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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 39492

FusionGeneSummary for TRIM28_CHMP2A

check button Fusion gene summary
Fusion gene informationFusion gene name: TRIM28_CHMP2A
Fusion gene ID: 39492
HgeneTgene
Gene symbol

TRIM28

CHMP2A

Gene ID

10155

27243

Gene nametripartite motif containing 28charged multivesicular body protein 2A
SynonymsKAP1|PPP1R157|RNF96|TF1B|TIF1BBC-2|BC2|CHMP2|VPS2|VPS2A
Cytomap

19q13.43

19q13.43

Type of geneprotein-codingprotein-coding
Descriptiontranscription 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 charged multivesicular body protein 2aVPS2 homolog Achromatin modifying protein 2Aputative breast adenocarcinoma marker (32kD)putative breast adenocarcinoma marker BC-2vacuolar protein sorting-associated protein 2-1vps2-1
Modification date2018052320180523
UniProtAcc

Q13263

O43633

Ensembl transtripts involved in fusion geneENST00000253024, ENST00000341753, 
ENST00000600118, ENST00000601220, 
ENST00000312547, 
Fusion gene scores* DoF score3 X 4 X 3=363 X 3 X 3=27
# samples 43
** MAII scorelog2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
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: TRIM28 [Title/Abstract] AND CHMP2A [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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneTRIM28

GO:0006281

DNA repair

17178852

HgeneTRIM28

GO:0016925

protein sumoylation

18082607

HgeneTRIM28

GO:0042307

positive regulation of protein import into nucleus

23665872

HgeneTRIM28

GO:0045087

innate immune response

18248090

HgeneTRIM28

GO:0045739

positive regulation of DNA repair

17178852

HgeneTRIM28

GO:0045892

negative regulation of transcription, DNA-templated

9016654

HgeneTRIM28

GO:0051259

protein complex oligomerization

17512541

HgeneTRIM28

GO:1902187

negative regulation of viral release from host cell

18248090

TgeneCHMP2A

GO:0039702

viral budding via host ESCRT complex

24878737


check button 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 typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGALDBLCATCGA-GD-A3OS-01ATRIM28chr19

59061651

+CHMP2Achr19

59063805

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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
In-frameENST00000253024ENST00000600118TRIM28chr19

59061651

+CHMP2Achr19

59063805

-
In-frameENST00000253024ENST00000601220TRIM28chr19

59061651

+CHMP2Achr19

59063805

-
In-frameENST00000253024ENST00000312547TRIM28chr19

59061651

+CHMP2Achr19

59063805

-
In-frameENST00000341753ENST00000600118TRIM28chr19

59061651

+CHMP2Achr19

59063805

-
In-frameENST00000341753ENST00000601220TRIM28chr19

59061651

+CHMP2Achr19

59063805

-
In-frameENST00000341753ENST00000312547TRIM28chr19

59061651

+CHMP2Achr19

59063805

-

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FusionProtFeatures for TRIM28_CHMP2A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
TRIM28

Q13263

CHMP2A

O43633

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}. Probable core component of the endosomal sortingrequired for transport complex III (ESCRT-III) which is involvedin multivesicular bodies (MVBs) formation and sorting of endosomalcargo proteins into MVBs. MVBs contain intraluminal vesicles(ILVs) that are generated by invagination and scission from thelimiting membrane of the endosome and mostly are delivered tolysosomes enabling degradation of membrane proteins, such asstimulated growth factor receptors, lysosomal enzymes and lipids.The MVB pathway appears to require the sequential function ofESCRT-O, -I,-II and -III complexes. ESCRT-III proteins mostlydissociate from the invaginating membrane before the ILV isreleased. The ESCRT machinery also functions in topologicallyequivalent membrane fission events, such as the terminal stages ofcytokinesis (PubMed:21310966). Together with SPAST, the ESCRT-IIIcomplex promotes nuclear envelope sealing and mitotic spindledisassembly during late anaphase (PubMed:26040712). ESCRT-IIIproteins are believed to mediate the necessary vesicle extrusionand/or membrane fission activities, possibly in conjunction withthe AAA ATPase VPS4. {ECO:0000269|PubMed:21310966,ECO:0000269|PubMed:26040712, ECO:0000305}. (Microbial infection) The ESCRT machinery functions intopologically equivalent membrane fission events, such as thebudding of enveloped viruses (HIV-1 and other lentiviruses).Involved in HIV-1 p6- and p9-dependent virus release.{ECO:0000269|PubMed:14505570, ECO:0000269|PubMed:14519844}.

