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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:ZMYM2-MTIF3

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: ZMYM2-MTIF3
FusionPDB ID: 101347
FusionGDB2.0 ID: 101347
HgeneTgene
Gene symbol

ZMYM2

MTIF3

Gene ID

7750

219402

Gene namezinc finger MYM-type containing 2mitochondrial translational initiation factor 3
SynonymsFIM|MYM|RAMP|SCLL|ZNF198IF3mt
Cytomap

13q12.11

13q12.2

Type of geneprotein-codingprotein-coding
Descriptionzinc finger MYM-type protein 2fused in myeloproliferative disorders proteinrearranged in an atypical myeloproliferative disorderzinc finger protein 198zinc finger, MYM-type 2translation initiation factor IF-3, mitochondrialIF-3(Mt)
Modification date2020031320200320
UniProtAcc

Q9UBW7

Q9H2K0

Ensembl transtripts involved in fusion geneENST idsENST00000382869, ENST00000382871, 
ENST00000382874, ENST00000382881, 
ENST00000382883, ENST00000494061, 
ENST00000461838, ENST00000381116, 
ENST00000381120, ENST00000405591, 
ENST00000431572, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score19 X 16 X 11=33444 X 4 X 4=64
# samples 215
** MAII scorelog2(21/3344*10)=-3.99311361441476
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/64*10)=-0.356143810225275
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: ZMYM2 [Title/Abstract] AND MTIF3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)ZMYM2(20580726)-MTIF3(28010030), # samples:1
Anticipated loss of major functional domain due to fusion event.ZMYM2-MTIF3 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.
ZMYM2-MTIF3 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.
ZMYM2-MTIF3 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.
ZMYM2-MTIF3 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.
ZMYM2-MTIF3 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
ZMYM2-MTIF3 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF.
ZMYM2-MTIF3 seems lost the major protein functional domain in Hgene partner, which is a essential gene 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneMTIF3

GO:0032790

ribosome disassembly

12095986

TgeneMTIF3

GO:0070124

mitochondrial translational initiation

12095986


check buttonFusion gene breakpoints across ZMYM2 (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 MTIF3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4ESCATCGA-LN-A49KZMYM2chr13

20580726

+MTIF3chr13

28010030

-


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000382869ZMYM2chr1320580726+ENST00000431572MTIF3chr1328010030-201817631971981594
ENST00000382881ZMYM2chr1320580726+ENST00000431572MTIF3chr1328010030-175014951901713507
ENST00000382874ZMYM2chr1320580726+ENST00000431572MTIF3chr1328010030-195717021901920576
ENST00000382871ZMYM2chr1320580726+ENST00000431572MTIF3chr1328010030-195216971851915576

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
ENST00000382869ENST00000431572ZMYM2chr1320580726+MTIF3chr1328010030-0.0003424160.99965763
ENST00000382881ENST00000431572ZMYM2chr1320580726+MTIF3chr1328010030-0.0003892040.99961084
ENST00000382874ENST00000431572ZMYM2chr1320580726+MTIF3chr1328010030-0.0003574710.9996425
ENST00000382871ENST00000431572ZMYM2chr1320580726+MTIF3chr1328010030-0.0003421680.99965787

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Fusion Amino Acid Sequences


check button 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

>101347_101347_1_ZMYM2-MTIF3_ZMYM2_chr13_20580726_ENST00000382869_MTIF3_chr13_28010030_ENST00000431572_length(amino acids)=594AA_BP=522
MVHPWQKVRRKTPPLFFGMDTSSVGGLELTDQTPVLLGSTAMATSLTNVGNSFSGPANPLVSRSNKFQNSSVEDDDDVVFIEPVQPPPPS
VPVVADQRTITFTSSKNEELQGNDSKITPSSKELASQKGSVSETIVIDDEEDMETNQGQEKNSSNFIERRPPETKNRTNDVDFSTSSFSR
SKVNAGMGNSGITTEPDSEIQIANVTTLETGVSSVNDGQLENTDGRDMNLMITHVTSLQNTNLGDVSNGLQSSNFGVNIQTYTPSLTSQT
KTGVGPFNPGRMNVAGDVFQNGESATHHNPDSWISQSASFPRNQKQPGVDSLSPVASLPKQIFQPSVQQQPTKPVKVTCANCKKPLQKGQ
TAYQRKGSAHLFCSTTCLSSFSHKPAPKKLCVMCKKDITTMKGTIVAQVDSSESFQEFCSTSCLSLYEDKQNPTKGALNKSRCTICGKLT
EIRHEVSFKNMTHKLCSDHCFNRYRMANGLIMNCCEQCGEYLPSKGAGNNVLVIDGQQKRFCCQSCVSEYKQEEIFHQILQTMPGIATFS

