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	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:MTF1-SF3A3 (FusionGDB2 ID:55311)

Fusion Gene Summary for MTF1-SF3A3

Fusion gene summary

Fusion gene information	Fusion gene name: MTF1-SF3A3
	Fusion gene ID: 55311
		Hgene	Tgene
	Gene symbol	MTF1	SF3A3
	Gene ID	4661	10946
	Gene name	myelin transcription factor 1	splicing factor 3a subunit 3
	Synonyms	C20orf36\|MTF1\|MYTI\|NZF2\|PLPB1\|ZC2H2C1\|ZC2HC4A	PRP9\|PRPF9\|SAP61\|SF3a60
	Cytomap	20q13.33	1p34.3
	Type of gene	protein-coding	protein-coding
	Description	myelin transcription factor 1myelin transcription factor Ineural zinc finger transcription factor 2proteolipid protein binding protein	splicing factor 3A subunit 3SAP 61pre-mRNA splicing factor SF3a (60kD)spliceosome associated protein 61splicing factor 3a, subunit 3, 60kDsplicing factor 3a, subunit 3, 60kDa
	Modification date	20200313	20200313
	UniProtAcc	.	.
	Ensembl transtripts involved in fusion gene	ENST00000373036, ENST00000468190,	ENST00000373019, ENST00000448721, ENST00000489537,
Fusion gene scores	* DoF score	6 X 5 X 5=150	7 X 8 X 5=280
	# samples	8	11
	** MAII score	log2(8/150*10)=-0.906890595608519 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(11/280*10)=-1.34792330342031 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: MTF1 [Title/Abstract] AND SF3A3 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	MTF1(38322923)-SF3A3(38435407), # samples:3 MTF1(38322923)-SF3A3(38453508), # samples:3
Anticipated loss of major functional domain due to fusion event.

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

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	SF3A3	GO:0000398	mRNA splicing, via spliceosome	29360106
Tgene	SF3A3	GO:1903241	U2-type prespliceosome assembly	11533230

Fusion gene breakpoints across MTF1 (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 SF3A3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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-AR-A0TT-01A	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
ChimerDB4	GBM	TCGA-06-0141-01A	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
ChimerDB4	BRCA	TCGA-AR-A0TT	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-
ChimerDB4	BRCA	TCGA-AR-A0TT-01A	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
ChimerDB4	GBM	TCGA-06-0141-01A	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
ChimerDB4	GBM	TCGA-06-0141-01A	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
ChimerDB4	BRCA	TCGA-AR-A0TT-01A	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-

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Fusion Gene ORF analysis for MTF1-SF3A3

Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
In-frame	ENST00000373036	ENST00000373019	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
In-frame	ENST00000373036	ENST00000448721	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
5CDS-intron	ENST00000373036	ENST00000489537	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
intron-3CDS	ENST00000468190	ENST00000373019	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
intron-3CDS	ENST00000468190	ENST00000448721	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
intron-intron	ENST00000468190	ENST00000489537	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-
In-frame	ENST00000373036	ENST00000373019	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
5CDS-intron	ENST00000373036	ENST00000448721	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
5CDS-5UTR	ENST00000373036	ENST00000489537	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
intron-3CDS	ENST00000468190	ENST00000373019	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
intron-intron	ENST00000468190	ENST00000448721	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
intron-5UTR	ENST00000468190	ENST00000489537	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-
In-frame	ENST00000373036	ENST00000373019	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-
In-frame	ENST00000373036	ENST00000448721	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-
5CDS-intron	ENST00000373036	ENST00000489537	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-
intron-3CDS	ENST00000468190	ENST00000373019	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-
intron-3CDS	ENST00000468190	ENST00000448721	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-
intron-intron	ENST00000468190	ENST00000489537	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

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)
ENST00000373036	MTF1	chr1	38322923	-	ENST00000373019	SF3A3	chr1	38435407	-	2261	549	141	1049	302
ENST00000373036	MTF1	chr1	38322923	-	ENST00000448721	SF3A3	chr1	38435407	-	1219	549	141	1049	302
ENST00000373036	MTF1	chr1	38322923	-	ENST00000373019	SF3A3	chr1	38453508	-	3122	549	141	1910	589
ENST00000373036	MTF1	chr1	38322922	-	ENST00000373019	SF3A3	chr1	38435407	-	2261	549	141	1049	302
ENST00000373036	MTF1	chr1	38322922	-	ENST00000448721	SF3A3	chr1	38435407	-	1219	549	141	1049	302

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
ENST00000373036	ENST00000373019	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-	0.00263166	0.99736834
ENST00000373036	ENST00000448721	MTF1	chr1	38322923	-	SF3A3	chr1	38435407	-	0.003770481	0.99622947
ENST00000373036	ENST00000373019	MTF1	chr1	38322923	-	SF3A3	chr1	38453508	-	0.004003545	0.9959965
ENST00000373036	ENST00000373019	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-	0.00263166	0.99736834
ENST00000373036	ENST00000448721	MTF1	chr1	38322922	-	SF3A3	chr1	38435407	-	0.003770481	0.99622947

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Fusion Genomic Features for MTF1-SF3A3

FusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for MTF1-SF3A3

Go to
FGviewer for the breakpoints of chr1:38322923-chr1:38435407
.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.

