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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: 21155

FusionGeneSummary for MATR3_CTNNA1

check button Fusion gene summary
Fusion gene informationFusion gene name: MATR3_CTNNA1
Fusion gene ID: 21155
HgeneTgene
Gene symbol

MATR3

CTNNA1

Gene ID

9782

1495

Gene namematrin 3catenin alpha 1
SynonymsALS21|MPD2|VCPDMCAP102|MDPT2
Cytomap

5q31.2

5q31.2

Type of geneprotein-codingprotein-coding
Descriptionmatrin-3vocal cord and pharyngeal weakness with distal myopathycatenin alpha-1alpha-E-catenincatenin (cadherin-associated protein), alpha 1, 102kDarenal carcinoma antigen NY-REN-13
Modification date2018051920180522
UniProtAcc

P43243

P35221

Ensembl transtripts involved in fusion geneENST00000509990, ENST00000361059, 
ENST00000504203, ENST00000502929, 
ENST00000394800, ENST00000507197, 
ENST00000394805, ENST00000502499, 
ENST00000510056, ENST00000503811, 
ENST00000355078, ENST00000302763, 
ENST00000518825, ENST00000520400, 
ENST00000540387, 
Fusion gene scores* DoF score10 X 6 X 4=24011 X 13 X 6=858
# samples 913
** MAII scorelog2(9/240*10)=-1.41503749927884
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/858*10)=-2.72246602447109
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: MATR3 [Title/Abstract] AND CTNNA1 [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
HgeneMATR3

GO:0002218

activation of innate immune response

28712728

HgeneMATR3

GO:0010608

posttranscriptional regulation of gene expression

21771347

TgeneCTNNA1

GO:0071681

cellular response to indole-3-methanol

10868478


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
TCGARVBRCATCGA-A8-A08B-01AMATR3chr5

138615747

+CTNNA1chr5

137988753

+
* 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
intron-intronENST00000509990ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000509990ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000509990ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000509990ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000509990ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000361059ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000361059ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000361059ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000361059ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000361059ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000504203ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000504203ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000504203ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000504203ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000504203ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502929ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502929ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502929ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502929ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502929ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394800ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394800ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394800ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394800ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394800ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
3UTR-intronENST00000507197ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
3UTR-intronENST00000507197ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
3UTR-intronENST00000507197ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
3UTR-intronENST00000507197ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
3UTR-intronENST00000507197ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394805ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394805ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394805ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394805ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000394805ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502499ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502499ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502499ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502499ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000502499ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000510056ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000510056ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000510056ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000510056ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000510056ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000503811ENST00000355078MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000503811ENST00000302763MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000503811ENST00000518825MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000503811ENST00000520400MATR3chr5

138615747

+CTNNA1chr5

137988753

+
intron-intronENST00000503811ENST00000540387MATR3chr5

138615747

+CTNNA1chr5

137988753

+

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FusionProtFeatures for MATR3_CTNNA1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
MATR3

P43243

CTNNA1

P35221

May play a role in transcription or may interact withother nuclear matrix proteins to form the internal fibrogranularnetwork. In association with the SFPQ-NONO heteromer may play arole in nuclear retention of defective RNAs. Plays a role in theregulation of DNA virus-mediated innate immune response byassembling into the HDP-RNP complex, a complex that serves as aplatform for IRF3 phosphorylation and subsequent innate immuneresponse activation through the cGAS-STING pathway(PubMed:28712728). May bind to specific miRNA hairpins(PubMed:28431233). {ECO:0000269|PubMed:11525732,ECO:0000269|PubMed:28431233, ECO:0000269|PubMed:28712728}. Associates with the cytoplasmic domain of a variety ofcadherins. The association of catenins to cadherins produces acomplex which is linked to the actin filament network, and whichseems to be of primary importance for cadherins cell-adhesionproperties. Can associate with both E- and N-cadherins. Originallybelieved to be a stable component of E-cadherin/catenin adhesioncomplexes and to mediate the linkage of cadherins to the actincytoskeleton at adherens junctions. In contrast, cortical actinwas found to be much more dynamic than E-cadherin/catenincomplexes and CTNNA1 was shown not to bind to F-actin whenassembled in the complex suggesting a different linkage betweenactin and adherens junctions components. The homodimeric form mayregulate actin filament assembly and inhibit actin branching bycompeting with the Arp2/3 complex for binding to actin filaments.May play a crucial role in cell differentiation.{ECO:0000269|PubMed:25653389}.