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

>101347_101347_2_ZMYM2-MTIF3_ZMYM2_chr13_20580726_ENST00000382871_MTIF3_chr13_28010030_ENST00000431572_length(amino acids)=576AA_BP=504
MDTSSVGGLELTDQTPVLLGSTAMATSLTNVGNSFSGPANPLVSRSNKFQNSSVEDDDDVVFIEPVQPPPPSVPVVADQRTITFTSSKNE
ELQGNDSKITPSSKELASQKGSVSETIVIDDEEDMETNQGQEKNSSNFIERRPPETKNRTNDVDFSTSSFSRSKVNAGMGNSGITTEPDS
EIQIANVTTLETGVSSVNDGQLENTDGRDMNLMITHVTSLQNTNLGDVSNGLQSSNFGVNIQTYTPSLTSQTKTGVGPFNPGRMNVAGDV
FQNGESATHHNPDSWISQSASFPRNQKQPGVDSLSPVASLPKQIFQPSVQQQPTKPVKVTCANCKKPLQKGQTAYQRKGSAHLFCSTTCL
SSFSHKPAPKKLCVMCKKDITTMKGTIVAQVDSSESFQEFCSTSCLSLYEDKQNPTKGALNKSRCTICGKLTEIRHEVSFKNMTHKLCSD
HCFNRYRMANGLIMNCCEQCGEYLPSKGAGNNVLVIDGQQKRFCCQSCVSEYKQEEIFHQILQTMPGIATFSSRPQAVQGGKALMCVLRA

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

>101347_101347_3_ZMYM2-MTIF3_ZMYM2_chr13_20580726_ENST00000382874_MTIF3_chr13_28010030_ENST00000431572_length(amino acids)=576AA_BP=504
MDTSSVGGLELTDQTPVLLGSTAMATSLTNVGNSFSGPANPLVSRSNKFQNSSVEDDDDVVFIEPVQPPPPSVPVVADQRTITFTSSKNE
ELQGNDSKITPSSKELASQKGSVSETIVIDDEEDMETNQGQEKNSSNFIERRPPETKNRTNDVDFSTSSFSRSKVNAGMGNSGITTEPDS
EIQIANVTTLETGVSSVNDGQLENTDGRDMNLMITHVTSLQNTNLGDVSNGLQSSNFGVNIQTYTPSLTSQTKTGVGPFNPGRMNVAGDV
FQNGESATHHNPDSWISQSASFPRNQKQPGVDSLSPVASLPKQIFQPSVQQQPTKPVKVTCANCKKPLQKGQTAYQRKGSAHLFCSTTCL
SSFSHKPAPKKLCVMCKKDITTMKGTIVAQVDSSESFQEFCSTSCLSLYEDKQNPTKGALNKSRCTICGKLTEIRHEVSFKNMTHKLCSD
HCFNRYRMANGLIMNCCEQCGEYLPSKGAGNNVLVIDGQQKRFCCQSCVSEYKQEEIFHQILQTMPGIATFSSRPQAVQGGKALMCVLRA

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

>101347_101347_4_ZMYM2-MTIF3_ZMYM2_chr13_20580726_ENST00000382881_MTIF3_chr13_28010030_ENST00000431572_length(amino acids)=507AA_BP=435
MVHPWQKVRRKTPPLFFGMDTSSVGGLELTDQTPVLLGSTAMATSLTNVGNSFSGPANPLVSRSNKFQNSSVEDDDDVVFIEPVQPPPPS
VPVVADQRTITFTSSKNEELQGNDSKITPSSKELASQKGSVSETIVIDDEEDMETNQGQEKNSSNFIERRPPETKNRTNDVDFSTSSFSR
SKTKTGVGPFNPGRMNVAGDVFQNGESATHHNPDSWISQSASFPRNQKQPGVDSLSPVASLPKQIFQPSVQQQPTKPVKVTCANCKKPLQ
KGQTAYQRKGSAHLFCSTTCLSSFSHKPAPKKLCVMCKKDITTMKGTIVAQVDSSESFQEFCSTSCLSLYEDKQNPTKGALNKSRCTICG
KLTEIRHEVSFKNMTHKLCSDHCFNRYRMANGLIMNCCEQCGEYLPSKGAGNNVLVIDGQQKRFCCQSCVSEYKQEEIFHQILQTMPGIA

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Fusion Protein Functional Features


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/chr13:20580726/chr13:28010030)
- 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
ZMYM2

Q9UBW7

MTIF3

Q9H2K0

FUNCTION: May function as a transcription factor.FUNCTION: IF-3 binds to the 28S ribosomal subunit and shifts the equilibrum between 55S ribosomes and their 39S and 28S subunits in favor of the free subunits, thus enhancing the availability of 28S subunits on which protein synthesis initiation begins. {ECO:0000269|PubMed:12095986}.

