST00000415093

SMYD2

chr1

214501067

ENST00000366958

PROX1

chr1

214208992

6331

727

912

296

ENST00000366957

SMYD2

chr1

214501067

ENST00000366958

PROX1

chr1

214208992

6331

727

912

296

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
ENST00000415093	ENST00000366958	SMYD2	chr1	214501067	+	PROX1	chr1	214208992	+	0.000239127	0.9997609
ENST00000366957	ENST00000366958	SMYD2	chr1	214501067	+	PROX1	chr1	214208992	+	0.000239127	0.9997609

Top

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

>84362_84362_1_SMYD2-PROX1_SMYD2_chr1_214501067_ENST00000366957_PROX1_chr1_214208992_ENST00000366958_length(amino acids)=296AA_BP=235
MRAEGLGGLERFCSPGKGRGLRALQPFQVGDLLFSCPAYAYVLTVNERGNHCEYCFTRKEGLSKCGRCKQAFYCNVECQKEDWPMHKLEC
SPMVVFGENWNPSETVRLTARILAKQKIHPERTPSEKLLAVKEFESHLDKLDNEKKDLIQSDIAALHHFYSKHLGFPDNDSLVVLFAQVN
CNGFTIEDEELSHLGSAIFPDVALMNHSCCPNVIVTYKGTLAEVRAVQEIKPGEEVPERFLEVAQITLREFFNAIIAGKDVDPSWKKAIY

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

>84362_84362_2_SMYD2-PROX1_SMYD2_chr1_214501067_ENST00000415093_PROX1_chr1_214208992_ENST00000366958_length(amino acids)=296AA_BP=235
MRAEGLGGLERFCSPGKGRGLRALQPFQVGDLLFSCPAYAYVLTVNERGNHCEYCFTRKEGLSKCGRCKQAFYCNVECQKEDWPMHKLEC
SPMVVFGENWNPSETVRLTARILAKQKIHPERTPSEKLLAVKEFESHLDKLDNEKKDLIQSDIAALHHFYSKHLGFPDNDSLVVLFAQVN
CNGFTIEDEELSHLGSAIFPDVALMNHSCCPNVIVTYKGTLAEVRAVQEIKPGEEVPERFLEVAQITLREFFNAIIAGKDVDPSWKKAIY

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

Top

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/chr1:214501067/chr1:214208992)
- 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
.	.
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.

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

SMYD2

chr1:214501067

chr1:214208992

ENST00000366957

17_19

235.0

434.0

Region

Note=S-adenosyl-L-methionine binding

Hgene

SMYD2

chr1:214501067

chr1:214208992

ENST00000366957

183_185

235.0

434.0

Region

Note=Peptide substrate binding

Hgene

SMYD2

chr1:214501067

chr1:214208992

ENST00000366957

206_207

235.0

434.0

Region

Note=S-adenosyl-L-methionine binding

Hgene

SMYD2

chr1:214501067

chr1:214208992

ENST00000366957

52_90

235.0

434.0

Zinc finger

MYND-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

SMYD2

chr1:214501067

chr1:214208992

ENST00000366957

7_241

235.0

434.0

Domain

SET

Hgene

SMYD2

chr1:214501067

chr1:214208992

ENST00000366957

258_260

235.0

434.0

Region

Note=S-adenosyl-L-methionine binding

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000261454

215_219

676.0

738.0

Compositional bias

Note=Poly-Gln

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000366958

215_219

676.0

738.0

Compositional bias

Note=Poly-Gln

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000435016

215_219

676.0

738.0

Compositional bias

Note=Poly-Gln

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000498508

215_219

676.0

738.0

Compositional bias

Note=Poly-Gln

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000261454

577_635

676.0

738.0

Domain

Prospero-type homeo

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000261454

636_735

676.0

738.0

Domain

Prospero

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000366958

577_635

676.0

738.0

Domain

Prospero-type homeo

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000366958

636_735

676.0

738.0

Domain

Prospero

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000435016

577_635

676.0

738.0

Domain

Prospero-type homeo

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000435016

636_735

676.0

738.0

Domain

Prospero

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000498508

577_635

676.0

738.0

Domain

Prospero-type homeo

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000498508

636_735

676.0

738.0

Domain

Prospero

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000261454

577_735

676.0

738.0

Region

Homeo-Prospero

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000366958

577_735

676.0

738.0

Region

Homeo-Prospero

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000435016

577_735

676.0

738.0

Region

Homeo-Prospero

Tgene

PROX1

chr1:214501067

chr1:214208992

ENST00000498508

577_735

676.0

738.0

Region

Homeo-Prospero

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
SMYD2
PROX1

- 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
Tgene	PROX1	chr1:214501067	chr1:214208992	ENST00000261454		2	4	1_28	676.0	738.0	RORG
Tgene	PROX1	chr1:214501067	chr1:214208992	ENST00000366958		3	5	1_28	676.0	738.0	RORG
Tgene	PROX1	chr1:214501067	chr1:214208992	ENST00000435016		3	5	1_28	676.0	738.0	RORG
Tgene	PROX1	chr1:214501067	chr1:214208992	ENST00000498508		3	5	1_28	676.0	738.0	RORG

Top

Related Drugs to SMYD2-PROX1

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to SMYD2-PROX1

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