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Fusion gene ID: 33825 |
FusionGeneSummary for SHROOM3_TRIM28 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: SHROOM3_TRIM28 | Fusion gene ID: 33825 | Hgene | Tgene | Gene symbol | SHROOM3 | TRIM28 | Gene ID | 57619 | 10155 |
| Gene name | shroom family member 3 | tripartite motif containing 28 | |
| Synonyms | APXL3|MSTP013|SHRM|ShrmL | KAP1|PPP1R157|RNF96|TF1B|TIF1B | |
| Cytomap | 4q21.1 | 19q13.43 | |
| Type of gene | protein-coding | protein-coding | |
| Description | protein Shroom3F-actin-binding proteinshroom-related protein | transcription intermediary factor 1-betaE3 SUMO-protein ligase TRIM28KAP-1KRAB [Kruppel-associated box domain]-associated protein 1KRAB-interacting protein 1KRIP-1RING finger protein 96RING-type E3 ubiquitin transferase TIF1-betaTIF1-betanuclear | |
| Modification date | 20180523 | 20180523 | |
| UniProtAcc | Q8TF72 | Q13263 | |
| Ensembl transtripts involved in fusion gene | ENST00000296043, ENST00000473602, | ENST00000253024, ENST00000341753, | |
| Fusion gene scores | * DoF score | 15 X 11 X 9=1485 | 3 X 3 X 2=18 |
| # samples | 17 | 3 | |
| ** MAII score | log2(17/1485*10)=-3.12685627955043 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: SHROOM3 [Title/Abstract] AND TRIM28 [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 | TRIM28 | GO:0006281 | DNA repair | 17178852 |
| Tgene | TRIM28 | GO:0016925 | protein sumoylation | 18082607 |
| Tgene | TRIM28 | GO:0042307 | positive regulation of protein import into nucleus | 23665872 |
| Tgene | TRIM28 | GO:0045087 | innate immune response | 18248090 |
| Tgene | TRIM28 | GO:0045739 | positive regulation of DNA repair | 17178852 |
| Tgene | TRIM28 | GO:0045892 | negative regulation of transcription, DNA-templated | 9016654 |
| Tgene | TRIM28 | GO:0051259 | protein complex oligomerization | 17512541 |
| Tgene | TRIM28 | GO:1902187 | negative regulation of viral release from host cell | 18248090 |
| 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 | LD | BRCA | TCGA-EW-A1PH-01A | SHROOM3 | chr4 | 77631440 | + | TRIM28 | chr19 | 59060229 | + |
| * 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 |
| Frame-shift | ENST00000296043 | ENST00000253024 | SHROOM3 | chr4 | 77631440 | + | TRIM28 | chr19 | 59060229 | + |
| Frame-shift | ENST00000296043 | ENST00000341753 | SHROOM3 | chr4 | 77631440 | + | TRIM28 | chr19 | 59060229 | + |
| 3UTR-3CDS | ENST00000473602 | ENST00000253024 | SHROOM3 | chr4 | 77631440 | + | TRIM28 | chr19 | 59060229 | + |
| 3UTR-3CDS | ENST00000473602 | ENST00000341753 | SHROOM3 | chr4 | 77631440 | + | TRIM28 | chr19 | 59060229 | + |
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FusionProtFeatures for SHROOM3_TRIM28 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| SHROOM3 | TRIM28 |
