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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:GFM1-MLF1 (FusionGDB2 ID:32946)

Fusion Gene Summary for GFM1-MLF1

check button Fusion gene summary
Fusion gene informationFusion gene name: GFM1-MLF1
Fusion gene ID: 32946
HgeneTgene
Gene symbol

GFM1

MLF1

Gene ID

85476

4291

Gene nameG elongation factor mitochondrial 1myeloid leukemia factor 1
SynonymsCOXPD1|EFG|EFG1|EFGM|EGF1|GFM|hEFG1|mtEF-G1-
Cytomap

3q25.32

3q25.32

Type of geneprotein-codingprotein-coding
Descriptionelongation factor G, mitochondrialG translation elongation factor, mitochondrialmitochondrial elongation factor Gmitochondrial elongation factor G1myeloid leukemia factor 1myelodysplasia-myeloid leukemia factor 1testis tissue sperm-binding protein Li 49e
Modification date2020031320200318
UniProtAcc

Q96RP9

P58340

Ensembl transtripts involved in fusion geneENST00000264263, ENST00000478576, 
ENST00000486715, ENST00000490261, 
ENST00000497004, ENST00000359117, 
ENST00000392822, ENST00000469452, 
ENST00000471745, ENST00000478894, 
ENST00000482628, ENST00000484955, 
ENST00000355893, 
Fusion gene scores* DoF score7 X 7 X 5=2453 X 3 X 3=27
# samples 73
** MAII scorelog2(7/245*10)=-1.8073549220576
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: GFM1 [Title/Abstract] AND MLF1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGFM1(158384175)-MLF1(158310223), # samples:2
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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneGFM1

GO:0070125

mitochondrial translational elongation

19716793

TgeneMLF1

GO:0007050

cell cycle arrest

15861129


check buttonFusion gene breakpoints across GFM1 (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 MLF1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4BRCATCGA-C8-A12Q-01AGFM1chr3

158384174

+MLF1chr3

158310222

+
ChimerDB4BRCATCGA-C8-A12Q-01AGFM1chr3

158384175

-MLF1chr3

158310223

+
ChimerDB4BRCATCGA-C8-A12Q-01AGFM1chr3

158384175

+MLF1chr3

158310223

+


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Fusion Gene ORF analysis for GFM1-MLF1

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5CDS-3UTRENST00000264263ENST00000497004GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-3UTRENST00000264263ENST00000497004GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-3UTRENST00000478576ENST00000497004GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-3UTRENST00000478576ENST00000497004GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-3UTRENST00000486715ENST00000497004GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-3UTRENST00000486715ENST00000497004GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000264263ENST00000359117GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000264263ENST00000359117GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000264263ENST00000392822GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000264263ENST00000392822GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000264263ENST00000469452GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000264263ENST00000469452GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000264263ENST00000471745GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000264263ENST00000471745GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000264263ENST00000478894GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000264263ENST00000478894GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000264263ENST00000482628GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000264263ENST00000482628GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000264263ENST00000484955GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000264263ENST00000484955GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000478576ENST00000359117GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000478576ENST00000359117GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000478576ENST00000392822GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000478576ENST00000392822GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000478576ENST00000469452GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000478576ENST00000469452GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000478576ENST00000471745GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000478576ENST00000471745GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000478576ENST00000478894GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000478576ENST00000478894GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000478576ENST00000482628GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000478576ENST00000482628GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000478576ENST00000484955GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000478576ENST00000484955GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000486715ENST00000359117GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000486715ENST00000359117GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000486715ENST00000392822GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000486715ENST00000392822GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000486715ENST00000469452GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000486715ENST00000469452GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000486715ENST00000471745GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000486715ENST00000471745GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000486715ENST00000478894GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000486715ENST00000478894GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000486715ENST00000482628GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000486715ENST00000482628GFM1chr3

158384175

+MLF1chr3

158310223

+
5CDS-5UTRENST00000486715ENST00000484955GFM1chr3

158384174

+MLF1chr3

158310222

+
5CDS-5UTRENST00000486715ENST00000484955GFM1chr3

158384175

+MLF1chr3

158310223

+
In-frameENST00000264263ENST00000355893GFM1chr3

158384174

+MLF1chr3

158310222

+
In-frameENST00000264263ENST00000355893GFM1chr3

158384175

+MLF1chr3

158310223

+
In-frameENST00000478576ENST00000355893GFM1chr3

158384174

+MLF1chr3

158310222

+
In-frameENST00000478576ENST00000355893GFM1chr3

158384175

+MLF1chr3

158310223

+
In-frameENST00000486715ENST00000355893GFM1chr3

158384174

+MLF1chr3

158310222

+
In-frameENST00000486715ENST00000355893GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-3CDSENST00000490261ENST00000355893GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-3CDSENST00000490261ENST00000355893GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-3UTRENST00000490261ENST00000497004GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-3UTRENST00000490261ENST00000497004GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-5UTRENST00000490261ENST00000359117GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-5UTRENST00000490261ENST00000359117GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-5UTRENST00000490261ENST00000392822GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-5UTRENST00000490261ENST00000392822GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-5UTRENST00000490261ENST00000469452GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-5UTRENST00000490261ENST00000469452GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-5UTRENST00000490261ENST00000471745GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-5UTRENST00000490261ENST00000471745GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-5UTRENST00000490261ENST00000478894GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-5UTRENST00000490261ENST00000478894GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-5UTRENST00000490261ENST00000482628GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-5UTRENST00000490261ENST00000482628GFM1chr3