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.

- In-frame and 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

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

133_138

136.0

754.0

Motif

Nuclear localization signal

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

133_138

136.0

754.0

Motif

Nuclear localization signal

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

133_138

136.0

754.0

Motif

Nuclear localization signal

Tgene

SF3A3

chr1:38322922

chr1:38435407

ENST00000373019

354_362

335.0

502.0

Compositional bias

Note=Poly-Glu

Tgene

SF3A3

chr1:38322923

chr1:38435407

ENST00000373019

354_362

335.0

502.0

Compositional bias

Note=Poly-Glu

Tgene

SF3A3

chr1:38322923

chr1:38453508

ENST00000373019

354_362

48.0

502.0

Compositional bias

Note=Poly-Glu

Tgene

SF3A3

chr1:38322923

chr1:38453508

ENST00000373019

175_179

48.0

502.0

Motif

Nuclear localization signal

Tgene

SF3A3

chr1:38322922

chr1:38435407

ENST00000373019

406_437

335.0

502.0

Zinc finger

Matrin-type

Tgene

SF3A3

chr1:38322923

chr1:38435407

ENST00000373019

406_437

335.0

502.0

Zinc finger

Matrin-type

Tgene

SF3A3

chr1:38322923

chr1:38453508

ENST00000373019

406_437

48.0

502.0

Zinc finger

Matrin-type

- In-frame and 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

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

420_497

136.0

754.0

Compositional bias

Note=Pro-rich

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

420_497

136.0

754.0

Compositional bias

Note=Pro-rich

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

420_497

136.0

754.0

Compositional bias

Note=Pro-rich

Hgene

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

140_164

136.0

754.0

Zinc finger

C2H2-type 1

Hgene

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

170_194

136.0

754.0

Zinc finger

C2H2-type 2

Hgene

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

200_224

136.0

754.0

Zinc finger

C2H2-type 3

Hgene

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

229_253

136.0

754.0

Zinc finger

C2H2-type 4

Hgene

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

259_283

136.0

754.0

Zinc finger

C2H2-type 5

Hgene

MTF1

chr1:38322922

chr1:38435407

ENST00000373036

289_313

136.0

754.0

Zinc finger

C2H2-type 6

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

140_164

136.0

754.0

Zinc finger

C2H2-type 1

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

170_194

136.0

754.0

Zinc finger

C2H2-type 2

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

200_224

136.0

754.0

Zinc finger

C2H2-type 3

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

229_253

136.0

754.0

Zinc finger

C2H2-type 4

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

259_283

136.0

754.0

Zinc finger

C2H2-type 5

Hgene

MTF1

chr1:38322923

chr1:38435407

ENST00000373036

289_313

136.0

754.0

Zinc finger

C2H2-type 6

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

140_164

136.0

754.0

Zinc finger

C2H2-type 1

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

170_194

136.0

754.0

Zinc finger

C2H2-type 2

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

200_224

136.0

754.0

Zinc finger

C2H2-type 3

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

229_253

136.0

754.0

Zinc finger

C2H2-type 4

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

259_283

136.0

754.0

Zinc finger

C2H2-type 5

Hgene

MTF1

chr1:38322923

chr1:38453508

ENST00000373036

289_313

136.0

754.0

Zinc finger

C2H2-type 6

Tgene

SF3A3

chr1:38322922

chr1:38435407

ENST00000373019

175_179

335.0

502.0

Motif

Nuclear localization signal

Tgene

SF3A3

chr1:38322923

chr1:38435407

ENST00000373019

175_179

335.0

502.0

Motif

Nuclear localization signal

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Fusion Gene Sequence for MTF1-SF3A3

