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Fusion gene ID: 30751 |
FusionGeneSummary for RBM39_PRDM5 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: RBM39_PRDM5 | Fusion gene ID: 30751 | Hgene | Tgene | Gene symbol | RBM39 | PRDM5 | Gene ID | 9584 | 11107 |
| Gene name | RNA binding motif protein 39 | PR/SET domain 5 | |
| Synonyms | CAPER|CAPERalpha|FSAP59|HCC1|RNPC2 | BCS2|PFM2 | |
| Cytomap | 20q11.22 | 4q27 | |
| Type of gene | protein-coding | protein-coding | |
| Description | RNA-binding protein 39CAPER alphaRNA-binding region (RNP1, RRM) containing 2coactivator of activating protein-1 and estrogen receptorsfunctional spliceosome-associated protein 59hepatocellular carcinoma protein 1splicing factor HCC1 | PR domain zinc finger protein 5PR domain 5PR domain containing 5 | |
| Modification date | 20180519 | 20180523 | |
| UniProtAcc | Q14498 | Q9NQX1 | |
| Ensembl transtripts involved in fusion gene | ENST00000253363, ENST00000361162, ENST00000528062, ENST00000407261, ENST00000397370, ENST00000463098, | ENST00000264808, ENST00000428209, ENST00000515109, ENST00000506065, ENST00000394435, | |
| Fusion gene scores | * DoF score | 13 X 11 X 8=1144 | 3 X 2 X 3=18 |
| # samples | 15 | 3 | |
| ** MAII score | log2(15/1144*10)=-2.93105264628251 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(3/18*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: RBM39 [Title/Abstract] AND PRDM5 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Functional or gene categories assigned by FusionGDB annotation | |||
| * 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 | PRDM5 | GO:0000122 | negative regulation of transcription by RNA polymerase II | 17636019 |
| Tgene | PRDM5 | GO:0045892 | negative regulation of transcription, DNA-templated | 17636019 |
| Tgene | PRDM5 | GO:0051567 | histone H3-K9 methylation | 17636019 |
| Fusion gene information from three resources (ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018)) * 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. |
| Data type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | RV | BLCA | TCGA-BT-A2LD-01A | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| 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 |
| 5UTR-3CDS | ENST00000253363 | ENST00000264808 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000253363 | ENST00000428209 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000253363 | ENST00000515109 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000253363 | ENST00000506065 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000253363 | ENST00000394435 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000361162 | ENST00000264808 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000361162 | ENST00000428209 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000361162 | ENST00000515109 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000361162 | ENST00000506065 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000361162 | ENST00000394435 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000528062 | ENST00000264808 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000528062 | ENST00000428209 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000528062 | ENST00000515109 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000528062 | ENST00000506065 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000528062 | ENST00000394435 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000407261 | ENST00000264808 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000407261 | ENST00000428209 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000407261 | ENST00000515109 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000407261 | ENST00000506065 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000407261 | ENST00000394435 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000397370 | ENST00000264808 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000397370 | ENST00000428209 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000397370 | ENST00000515109 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000397370 | ENST00000506065 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000397370 | ENST00000394435 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000463098 | ENST00000264808 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000463098 | ENST00000428209 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-3CDS | ENST00000463098 | ENST00000515109 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000463098 | ENST00000506065 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