158384175

+MLF1chr3

158310223

+
intron-5UTRENST00000490261ENST00000484955GFM1chr3

158384174

+MLF1chr3

158310222

+
intron-5UTRENST00000490261ENST00000484955GFM1chr3

158384175

+MLF1chr3

158310223

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

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

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Fusion Genomic Features for GFM1-MLF1


check buttonFusionAI 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.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
GFM1chr3158384175+MLF1chr3158310222+1.97E-070.99999976
GFM1chr3158384175+MLF1chr3158310222+1.97E-070.99999976

check buttonDistribution 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.
genomic feature

check buttonDistribution 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.
genomic feature of top 1%

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Fusion Protein Features for GFM1-MLF1


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/chr3:158384175/chr3:158310223)
- 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
GFM1

Q96RP9

MLF1

P58340

FUNCTION: Mitochondrial GTPase that catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome. Does not mediate the disassembly of ribosomes from messenger RNA at the termination of mitochondrial protein biosynthesis. {ECO:0000255|HAMAP-Rule:MF_03061, ECO:0000269|PubMed:19716793}.FUNCTION: Involved in lineage commitment of primary hemopoietic progenitors by restricting erythroid formation and enhancing myeloid formation. Interferes with erythropoietin-induced erythroid terminal differentiation by preventing cells from exiting the cell cycle through suppression of CDKN1B/p27Kip1 levels. Suppresses COP1 activity via CSN3 which activates p53 and induces cell cycle arrest. Binds DNA and affects the expression of a number of genes so may function as a transcription factor in the nucleus. {ECO:0000269|PubMed:15861129}.

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.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneGFM1chr3:158384174chr3:158310222ENST00000264263+141944_321552771.0DomainNote=tr-type G
HgeneGFM1chr3:158384174chr3:158310222ENST00000486715+131844_321533752.0DomainNote=tr-type G
HgeneGFM1chr3:158384175chr3:158310223ENST00000264263+141944_321552771.0DomainNote=tr-type G
HgeneGFM1chr3:158384175chr3:158310223ENST00000486715+131844_321533752.0DomainNote=tr-type G
HgeneGFM1chr3:158384174chr3:158310222ENST00000264263+1419120_124552771.0Nucleotide bindingGTP
HgeneGFM1chr3:158384174chr3:158310222ENST00000264263+1419174_177552771.0Nucleotide bindingGTP
HgeneGFM1chr3:158384174chr3:158310222ENST00000264263+141953_60552771.0Nucleotide bindingGTP
HgeneGFM1chr3:158384174chr3:158310222ENST00000486715+1318120_124533752.0Nucleotide bindingGTP
HgeneGFM1chr3:158384174chr3:158310222ENST00000486715+1318174_177533752.0Nucleotide bindingGTP
HgeneGFM1chr3:158384174chr3:158310222ENST00000486715+131853_60533752.0Nucleotide bindingGTP
HgeneGFM1chr3:158384175chr3:158310223ENST00000264263+1419120_124552771.0Nucleotide bindingGTP
HgeneGFM1chr3:158384175chr3:158310223ENST00000264263+1419174_177552771.0Nucleotide bindingGTP
HgeneGFM1chr3:158384175chr3:158310223ENST00000264263+141953_60552771.0Nucleotide bindingGTP
HgeneGFM1chr3:158384175chr3:158310223ENST00000486715+1318120_124533752.0Nucleotide bindingGTP
HgeneGFM1chr3:158384175chr3:158310223ENST00000486715+1318174_177533752.0Nucleotide bindingGTP
HgeneGFM1chr3:158384175chr3:158310223ENST00000486715+131853_60533752.0Nucleotide bindingGTP

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for GFM1-MLF1


check button 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.

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Fusion Gene PPI Analysis for GFM1-MLF1


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 (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with
TgeneMLF1chr3:158384174chr3:158310222ENST000003558930750_12515.666666666666666269.0COPS3
TgeneMLF1chr3:158384174chr3:158310222ENST000003591170750_1250244.0COPS3
TgeneMLF1chr3:158384174chr3:158310222ENST000003928221950_12531.666666666666668300.0COPS3
TgeneMLF1chr3:158384174chr3:158310222ENST000004694521750_1250201.0COPS3
TgeneMLF1chr3:158384174chr3:158310222ENST000004717451950_1250259.0COPS3
TgeneMLF1chr3:158384174chr3:158310222ENST000004788941950_1250259.0COPS3
TgeneMLF1chr3:158384174chr3:158310222ENST000004826281850_1250244.0COPS3
TgeneMLF1chr3:158384174chr3:158310222ENST000004849551850_1250244.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000003558930750_12515.666666666666666269.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000003591170750_1250244.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000003928221950_12531.666666666666668300.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000004694521750_1250201.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000004717451950_1250259.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000004788941950_1250259.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000004826281850_1250244.0COPS3
TgeneMLF1chr3:158384175chr3:158310223ENST000004849551850_1250244.0COPS3


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for GFM1-MLF1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for GFM1-MLF1


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