For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

>In-frame_ENST00000373036_ENST00000373019_TCGA-AR-A0TT-01A_MTF1_chr1_38322923_-_SF3A3_chr1_38435407_length(transcript)=2261nt_BP=549nt
GGAAGTGACGTTAGGGGAAGGTGGGGGCAATCATGGTGCCGCTGGGGAGGGGAGAAGCTGCTGCTGCCGCCGTTGCCGGGAGCCGCGGAG
ACAAGTCATTACGTTTTCATTTCTCACAACTGGGCTGAGCACAACTGAACCATGGGGGAACACAGTCCAGACAACAACATCATCTACTTT
GAGGCAGAGGAAGATGAGCTGACCCCCGATGATAAAATGCTCAGGTTTGTGGATAAAAACGGACTGGTGCCTTCCTCATCTGGAACTGTT
TATGATAGGACCACTGTTCTTATTGAGCAGGACCCTGGCACTTTGGAGGATGAAGATGACGACGGACAGTGCGGAGAACACTTGCCTTTT
CTAGTAGGGGGTGAAGAGGGCTTTCACCTGATAGATCATGAAGCAATGTCCCAGGGTTATGTGCAGCACATTATCTCACCAGATCAGATT
CATTTGACAATAAACCCTGGTTCCACACCCATGCCAAGAAATATTGAAGGTGCAACCCTCACTCTGCAGTCGGAATGTCCGGAAACAAAA
CGTAAAGAAGAACAGCGACATCTCACTCATGAAAATGTACAGCGCAAGCAAGCCAGGACAGGAGAAGAGCGAGAAGAAGAGGAAGAAGAG
CAGATCAGTGAGAGTGAGAGTGAAGATGAAGAGAACGAGATCATTTACAACCCCAAAAACCTGCCACTTGGCTGGGATGGCAAACCTATT
CCCTACTGGCTGTATAAGCTTCATGGCCTAAATATCAACTACAACTGTGAGATTTGTGGAAACTACACCTACCGAGGGCCCAAAGCCTTC
CAGCGACACTTTGCTGAATGGCGTCATGCTCATGGCATGAGGTGTTTGGGCATCCCAAACACTGCTCACTTTGCTAATGTGACACAGATT
GAAGATGCTGTCTCCTTGTGGGCCAAACTGAAATTGCAGAAGGCTTCAGAACGATGGCAGCCTGACACTGAGGAAGAATATGAAGACTCA
AGTGGGAATGTTGTGAATAAGAAGACATACGAGGATCTGAAAAGACAAGGACTGCTCTAGTGTTCAGGGATGTAGCTCAGCTTTTGGGCT
AGCCCAGGCTTCCCTAAGATCTGCTTTTTCTATTTCTCCCAACCAAATCCTCTTAAAGACCCTTTGCTATGTAGTCTCATGGTCTAGCAT
GCATCTTGTAGAAACAAGGCATGCTGGCAGATTGCAGGGTTGAGATGTGTTTTATCTGTTTTATATTTTAAAAGATTCTGCCAGAAAATA
AAACCAGACCTTGTTCTAAAGCCCAGGGTTATGGACCAACTCAGTGCTTCAGGTCTTAACGCCTCCATACCTCTTCCTCACCAACTTTAC
TAGTAGCTGAGATTTAATGGGCACCTATTATGCTACATATCATGTTAGGTAAATCTGACCTGACCTCTTTCCCCACCCTCCTTTGTTGCT
GCTTCCCTGAATGAGTATTACCCCAGGATGAGGTCTGCCATCAGCTTAGTTAGCCATTGATGCAAATACTAGGGAAAGACTAGGAGGATG
AGCCAGGGTTGCTACTAAGGACTAAGTGTCGCACCAAGGTTTGCCTTTTGTATTTGCATAAAGAAAGGAGTTGGAGCTGGGTGCAGTGGC
TTGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGGGTTGCTTGAGACTAGCCTAGGTAACATAGTGAGACCCTGTCTCATTA
AAAAAAAAAAAAAGGCATGGTGGCACGCACTGTAGTCCCAGCTACTCAGGAGACTGAGGCTAGAAGATCCTTTGAACCTAGGAGTTTGAG
ACCAGCCTGGGCGATATAGTGAGGCCCCATCTCAAAAAAAAAAAAAGGGGGGGGGGGGGGAGTTGGGCTGTGTTGGAATGGGCCTGCAGC
CCAACAAACAAGGGAACTAGGACCGACAGTGACTTCACCAGCTTGCTAGGTCAGAATGAGAGACTGGTGGGTCTGTCTACCTGTTTCTTC
TACAAGATCCCTATTTGACTGTAAAAGTAGCTAATACTCACATGTTCTCCAATCCCAGGTAGCCATGGTAGAGTTGGGTAGAGTTGAGCA
GCTGCCCCAGGATCCAAATGTGGTGTCTGAAATGGAAAGAACTAAGGCAACCAGGAAGGCACTGATCTGCCTTATAAGCACAGTCATCTG
AAAGTCAGGCCTGCTGCAGGACAGGATCCCCCAGAGACCCCATTTGCCTCTCAACACTCAGACCTTCAACTGTTTTTTAATAAATCTACT