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
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+16172_58777836Compositional biasNote=Ala-rich
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617526_530777836Compositional biasNote=Poly-Ala
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+14152_58695754Compositional biasNote=Ala-rich
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415526_530695754Compositional biasNote=Poly-Ala
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617481_494777836MotifNote=PxVxL motif
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415481_494695754MotifNote=PxVxL motif
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617246_376777836RegionNote=Leucine zipper alpha helical coiled-coil region
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617366_370777836RegionNote=Involved in binding PPP1CA
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617476_513777836RegionNote=HP1 box
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+161765_376777836RegionNote=RBCC domain
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415246_376695754RegionNote=Leucine zipper alpha helical coiled-coil region
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415366_370695754RegionNote=Involved in binding PPP1CA
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415476_513695754RegionNote=HP1 box
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+141565_376695754RegionNote=RBCC domain
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617148_195777836Zinc fingerB box-type 1%3B atypical
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617204_245777836Zinc fingerB box-type 2
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617625_672777836Zinc fingerPHD-type
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+161765_121777836Zinc fingerRING-type
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415148_195695754Zinc fingerB box-type 1%3B atypical
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415204_245695754Zinc fingerB box-type 2
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415625_672695754Zinc fingerPHD-type
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+141565_121695754Zinc fingerRING-type
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000312547-16195_22256223Coiled coilOntology_term=ECO:0000255
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000600118-05195_22256223Coiled coilOntology_term=ECO:0000255
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000601220-16195_22256223Coiled coilOntology_term=ECO:0000255
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000312547-16210_22056223MotifNote=MIT-interacting motif
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000600118-05210_22056223MotifNote=MIT-interacting motif
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000601220-16210_22056223MotifNote=MIT-interacting motif

- In-frame and not-retained protein feature among the 13 regional features.
>>
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617697_801777836DomainNote=Bromo
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415697_801695754DomainNote=Bromo
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000312547-1612_5356223Coiled coilOntology_term=ECO:0000255
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000600118-0512_5356223Coiled coilOntology_term=ECO:0000255
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000601220-1612_5356223Coiled coilOntology_term=ECO:0000255


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FusionGeneSequence for TRIM28_CHMP2A


check button 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 TRIM28_CHMP2A


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
TRIM28ZNF10, 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, TXNIPCHMP2ASTAMBP, CHMP3, VTA1, VPS4B, VPS4A, USP8, USP54, CHMP2A, NOL4, EIF2B5, MITD1, RANBP2, ERLIN1, PPP1CA, RRBP1, ITGA4, E2F4, TGFB3, DOCK8, UFD1L, CHMP4B, CDV3, CHMP2B, CSTF2, HNRNPA3, EIF4EBP1, PARVA, XPO1, RAB2A, RAB5C, RAB7A, ATP6AP2, TFG, TRIM35, DECR1, CHMP5, SIX2, SPAST, SNAP23, CCDC83, OSTF1, DLST


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with
HgeneTRIM28chr19:59061651chr19:59063805ENST00000253024+1617247_376777836MAGEC2
HgeneTRIM28chr19:59061651chr19:59063805ENST00000341753+1415247_376695754MAGEC2
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000312547-1656_22256223VPS4B
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000600118-0556_22256223VPS4B
TgeneCHMP2Achr19:59061651chr19:59063805ENST00000601220-1656_22256223VPS4B


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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RelatedDrugs for TRIM28_CHMP2A


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for TRIM28_CHMP2A


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