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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:PHF2-MRGPRF

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: PHF2-MRGPRF
FusionPDB ID: 64870
FusionGDB2.0 ID: 64870
HgeneTgene
Gene symbol

PHF2

MRGPRF

Gene ID

5253

116535

Gene namePHD finger protein 2MAS related GPR family member F
SynonymsCENP-35|GRC5|JHDM1E|KDM7CGPR140|GPR168|MRGF|RTA
Cytomap

9q22.31

11q13.3

Type of geneprotein-codingprotein-coding
Descriptionlysine-specific demethylase PHF2centromere protein 35jumonji C domain-containing histone demethylase 1Emas-related G-protein coupled receptor member FG protein-coupled receptor MrgFG-protein coupled receptor 140G-protein coupled receptor 168MAS-related GPR, member FMas-related G protein-coupled receptor Fmas-related G protein-coupled MRGFmas-related
Modification date2020031320200313
UniProtAcc.

Q96AM1

Ensembl transtripts involved in fusion geneENST idsENST00000359246, ENST00000375376, 
ENST00000320913, ENST00000309099, 
ENST00000441623, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score10 X 6 X 6=3604 X 3 X 4=48
# samples 104
** MAII scorelog2(10/360*10)=-1.84799690655495
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: PHF2 [Title/Abstract] AND MRGPRF [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)PHF2(96435888)-MRGPRF(68772803), # samples:1
Anticipated loss of major functional domain due to fusion event.PHF2-MRGPRF 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.
PHF2-MRGPRF 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgenePHF2

GO:0006482

protein demethylation

21532585


check buttonFusion gene breakpoints across PHF2 (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 MRGPRF (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
ChiTaRS5.0N/AFN057836PHF2chr9

96435888

+MRGPRFchr11

68772803

+


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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)
ENST00000359246PHF2chr996435888+ENST00000441623MRGPRFchr1168772803+391229711782883901
ENST00000359246PHF2chr996435888+ENST00000309099MRGPRFchr1168772803+390929711782883901

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
ENST00000359246ENST00000441623PHF2chr996435888+MRGPRFchr1168772803+0.0026596620.9973404
ENST00000359246ENST00000309099PHF2chr996435888+MRGPRFchr1168772803+0.0026242750.9973757

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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

>64870_64870_1_PHF2-MRGPRF_PHF2_chr9_96435888_ENST00000359246_MRGPRF_chr11_68772803_ENST00000309099_length(amino acids)=901AA_BP=
MCGRAWPGARAGAVVRPRPRPLPAAAPPAPRRPRRPRAARPPARPGPTRAAQRRGRAAARRGNMATVPVYCVCRLPYDVTRFMIECDACK
DWFHGSCVGVEEEEAPDIDIYHCPNCEKTHGKSTLKKKRTWHKHGPGQAPDVKPVQNGSQLFIKELRSRTFPSAEDVVARVPGSQLTLGY
MEEHGFTEPILVPKKDGLGLAVPAPTFYVSDVENYVGPERSVDVTDVTKQKDCKMKLKEFVDYYYSTNRKRVLNVTNLEFSDTRMSSFVE
PPDIVKKLSWVENYWPDDALLAKPKVTKYCLICVKDSYTDFHIDSGGASAWYHVLKGEKTFYLIRPASANISLYERWRSASNHSEMFFAD
QVDKCYKCIVKQGQTLFIPSGWIYATLTPVDCLAFAGHFLHSLSVEMQMRAYEVERRLKLGSLTQFPNFETACWYMGKHLLEAFKGSHKS
GKQLPPHLVQGAKILNGAFRSWTKKQALAEHEDELPEHFKPSQLIKDLAKEIRLSENASKAVRPEVNTVASSDEVCDGDREKEEPPSPIE
ATPPQSLLEKVSKKKTPKTVKMPKPSKIPKPPKPPKPPRPPKTLKLKDGGKKKGKKSRESASPTIPNLDLLEAHTKEALTKMEPPKKGKA
TKSVLSVPNKDVVHMQNDVERLEIREQTKSKSEAKWKYKNSKPDSLLKMEEEQKLEKSPLAGNKDNKFSFSFSNKKLLGSKALRPPTSPG
VFGALQNFKEDKPKPVRDEYEYVSDDGELKIDEFPIRRKKNAPKRDLSFLLDKKAVLPTPVTKPKLDSAAYKSDDSSDEGSLHIDTDTKP
GRNARVKKESGSSAAGILDLLQASEEVGALEYNPSRHRKPFRECCPWPTCRPPTPACRPRGELARPRGARWLPMVPGRMGVAVARVQAND