>In-frame_ENST00000373036_ENST00000373019_TCGA-AR-A0TT-01A_MTF1_chr1_38322923_-_SF3A3_chr1_38435407_length(amino acids)=302AA_start in transcript=141_stop in transcript=1049
MGEHSPDNNIIYFEAEEDELTPDDKMLRFVDKNGLVPSSSGTVYDRTTVLIEQDPGTLEDEDDDGQCGEHLPFLVGGEEGFHLIDHEAMS
QGYVQHIISPDQIHLTINPGSTPMPRNIEGATLTLQSECPETKRKEEQRHLTHENVQRKQARTGEEREEEEEEQISESESEDEENEIIYN
PKNLPLGWDGKPIPYWLYKLHGLNINYNCEICGNYTYRGPKAFQRHFAEWRHAHGMRCLGIPNTAHFANVTQIEDAVSLWAKLKLQKASE

--------------------------------------------------------------
>In-frame_ENST00000373036_ENST00000448721_TCGA-AR-A0TT-01A_MTF1_chr1_38322923_-_SF3A3_chr1_38435407_length(transcript)=1219nt_BP=549nt
GGAAGTGACGTTAGGGGAAGGTGGGGGCAATCATGGTGCCGCTGGGGAGGGGAGAAGCTGCTGCTGCCGCCGTTGCCGGGAGCCGCGGAG
ACAAGTCATTACGTTTTCATTTCTCACAACTGGGCTGAGCACAACTGAACCATGGGGGAACACAGTCCAGACAACAACATCATCTACTTT
GAGGCAGAGGAAGATGAGCTGACCCCCGATGATAAAATGCTCAGGTTTGTGGATAAAAACGGACTGGTGCCTTCCTCATCTGGAACTGTT
TATGATAGGACCACTGTTCTTATTGAGCAGGACCCTGGCACTTTGGAGGATGAAGATGACGACGGACAGTGCGGAGAACACTTGCCTTTT
CTAGTAGGGGGTGAAGAGGGCTTTCACCTGATAGATCATGAAGCAATGTCCCAGGGTTATGTGCAGCACATTATCTCACCAGATCAGATT
CATTTGACAATAAACCCTGGTTCCACACCCATGCCAAGAAATATTGAAGGTGCAACCCTCACTCTGCAGTCGGAATGTCCGGAAACAAAA
CGTAAAGAAGAACAGCGACATCTCACTCATGAAAATGTACAGCGCAAGCAAGCCAGGACAGGAGAAGAGCGAGAAGAAGAGGAAGAAGAG
CAGATCAGTGAGAGTGAGAGTGAAGATGAAGAGAACGAGATCATTTACAACCCCAAAAACCTGCCACTTGGCTGGGATGGCAAACCTATT
CCCTACTGGCTGTATAAGCTTCATGGCCTAAATATCAACTACAACTGTGAGATTTGTGGAAACTACACCTACCGAGGGCCCAAAGCCTTC
CAGCGACACTTTGCTGAATGGCGTCATGCTCATGGCATGAGGTGTTTGGGCATCCCAAACACTGCTCACTTTGCTAATGTGACACAGATT
GAAGATGCTGTCTCCTTGTGGGCCAAACTGAAATTGCAGAAGGCTTCAGAACGATGGCAGCCTGACACTGAGGAAGAATATGAAGACTCA
AGTGGGAATGTTGTGAATAAGAAGACATACGAGGATCTGAAAAGACAAGGACTGCTCTAGTGTTCAGGGATGTAGCTCAGCTTTTGGGCT
AGCCCAGGCTTCCCTAAGATCTGCTTTTTCTATTTCTCCCAACCAAATCCTCTTAAAGACCCTTTGCTATGTAGTCTCATGGTCTAGCAT

>In-frame_ENST00000373036_ENST00000448721_TCGA-AR-A0TT-01A_MTF1_chr1_38322923_-_SF3A3_chr1_38435407_length(amino acids)=302AA_start in transcript=141_stop in transcript=1049
MGEHSPDNNIIYFEAEEDELTPDDKMLRFVDKNGLVPSSSGTVYDRTTVLIEQDPGTLEDEDDDGQCGEHLPFLVGGEEGFHLIDHEAMS
QGYVQHIISPDQIHLTINPGSTPMPRNIEGATLTLQSECPETKRKEEQRHLTHENVQRKQARTGEEREEEEEEQISESESEDEENEIIYN
PKNLPLGWDGKPIPYWLYKLHGLNINYNCEICGNYTYRGPKAFQRHFAEWRHAHGMRCLGIPNTAHFANVTQIEDAVSLWAKLKLQKASE