| Controls cell shape changes in the neuroepitheliumduring neural tube closure. Induces apical constriction inepithelial cells by promoting the apical accumulation of F-actinand myosin II, and probably by bundling stress fibers. Inducesapicobasal cell elongation by redistributing gamma-tubulin anddirecting the assembly of robust apicobasal microtubule arrays (Bysimilarity). {ECO:0000250}. | Nuclear corepressor for KRAB domain-containing zincfinger proteins (KRAB-ZFPs). Mediates gene silencing by recruitingCHD3, a subunit of the nucleosome remodeling and deacetylation(NuRD) complex, and SETDB1 (which specifically methylates histoneH3 at 'Lys-9' (H3K9me)) to the promoter regions of KRAB targetgenes. Enhances transcriptional repression by coordinating theincrease in H3K9me, the decrease in histone H3 'Lys-9 and 'Lys-14'acetylation (H3K9ac and H3K14ac, respectively) and the dispositionof HP1 proteins to silence gene expression. Recruitment of SETDB1induces heterochromatinization. May play a role as a coactivatorfor CEBPB and NR3C1 in the transcriptional activation of ORM1.Also corepressor for ERBB4. Inhibits E2F1 activity by stimulatingE2F1-HDAC1 complex formation and inhibiting E2F1 acetylation. Mayserve as a partial backup to prevent E2F1-mediated apoptosis inthe absence of RB1. Important regulator of CDKN1A/p21(CIP1). HasE3 SUMO-protein ligase activity toward itself via its PHD-typezinc finger. Also specifically sumoylates IRF7, thereby inhibitingits transactivation activity. Ubiquitinates p53/TP53 leading toits proteosomal degradation; the function is enhanced by MAGEC2and MAGEA2, and possibly MAGEA3 and MAGEA6. Mediates the nuclearlocalization of KOX1, ZNF268 and ZNF300 transcription factors. Inassociation with isoform 2 of ZFP90, is required for thetranscriptional repressor activity of FOXP3 and the suppressivefunction of regulatory T-cells (Treg) (PubMed:23543754). Probablyforms a corepressor complex required for activated KRAS-mediatedpromoter hypermethylation and transcriptional silencing of tumorsuppressor genes (TSGs) or other tumor-related genes in colorectalcancer (CRC) cells (PubMed:24623306). Also required to maintain atranscriptionally repressive state of genes in undifferentiatedembryonic stem cells (ESCs) (PubMed:24623306). Associates atpromoter regions of tumor suppressor genes (TSGs) leading to theirgene silencing (PubMed:24623306). The SETDB1-TRIM28-ZNF274 complexmay play a role in recruiting ATRX to the 3'-exons of zinc-fingercoding genes with atypical chromatin signatures to establish ormaintain/protect H3K9me3 at these transcriptionally active regions(PubMed:27029610). Acts as a corepressor for ZFP568 (Bysimilarity). {ECO:0000250|UniProtKB:Q62318,ECO:0000269|PubMed:10347202, ECO:0000269|PubMed:11959841,ECO:0000269|PubMed:15882967, ECO:0000269|PubMed:16107876,ECO:0000269|PubMed:16862143, ECO:0000269|PubMed:17079232,ECO:0000269|PubMed:17178852, ECO:0000269|PubMed:17704056,ECO:0000269|PubMed:17942393, ECO:0000269|PubMed:18060868,ECO:0000269|PubMed:18082607, ECO:0000269|PubMed:20424263,ECO:0000269|PubMed:20858735, ECO:0000269|PubMed:20864041,ECO:0000269|PubMed:21940674, ECO:0000269|PubMed:23543754,ECO:0000269|PubMed:23665872, ECO:0000269|PubMed:24623306,ECO:0000269|PubMed:27029610, ECO:0000269|PubMed:8769649,ECO:0000269|PubMed:9016654}. (Microbial infection) Plays a critical role in theshutdown of lytic gene expression during the early stage of herpesvirus 8 primary infection. This inhibition is mediated throughinteraction with herpes virus 8 protein LANA1.{ECO:0000269|PubMed:24741090}. |