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

>64870_64870_2_PHF2-MRGPRF_PHF2_chr9_96435888_ENST00000359246_MRGPRF_chr11_68772803_ENST00000441623_length(amino acids)=901AA_BP=
MCGRAWPGARAGAVVRPRPRPLPAAAPPAPRRPRRPRAARPPARPGPTRAAQRRGRAAARRGNMATVPVYCVCRLPYDVTRFMIECDACK
DWFHGSCVGVEEEEAPDIDIYHCPNCEKTHGKSTLKKKRTWHKHGPGQAPDVKPVQNGSQLFIKELRSRTFPSAEDVVARVPGSQLTLGY
MEEHGFTEPILVPKKDGLGLAVPAPTFYVSDVENYVGPERSVDVTDVTKQKDCKMKLKEFVDYYYSTNRKRVLNVTNLEFSDTRMSSFVE
PPDIVKKLSWVENYWPDDALLAKPKVTKYCLICVKDSYTDFHIDSGGASAWYHVLKGEKTFYLIRPASANISLYERWRSASNHSEMFFAD
QVDKCYKCIVKQGQTLFIPSGWIYATLTPVDCLAFAGHFLHSLSVEMQMRAYEVERRLKLGSLTQFPNFETACWYMGKHLLEAFKGSHKS
GKQLPPHLVQGAKILNGAFRSWTKKQALAEHEDELPEHFKPSQLIKDLAKEIRLSENASKAVRPEVNTVASSDEVCDGDREKEEPPSPIE
ATPPQSLLEKVSKKKTPKTVKMPKPSKIPKPPKPPKPPRPPKTLKLKDGGKKKGKKSRESASPTIPNLDLLEAHTKEALTKMEPPKKGKA
TKSVLSVPNKDVVHMQNDVERLEIREQTKSKSEAKWKYKNSKPDSLLKMEEEQKLEKSPLAGNKDNKFSFSFSNKKLLGSKALRPPTSPG
VFGALQNFKEDKPKPVRDEYEYVSDDGELKIDEFPIRRKKNAPKRDLSFLLDKKAVLPTPVTKPKLDSAAYKSDDSSDEGSLHIDTDTKP
GRNARVKKESGSSAAGILDLLQASEEVGALEYNPSRHRKPFRECCPWPTCRPPTPACRPRGELARPRGARWLPMVPGRMGVAVARVQAND

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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/chr9:96435888/chr11:68772803)
- 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
.MRGPRF

Q96AM1

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: Orphan receptor. May bind to a neuropeptide and may regulate nociceptor function and/or development, including the sensation or modulation of pain (By similarity). {ECO:0000250}.

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
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903105_1230344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903145_1600344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903182_1980344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST00000309099031_440344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903221_2410344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903264_2730344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903295_3430344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST000003090990367_820344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303105_1230344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303145_1600344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303182_1980344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST00000441623031_440344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303221_2410344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303264_2730344.0Topological domainExtracellular
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303295_3430344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST000004416230367_820344.0Topological domainCytoplasmic
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903124_1440344.0TransmembraneHelical%3B Name%3D3
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903161_1810344.0TransmembraneHelical%3B Name%3D4
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903199_2200344.0TransmembraneHelical%3B Name%3D5
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903242_2630344.0TransmembraneHelical%3B Name%3D6
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000030909903274_2940344.0TransmembraneHelical%3B Name%3D7
TgeneMRGPRFchr9:96435888chr11:68772803ENST000003090990345_660344.0TransmembraneHelical%3B Name%3D1
TgeneMRGPRFchr9:96435888chr11:68772803ENST000003090990383_1040344.0TransmembraneHelical%3B Name%3D2
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303124_1440344.0TransmembraneHelical%3B Name%3D3
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303161_1810344.0TransmembraneHelical%3B Name%3D4
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303199_2200344.0TransmembraneHelical%3B Name%3D5
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303242_2630344.0TransmembraneHelical%3B Name%3D6
TgeneMRGPRFchr9:96435888chr11:68772803ENST0000044162303274_2940344.0TransmembraneHelical%3B Name%3D7
TgeneMRGPRFchr9:96435888chr11:68772803ENST000004416230345_660344.0TransmembraneHelical%3B Name%3D1
TgeneMRGPRFchr9:96435888chr11:68772803ENST000004416230383_1040344.0TransmembraneHelical%3B Name%3D2

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgenePHF2chr9:96435888chr11:68772803ENST00000359246+122472_51801097.0Compositional biasNote=Pro-rich
HgenePHF2chr9:96435888chr11:68772803ENST00000359246+122487_64801097.0Compositional biasNote=Lys-rich
HgenePHF2chr9:96435888chr11:68772803ENST00000359246+122960_102001097.0Compositional biasNote=Ser/Thr-rich
HgenePHF2chr9:96435888chr11:68772803ENST00000359246+122197_35301097.0DomainJmjC
HgenePHF2chr9:96435888chr11:68772803ENST00000359246+1225_5601097.0Zinc fingerPHD-type


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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


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
PHF2
MRGPRF


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 PHF2-MRGPRF


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 PHF2-MRGPRF


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