--------------------------------------------------------------
>In-frame_ENST00000373036_ENST00000373019_TCGA-06-0141-01A_MTF1_chr1_38322923_-_SF3A3_chr1_38453508_length(transcript)=3122nt_BP=549nt
GGAAGTGACGTTAGGGGAAGGTGGGGGCAATCATGGTGCCGCTGGGGAGGGGAGAAGCTGCTGCTGCCGCCGTTGCCGGGAGCCGCGGAG
ACAAGTCATTACGTTTTCATTTCTCACAACTGGGCTGAGCACAACTGAACCATGGGGGAACACAGTCCAGACAACAACATCATCTACTTT
GAGGCAGAGGAAGATGAGCTGACCCCCGATGATAAAATGCTCAGGTTTGTGGATAAAAACGGACTGGTGCCTTCCTCATCTGGAACTGTT
TATGATAGGACCACTGTTCTTATTGAGCAGGACCCTGGCACTTTGGAGGATGAAGATGACGACGGACAGTGCGGAGAACACTTGCCTTTT
CTAGTAGGGGGTGAAGAGGGCTTTCACCTGATAGATCATGAAGCAATGTCCCAGGGTTATGTGCAGCACATTATCTCACCAGATCAGATT
CATTTGACAATAAACCCTGGTTCCACACCCATGCCAAGAAATATTGAAGGTGCAACCCTCACTCTGCAGTCGGAATGTCCGGAAACAAAA
CGTAAAGAAAGGTATATGGAGGTCAGTGGGAACCTGAGGGATTTGTATGATGATAAGGATGGATTACGAAAGGAGGAGCTCAATGCCATT
TCAGGACCCAATGAGTTTGCTGAATTCTATAATAGACTCAAGCAAATAAAGGAATTCCACCGGAAGCACCCAAATGAGATCTGTGTGCCA
ATGTCAGTGGAATTTGAGGAACTCCTGAAGGCTCGAGAGAATCCAAGTGAAGAGGCACAAAACTTGGTGGAGTTCACAGATGAAGAGGGA
TATGGTCGTTATCTCGATCTCCATGACTGTTACCTCAAGTACATTAACCTGAAGGCATCTGAGAAGCTGGATTATATCACATACCTGTCC
ATCTTTGACCAATTATTTGACATTCCTAAAGAAAGGAAGAATGCAGAGTATAAGAGATACCTAGAGATGCTGCTTGAGTACCTTCAGGAT
TACACAGATAGAGTGAAGCCTCTCCAAGATCAGAATGAACTTTTTGGGAAGATTCAGGCTGAGTTTGAGAAGAAATGGGAGAATGGGACC
TTTCCTGGATGGCCGAAAGAGACAAGCAGTGCCCTGACCCATGCTGGAGCCCATCTTGACCTCTCTGCATTCTCCTCCTGGGAGGAGTTG
GCTTCTCTGGGTTTGGACAGATTGAAATCTGCTCTCTTAGCTTTAGGCTTGAAATGTGGCGGGACCCTAGAAGAGCGAGCCCAGAGACTA
TTCAGTACCAAAGGAAAGTCCCTGGAGTCACTTGATACCTCTTTGTTTGCCAAAAATCCCAAGTCAAAGGGCACCAAGCGAGACACTGAA
AGGAACAAAGACATTGCTTTTCTAGAAGCCCAGATCTATGAATATGTAGAGATTCTCGGGGAACAGCGACATCTCACTCATGAAAATGTA
CAGCGCAAGCAAGCCAGGACAGGAGAAGAGCGAGAAGAAGAGGAAGAAGAGCAGATCAGTGAGAGTGAGAGTGAAGATGAAGAGAACGAG
ATCATTTACAACCCCAAAAACCTGCCACTTGGCTGGGATGGCAAACCTATTCCCTACTGGCTGTATAAGCTTCATGGCCTAAATATCAAC
TACAACTGTGAGATTTGTGGAAACTACACCTACCGAGGGCCCAAAGCCTTCCAGCGACACTTTGCTGAATGGCGTCATGCTCATGGCATG
AGGTGTTTGGGCATCCCAAACACTGCTCACTTTGCTAATGTGACACAGATTGAAGATGCTGTCTCCTTGTGGGCCAAACTGAAATTGCAG
AAGGCTTCAGAACGATGGCAGCCTGACACTGAGGAAGAATATGAAGACTCAAGTGGGAATGTTGTGAATAAGAAGACATACGAGGATCTG
AAAAGACAAGGACTGCTCTAGTGTTCAGGGATGTAGCTCAGCTTTTGGGCTAGCCCAGGCTTCCCTAAGATCTGCTTTTTCTATTTCTCC
CAACCAAATCCTCTTAAAGACCCTTTGCTATGTAGTCTCATGGTCTAGCATGCATCTTGTAGAAACAAGGCATGCTGGCAGATTGCAGGG
TTGAGATGTGTTTTATCTGTTTTATATTTTAAAAGATTCTGCCAGAAAATAAAACCAGACCTTGTTCTAAAGCCCAGGGTTATGGACCAA
CTCAGTGCTTCAGGTCTTAACGCCTCCATACCTCTTCCTCACCAACTTTACTAGTAGCTGAGATTTAATGGGCACCTATTATGCTACATA
TCATGTTAGGTAAATCTGACCTGACCTCTTTCCCCACCCTCCTTTGTTGCTGCTTCCCTGAATGAGTATTACCCCAGGATGAGGTCTGCC
ATCAGCTTAGTTAGCCATTGATGCAAATACTAGGGAAAGACTAGGAGGATGAGCCAGGGTTGCTACTAAGGACTAAGTGTCGCACCAAGG
TTTGCCTTTTGTATTTGCATAAAGAAAGGAGTTGGAGCTGGGTGCAGTGGCTTGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAG
GAGGGTTGCTTGAGACTAGCCTAGGTAACATAGTGAGACCCTGTCTCATTAAAAAAAAAAAAAAGGCATGGTGGCACGCACTGTAGTCCC
AGCTACTCAGGAGACTGAGGCTAGAAGATCCTTTGAACCTAGGAGTTTGAGACCAGCCTGGGCGATATAGTGAGGCCCCATCTCAAAAAA
AAAAAAAGGGGGGGGGGGGGGAGTTGGGCTGTGTTGGAATGGGCCTGCAGCCCAACAAACAAGGGAACTAGGACCGACAGTGACTTCACC
AGCTTGCTAGGTCAGAATGAGAGACTGGTGGGTCTGTCTACCTGTTTCTTCTACAAGATCCCTATTTGACTGTAAAAGTAGCTAATACTC
ACATGTTCTCCAATCCCAGGTAGCCATGGTAGAGTTGGGTAGAGTTGAGCAGCTGCCCCAGGATCCAAATGTGGTGTCTGAAATGGAAAG
AACTAAGGCAACCAGGAAGGCACTGATCTGCCTTATAAGCACAGTCATCTGAAAGTCAGGCCTGCTGCAGGACAGGATCCCCCAGAGACC