| 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 SHROOM3_TRIM28 |
| 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 SHROOM3_TRIM28 |
| 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 |
| SHROOM3 | SFN, SAAL1, YWHAB, UBTD1, CDK2, ILK, RPS6KA2, SIK2, RPS6KB2, MYH9, RAB32, SNW1, CDC5L, CDH1, TRIM25 | TRIM28 | ZNF10, SETDB1, TFE3, TNFRSF10D, HLA-B, TRIM28, TRIM24, ZNF74, ZNF197, VHL, CBX5, NCOR1, SPG7, VIM, CHD3, TRIM6, TRIM23, CBX1, CBX3, CEBPB, NR3C1, MEPCE, CDK9, RUVBL2, AIRE, HDAC10, PAX3, UBE2U, NR4A1, NR4A3, MDM2, SERTAD1, SERTAD2, CDCA4, ZNF350, PARP2, PARP1, ZNF224, PFDN5, STAT1, MYB, SKI, SIN3A, H3F3A, TOPORS, E2F1, EMD, PPP1CA, PPP1CC, PPP1CB, HIST1H3A, ZNF496, TADA2A, POU5F1, CREBBP, SMARCAD1, SMARCA4, SMARCC1, UBC, ZNF274, MYC, PPP2R2B, HDAC5, ZWINT, AMFR, MAGEA2, MAGEA2B, MAGEA3, MAGEA6, MAGEB2, MAGEC2, MAGEE1, NDN, MAGED1, NDNL2, TP53, UHRF1, DNMT1, DNMT3A, DNMT3B, ZFP57, RNF4, SIRT1, ARRB2, CHEK2, SMEK2, PPP4C, H2AFX, NR2C1, NR2C2, KDM1A, HDAC1, IRF1, IRF7, UBE2I, CUL3, CUL2, CDK2, BAHD1, CUL1, COPS5, CAND1, FES, ZNF256, ZNF382, ERBB4, ZNF140, ZNF133, UBE2H, UBE2N, CDC34, UBE2D1, UBE2D2, UBE2D3, UBE2E1, UBE2L3, UBE2E2, UBE2C, CCT8, UBP1, CCT7, SNRPD1, CCT2, CCT5, TTLL12, NOTCH1, SMURF1, ZNF354A, ZNF2, VCAM1, FN1, HTRA2, E2F3, E2F4, ITGA4, ZNF689, STAT3, STAT4, STAT6, HDAC3, NPM1, LMNA, PIK3C3, ZNF420, YWHAQ, FBXO6, TARDBP, BRCC3, ENAH, HNRNPR, LARP7, MTA2, CCDC6, CCT3, POLR2E, WRNIP1, RPA3, RPA2, RPA1, ZBTB1, LYN, HIST3H3, STAU1, WHSC1, ATM, SPRTN, AURKA, CEP250, HAUS2, HIF1A, SENP7, HUWE1, WWOX, ERLIN2, CUL7, OBSL1, CCDC8, EZH2, SUZ12, EED, RNF2, BMI1, SUMO2, SIRT6, ARAF, ILK, MAST3, SIK2, TYK2, ZNF707, ZNF621, ZNF333, ZNF114, ZNF829, ZNF19, ZKSCAN8, MAPKAPK2, HCFC1, HN1, HYPK, SFN, NUP214, SRRT, STMN1, NTRK1, ANKRA2, RFXANK, AHSA1, PPME1, GDI1, IPO8, L1TD1, KRBOX4, NFE2L2, RRP1B, TP53BP1, CDKN2A, CRY1, SET, MEX3C, SENP3, ZMIZ1, U2AF2, ATRX, RC3H1, CCNB1, EGFR, ZNF746, POGK, ZNF30, ZNF28, ZNF573, ZNF250, ZNF658, ZNF112, ZNF620, ZNF268, ZNF721, ZNF595, ZNF195, ZNF845, ZNF624, ZNF616, ZNF273, ZNF320, ZNF732, ZFP1, ZNF747, ZNF764, ZNF267, ZNF354C, ZNF708, ZNF460, ZNF33A, ZNF33B, ZNF254, ZNF720, ZNF738, ZIM2, ZNF785, ZNF324B, ZNF701, ZNF85, ZNF695, ZNF517, ZNF77, ZNF223, ZNF331, ZNF669, ZNF585B, ZNF445, ZNF264, ZNF766, ZNF416, ZNF432, ZNF84, TP73, COX15, DLD, DLST, DNM1L, HSD17B10, PARK7, SOD1, TRIM25, CCND2, BRCA1, PCBP1, TES, URI1, PPP2CA, TXNIP |
| - 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 SHROOM3_TRIM28 |
| 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 SHROOM3_TRIM28 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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