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

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for MATR3_CTNNA1


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 MATR3_CTNNA1


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
MATR3HNRNPK, GSTK1, RUVBL2, CDK9, MEPCE, EGFR, H2AFX, UBC, CALM1, DISC1, TNFRSF21, AIMP2, SNAP23, SMARCAD1, NFX1, CUL3, CDK2, CUL1, COPS5, CAND1, NEDD8, GFI1B, PCBP1, SMU1, SAP18, STOML2, RANBP2, UTP14A, IARS2, RRP7A, PPT2, S100A9, SARS2, RRS1, NAA15, PRKCDBP, MYOF, MRPL19, MAGOH, EIF4A3, FN1, PTBP2, IFIT2, MAP1LC3A, ITGA4, PAN2, TARDBP, PARK2, RPA3, RPA2, RPA1, WWOX, ERG, LGR4, STAU1, AURKA, CEP250, MATR3, RASD1, CUL7, OBSL1, CCDC8, UBE2I, EED, SIRT6, HNRNPA1, FBXW11, UNK, NTRK1, BTF3, CALR, EEF1D, HNRNPU, ATP5A1, PUF60, RPL7, RUVBL1, SF3A3, SNRNP70, SNRPC, SRSF3, SUB1, YBX1, SRPK2, B9D2, ADAR, COPA, DDX3X, DDX5, DHX9, EWSR1, FUS, HNRNPA2B1, HNRNPC, HNRNPF, HNRNPH1, HNRNPH2, HNRNPH3, HNRNPL, ILF2, ILF3, HNRNPM, NAP1L4, NUMA1, PKP2, PPP1CA, PPP1CB, PTBP1, RBM3, RCN1, SAFB, SET, SNRPA, TAF15, PKP4, EIF3D, SRSF9, TNK1, FUBP3, APOBEC3B, SAFB2, PUM1, MPHOSPH8, HNRNPDL, PTBP3, DNAJB6, SUGP2, RBM6, ALYREF, HNRNPR, AKAP8, RBM14, DDX17, KHDRBS1, HNRNPA0, HNRNPUL1, PKP3, RALY, FAM120A, FAM208A, RBFOX2, TIMM13, AKAP8L, STAU2, RBMX, ZNF638, RBM15B, RTCB, PPHLN1, C14orf166, POLR3B, DDX28, YLPM1, NCOA5, SQRDL, ZNF106, ZNF668, SLTM, PRR3, RBM4B, GSG2, DPY30, NLRP5, ESCO2, HNRNPA3, HNRNPUL2, CXorf23, ZNF326, RBM12B, EIF2AK4, RBMXL1, CRY1, CRY2, ALKBH3, MCM5, SENP3, U2AF2, RC3H1, CRBN, ELAVL2, CDK5RAP1, CYLD, TRIM25, BRCA1, LMNA, YAP1, MTF1CTNNA1APC, CTNNB1, CDH1, CTNNA1, JUP, CDH3, CDH5, CTNND1, CDH2, CA9, PTPN14, MLLT4, VEZT, MYO7A, TJP2, PSEN1, ACTN1, VCL, DLG1, SPTBN1, FAM84B, RNF219, ZGPAT, RYK, CTBP1, ARRB2, SIRT7, ARMC8, COPS5, APP, VCP, CTNNA3, GARS, OSBP, SEC23A, USP11, XRCC6, CTTN, CUL2, EIF4B, HSPH1, PRMT3, XPO7, FBXW11, OBSL1, CCDC8, UBE2I, ARAF, ILK, BTRC, UNK, DMD, NTRK1, HERC2, GSK3A, HSPA5, AXIN1, MAPRE1, EGFR, MCM2, CDC5L, C21orf59, IQSEC1, CSNK2A1, CTDSPL, CDH8, CTNNBIP1, SAPCD1, SLAMF7, NEK4, SLC9A3R2, MTNR1A, MTNR1B, DLD, HSD17B10, PDHA1, TRIM25, UBE2A, BRCA1, TES


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


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 MATR3_CTNNA1


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 MATR3_CTNNA1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneMATR3C3807521AMYOTROPHIC LATERAL SCLEROSIS 212ORPHANET;UNIPROT
TgeneCTNNA1C0023467Leukemia, Myelocytic, Acute1CTD_human
TgeneCTNNA1C1837029Macular Dystrophy, Butterfly-Shaped Pigmentary, 21UNIPROT
TgeneCTNNA1C1868569Patterned dystrophy of retinal pigment epithelium1CTD_human
TgeneCTNNA1C3463824MYELODYSPLASTIC SYNDROME1CTD_human