>In-frame_ENST00000373036_ENST00000373019_TCGA-06-0141-01A_MTF1_chr1_38322923_-_SF3A3_chr1_38453508_length(amino acids)=589AA_start in transcript=141_stop in transcript=1910
MGEHSPDNNIIYFEAEEDELTPDDKMLRFVDKNGLVPSSSGTVYDRTTVLIEQDPGTLEDEDDDGQCGEHLPFLVGGEEGFHLIDHEAMS
QGYVQHIISPDQIHLTINPGSTPMPRNIEGATLTLQSECPETKRKERYMEVSGNLRDLYDDKDGLRKEELNAISGPNEFAEFYNRLKQIK
EFHRKHPNEICVPMSVEFEELLKARENPSEEAQNLVEFTDEEGYGRYLDLHDCYLKYINLKASEKLDYITYLSIFDQLFDIPKERKNAEY
KRYLEMLLEYLQDYTDRVKPLQDQNELFGKIQAEFEKKWENGTFPGWPKETSSALTHAGAHLDLSAFSSWEELASLGLDRLKSALLALGL
KCGGTLEERAQRLFSTKGKSLESLDTSLFAKNPKSKGTKRDTERNKDIAFLEAQIYEYVEILGEQRHLTHENVQRKQARTGEEREEEEEE
QISESESEDEENEIIYNPKNLPLGWDGKPIPYWLYKLHGLNINYNCEICGNYTYRGPKAFQRHFAEWRHAHGMRCLGIPNTAHFANVTQI