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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625352_386504.01378.0Zinc fingerNote=MYM-type 1
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625398_436504.01378.0Zinc fingerNote=MYM-type 2
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625445_480504.01378.0Zinc fingerNote=MYM-type 3
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726352_386504.01378.0Zinc fingerNote=MYM-type 1
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726398_436504.01378.0Zinc fingerNote=MYM-type 2
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726445_480504.01378.0Zinc fingerNote=MYM-type 3
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726352_386504.01378.0Zinc fingerNote=MYM-type 1
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726398_436504.01378.0Zinc fingerNote=MYM-type 2
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726445_480504.01378.0Zinc fingerNote=MYM-type 3
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78352_386417.0463.0Zinc fingerNote=MYM-type 1

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625491_549504.01378.0Zinc fingerNote=MYM-type 4
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625559_597504.01378.0Zinc fingerNote=MYM-type 5
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625605_652504.01378.0Zinc fingerNote=MYM-type 6
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625660_694504.01378.0Zinc fingerNote=MYM-type 7
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625701_740504.01378.0Zinc fingerNote=MYM-type 8
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382869+625747_781504.01378.0Zinc fingerNote=MYM-type 9
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726491_549504.01378.0Zinc fingerNote=MYM-type 4
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726559_597504.01378.0Zinc fingerNote=MYM-type 5
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726605_652504.01378.0Zinc fingerNote=MYM-type 6
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726660_694504.01378.0Zinc fingerNote=MYM-type 7
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726701_740504.01378.0Zinc fingerNote=MYM-type 8
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382871+726747_781504.01378.0Zinc fingerNote=MYM-type 9
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726491_549504.01378.0Zinc fingerNote=MYM-type 4
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726559_597504.01378.0Zinc fingerNote=MYM-type 5
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726605_652504.01378.0Zinc fingerNote=MYM-type 6
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726660_694504.01378.0Zinc fingerNote=MYM-type 7
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726701_740504.01378.0Zinc fingerNote=MYM-type 8
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382874+726747_781504.01378.0Zinc fingerNote=MYM-type 9
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78398_436417.0463.0Zinc fingerNote=MYM-type 2
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78445_480417.0463.0Zinc fingerNote=MYM-type 3
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78491_549417.0463.0Zinc fingerNote=MYM-type 4
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78559_597417.0463.0Zinc fingerNote=MYM-type 5
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78605_652417.0463.0Zinc fingerNote=MYM-type 6
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78660_694417.0463.0Zinc fingerNote=MYM-type 7
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78701_740417.0463.0Zinc fingerNote=MYM-type 8
HgeneZMYM2chr13:20580726chr13:28010030ENST00000382881+78747_781417.0463.0Zinc fingerNote=MYM-type 9


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors
ZMYM2HDAC2, KDM1A, FUS, SFPQ, HNRNPH3, HNRNPA2B1, UBTF, ZMYM4, HSPA4, RCOR1, HDAC1, TUBA1B, TUBB1, SUMO2, UBE2I, CREB1, SREBF2, ZBTB3, NR2E1, Dynll1, ELAVL1, CEBPE, PML, UBE2A, UBE2B, RAD18, USP15, CTCF, SKIL, SMAD4, ZNF512B, SOX2, HDAC11, SUMO1, EED, MAGEA1, SFXN3, SDF4, ST8SIA1, ALDH3B2, TRIM10, ARRDC1, NUP133, DYNLL1, ZSCAN5A, ZNF644, Cbx1, Kctd5, Gtf3c2, FOXG1, FOXJ2, FOXQ1, NFATC2, TSC22D2, ZNF263, ZNF202, PCK2, TSPYL6, MATN4, RPE65, PDDC1, TRIM35, PSG8, TRIM25, GTF2IRD1, GTF2I, FGFR1, ZMYM2, RNF4, ESR2, HIST1H4A, HIST1H2BB, HIST1H3A, KIAA1429, CREBBP, H2AFX, H2AFZ, H2AFY, ZMYM3, MYC, CSK, PSMD14, GMCL1, PAICS, IKZF3, PLEKHA4, FBXL17, ESR1, PYHIN1, PLEKHG3, CIC, NR3C1, DZIP3, CBX3, HIST1H2BG, TERF2IP, NAA40, CHD4, ZNF174, CHSY1, SFMBT1, PDGFRL, DYNLL2, RCOR2, ZNF460, PCK1, ZKSCAN8, ZBTB9, C1QTNF1, CRYAA, C8A, TUBB4B, NOL4, RCOR3, ACOT13, ADNP, CAPN10, GTF2IRD2B, HDAC3, PTH2R, CRBN, ETV6, HNF4A, KLF12, KLF3, KLF8, PAX6, YY1,


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
ZMYM2all structure
MTIF3


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to ZMYM2-MTIF3


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

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Related Diseases to ZMYM2-MTIF3


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

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneZMYM2C0020796Profound Mental Retardation1CTD_human
HgeneZMYM2C0025363Mental Retardation, Psychosocial1CTD_human
HgeneZMYM2C0027022Myeloproliferative disease1CTD_human
HgeneZMYM2C0917816Mental deficiency1CTD_human
HgeneZMYM2C3714756Intellectual Disability1CTD_human