| 5UTR-intron | ENST00000463098 | ENST00000394435 | RBM39 | chr20 | 34329863 | - | PRDM5 | chr4 | 121742500 | - |
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FusionProtFeatures for RBM39_PRDM5 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| RBM39 | PRDM5 |
| Transcriptional coactivator for steroid nuclearreceptors ESR1/ER-alpha and ESR2/ER-beta, and JUN/AP-1 (Bysimilarity). May be involved in pre-mRNA splicing process.{ECO:0000250}. | Sequence-specific DNA-binding transcription factor.Represses transcription at least in part by recruitment of thehistone methyltransferase EHMT2/G9A and histone deacetylases suchas HDAC1. Regulates hematopoiesis-associated protein-coding andmicroRNA (miRNA) genes. May regulate the expression of proteinsinvolved in extracellular matrix development and maintenance,including fibrillar collagens, such as COL4A1 and COL11A1,connective tissue components, such as HAPLN1, and moleculesregulating cell migration and adhesion, including EDIL3 and TGFB2.May caused G2/M arrest and apoptosis in cancer cells.{ECO:0000269|PubMed:15077163, ECO:0000269|PubMed:17636019,ECO:0000269|PubMed:21664999}. |
| 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 . * 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 |
| - 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 |
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FusionGeneSequence for RBM39_PRDM5 |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. (nt: nucleotides, aa: amino acids) |
| * Fusion amino acid sequences. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for RBM39_PRDM5 |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| RBM39 | ESR2, ESR1, JUN, HNRNPA1, CDK9, KHDRBS2, SRRM1, SRRM2, HIST1H1C, CTNNBL1, TADA2A, UBC, MME, HDAC5, SND1, RPS2, RPS3, ACIN1, SNRNP200, CDK12, SF3B1, RBM25, PNN, U2AF2, PCBP3, TRA2B, LUC7L2, SRSF7, SRSF1, SAP18, SNRPD1, HNRNPU, XRCC5, XRCC6, IRF2BP2, RPS13, RPL27A, IRF2BPL, HDGF, SF3A2, SIRT7, TCF3, NR2C1, CUL3, CUL1, COPS5, CAND1, PGR, APP, SMU1, DDX3X, BCAS2, PLRG1, NHP2L1, USP39, PRPF19, RALY, TOP1, DDX21, GPATCH1, ILF3, RRP7A, SEPT7, TRMT112, UTP14A, S100A9, RRS1, RAN, SEPT2, RBM14, VTN, FLNA, RPS14, BARD1, MDC1, MAGOH, PRPF40A, CHERP, RBM23, PRPF3, PRPF38A, SAP30BP, HNRNPH2, NKAP, TOE1, TTC14, ZCCHC10, RNF113A, SRPK2, AICDA, SRPK1, CLK2, SRPK3, TARDBP, RPA3, RPA2, RPA1, WWOX, SPRTN, TP53, PHC2, GOLGA2, REL, SDCBP, SP100, MLX, ZBTB22, SRSF11, PPIG, SF3B4, KIAA0907, ARL6IP4, BANP, THAP1, C11orf57, HOMEZ, AK8, FAM200A, SREK1IP1, KRTAP12-2, RP9P, NXF1, CUL7, OBSL1, EZH2, SUZ12, EED, RNF2, HSPB1, PNISR, RBM14-RBM4, CDC5L, SNRNP70, RNPS1, SON, SREK1, SFN, NTRK1, CLK1, AHSA1, SEC16A, LAP3, KMT2E, SNW1, CRBN, ZNF746, EGFR, JMJD6, NCL, MTNR1A, INO80B, TRIM25, MCPH1 | PRDM5 | GFI1, EHMT2, HDAC1, CCDC77, FAM102B, FBXO11, ZNF687, THAP11, TNRC18, YBX2, ABT1, ZFP91, ZBTB4, BAG1, RPL26L1, WHSC1, RBM34, RPL10A, UPF1, RBM28, PRDM10, BRIX1, FTSJ3, PGK2, GLYR1, KIF1C, RPL8, NGRN, CASC3, RPL4, HIST2H2AB, SURF6, KIAA0020, GAR1, RPL18A, RPF2, ZFP62, SAP130, RPL36 |
| - 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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RelatedDrugs for RBM39_PRDM5 |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for RBM39_PRDM5 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Tgene | PRDM5 | C3280011 | BRITTLE CORNEA SYNDROME 2 | 1 | UNIPROT |
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