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>In-frame_ENST00000373036_ENST00000373019_TCGA-AR-A0TT_MTF1_chr1_38322922_-_SF3A3_chr1_38435407_length(transcript)=2261nt_BP=549nt
GGAAGTGACGTTAGGGGAAGGTGGGGGCAATCATGGTGCCGCTGGGGAGGGGAGAAGCTGCTGCTGCCGCCGTTGCCGGGAGCCGCGGAG
ACAAGTCATTACGTTTTCATTTCTCACAACTGGGCTGAGCACAACTGAACCATGGGGGAACACAGTCCAGACAACAACATCATCTACTTT
GAGGCAGAGGAAGATGAGCTGACCCCCGATGATAAAATGCTCAGGTTTGTGGATAAAAACGGACTGGTGCCTTCCTCATCTGGAACTGTT
TATGATAGGACCACTGTTCTTATTGAGCAGGACCCTGGCACTTTGGAGGATGAAGATGACGACGGACAGTGCGGAGAACACTTGCCTTTT
CTAGTAGGGGGTGAAGAGGGCTTTCACCTGATAGATCATGAAGCAATGTCCCAGGGTTATGTGCAGCACATTATCTCACCAGATCAGATT
CATTTGACAATAAACCCTGGTTCCACACCCATGCCAAGAAATATTGAAGGTGCAACCCTCACTCTGCAGTCGGAATGTCCGGAAACAAAA
CGTAAAGAAGAACAGCGACATCTCACTCATGAAAATGTACAGCGCAAGCAAGCCAGGACAGGAGAAGAGCGAGAAGAAGAGGAAGAAGAG
CAGATCAGTGAGAGTGAGAGTGAAGATGAAGAGAACGAGATCATTTACAACCCCAAAAACCTGCCACTTGGCTGGGATGGCAAACCTATT
CCCTACTGGCTGTATAAGCTTCATGGCCTAAATATCAACTACAACTGTGAGATTTGTGGAAACTACACCTACCGAGGGCCCAAAGCCTTC
CAGCGACACTTTGCTGAATGGCGTCATGCTCATGGCATGAGGTGTTTGGGCATCCCAAACACTGCTCACTTTGCTAATGTGACACAGATT
GAAGATGCTGTCTCCTTGTGGGCCAAACTGAAATTGCAGAAGGCTTCAGAACGATGGCAGCCTGACACTGAGGAAGAATATGAAGACTCA
AGTGGGAATGTTGTGAATAAGAAGACATACGAGGATCTGAAAAGACAAGGACTGCTCTAGTGTTCAGGGATGTAGCTCAGCTTTTGGGCT
AGCCCAGGCTTCCCTAAGATCTGCTTTTTCTATTTCTCCCAACCAAATCCTCTTAAAGACCCTTTGCTATGTAGTCTCATGGTCTAGCAT
GCATCTTGTAGAAACAAGGCATGCTGGCAGATTGCAGGGTTGAGATGTGTTTTATCTGTTTTATATTTTAAAAGATTCTGCCAGAAAATA
AAACCAGACCTTGTTCTAAAGCCCAGGGTTATGGACCAACTCAGTGCTTCAGGTCTTAACGCCTCCATACCTCTTCCTCACCAACTTTAC
TAGTAGCTGAGATTTAATGGGCACCTATTATGCTACATATCATGTTAGGTAAATCTGACCTGACCTCTTTCCCCACCCTCCTTTGTTGCT
GCTTCCCTGAATGAGTATTACCCCAGGATGAGGTCTGCCATCAGCTTAGTTAGCCATTGATGCAAATACTAGGGAAAGACTAGGAGGATG
AGCCAGGGTTGCTACTAAGGACTAAGTGTCGCACCAAGGTTTGCCTTTTGTATTTGCATAAAGAAAGGAGTTGGAGCTGGGTGCAGTGGC
TTGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGGGTTGCTTGAGACTAGCCTAGGTAACATAGTGAGACCCTGTCTCATTA
AAAAAAAAAAAAAGGCATGGTGGCACGCACTGTAGTCCCAGCTACTCAGGAGACTGAGGCTAGAAGATCCTTTGAACCTAGGAGTTTGAG
ACCAGCCTGGGCGATATAGTGAGGCCCCATCTCAAAAAAAAAAAAAGGGGGGGGGGGGGGAGTTGGGCTGTGTTGGAATGGGCCTGCAGC
CCAACAAACAAGGGAACTAGGACCGACAGTGACTTCACCAGCTTGCTAGGTCAGAATGAGAGACTGGTGGGTCTGTCTACCTGTTTCTTC
TACAAGATCCCTATTTGACTGTAAAAGTAGCTAATACTCACATGTTCTCCAATCCCAGGTAGCCATGGTAGAGTTGGGTAGAGTTGAGCA
GCTGCCCCAGGATCCAAATGTGGTGTCTGAAATGGAAAGAACTAAGGCAACCAGGAAGGCACTGATCTGCCTTATAAGCACAGTCATCTG
AAAGTCAGGCCTGCTGCAGGACAGGATCCCCCAGAGACCCCATTTGCCTCTCAACACTCAGACCTTCAACTGTTTTTTAATAAATCTACT

>In-frame_ENST00000373036_ENST00000373019_TCGA-AR-A0TT_MTF1_chr1_38322922_-_SF3A3_chr1_38435407_length(amino acids)=302AA_start in transcript=141_stop in transcript=1049
MGEHSPDNNIIYFEAEEDELTPDDKMLRFVDKNGLVPSSSGTVYDRTTVLIEQDPGTLEDEDDDGQCGEHLPFLVGGEEGFHLIDHEAMS
QGYVQHIISPDQIHLTINPGSTPMPRNIEGATLTLQSECPETKRKEEQRHLTHENVQRKQARTGEEREEEEEEQISESESEDEENEIIYN
PKNLPLGWDGKPIPYWLYKLHGLNINYNCEICGNYTYRGPKAFQRHFAEWRHAHGMRCLGIPNTAHFANVTQIEDAVSLWAKLKLQKASE

--------------------------------------------------------------
>In-frame_ENST00000373036_ENST00000448721_TCGA-AR-A0TT_MTF1_chr1_38322922_-_SF3A3_chr1_38435407_length(transcript)=1219nt_BP=549nt
GGAAGTGACGTTAGGGGAAGGTGGGGGCAATCATGGTGCCGCTGGGGAGGGGAGAAGCTGCTGCTGCCGCCGTTGCCGGGAGCCGCGGAG
ACAAGTCATTACGTTTTCATTTCTCACAACTGGGCTGAGCACAACTGAACCATGGGGGAACACAGTCCAGACAACAACATCATCTACTTT
GAGGCAGAGGAAGATGAGCTGACCCCCGATGATAAAATGCTCAGGTTTGTGGATAAAAACGGACTGGTGCCTTCCTCATCTGGAACTGTT
TATGATAGGACCACTGTTCTTATTGAGCAGGACCCTGGCACTTTGGAGGATGAAGATGACGACGGACAGTGCGGAGAACACTTGCCTTTT
CTAGTAGGGGGTGAAGAGGGCTTTCACCTGATAGATCATGAAGCAATGTCCCAGGGTTATGTGCAGCACATTATCTCACCAGATCAGATT
CATTTGACAATAAACCCTGGTTCCACACCCATGCCAAGAAATATTGAAGGTGCAACCCTCACTCTGCAGTCGGAATGTCCGGAAACAAAA
CGTAAAGAAGAACAGCGACATCTCACTCATGAAAATGTACAGCGCAAGCAAGCCAGGACAGGAGAAGAGCGAGAAGAAGAGGAAGAAGAG
CAGATCAGTGAGAGTGAGAGTGAAGATGAAGAGAACGAGATCATTTACAACCCCAAAAACCTGCCACTTGGCTGGGATGGCAAACCTATT
CCCTACTGGCTGTATAAGCTTCATGGCCTAAATATCAACTACAACTGTGAGATTTGTGGAAACTACACCTACCGAGGGCCCAAAGCCTTC
CAGCGACACTTTGCTGAATGGCGTCATGCTCATGGCATGAGGTGTTTGGGCATCCCAAACACTGCTCACTTTGCTAATGTGACACAGATT
GAAGATGCTGTCTCCTTGTGGGCCAAACTGAAATTGCAGAAGGCTTCAGAACGATGGCAGCCTGACACTGAGGAAGAATATGAAGACTCA
AGTGGGAATGTTGTGAATAAGAAGACATACGAGGATCTGAAAAGACAAGGACTGCTCTAGTGTTCAGGGATGTAGCTCAGCTTTTGGGCT
AGCCCAGGCTTCCCTAAGATCTGCTTTTTCTATTTCTCCCAACCAAATCCTCTTAAAGACCCTTTGCTATGTAGTCTCATGGTCTAGCAT

>In-frame_ENST00000373036_ENST00000448721_TCGA-AR-A0TT_MTF1_chr1_38322922_-_SF3A3_chr1_38435407_length(amino acids)=302AA_start in transcript=141_stop in transcript=1049
MGEHSPDNNIIYFEAEEDELTPDDKMLRFVDKNGLVPSSSGTVYDRTTVLIEQDPGTLEDEDDDGQCGEHLPFLVGGEEGFHLIDHEAMS
QGYVQHIISPDQIHLTINPGSTPMPRNIEGATLTLQSECPETKRKEEQRHLTHENVQRKQARTGEEREEEEEEQISESESEDEENEIIYN
PKNLPLGWDGKPIPYWLYKLHGLNINYNCEICGNYTYRGPKAFQRHFAEWRHAHGMRCLGIPNTAHFANVTQIEDAVSLWAKLKLQKASE

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Fusion Gene PPI Analysis for MTF1-SF3A3

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 (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs for MTF1-SF3A3

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases for MTF1-SF3A3

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Hgene	MTF1	C0004352	Autistic Disorder	1	CTD_human
Hgene	MTF1	C3714756	Intellectual Disability	1	GENOMICS_ENGLAND
Tgene	SF3A3	C0019693	HIV Infections	1	CTD_human
Tgene	SF3A3	C4505456	HIV Coinfection	1	CTD_human