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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:DDX58-TCERG1L

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: DDX58-TCERG1L
FusionPDB ID: 22062
FusionGDB2.0 ID: 22062
HgeneTgene
Gene symbol

DDX58

TCERG1L

Gene ID

23586

256536

Gene nameDExD/H-box helicase 58transcription elongation regulator 1 like
SynonymsRIG-I|RIG1|RIGI|RLR-1|SGMRT2-
Cytomap

9p21.1

10q26.3

Type of geneprotein-codingprotein-coding
Descriptionprobable ATP-dependent RNA helicase DDX58DEAD (Asp-Glu-Ala-Asp) box polypeptide 58DEAD box protein 58DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptideRNA helicase RIG-Iretinoic acid-inducible gene 1 proteinretinoic acid-inducible gene I proteintranscription elongation regulator 1-like protein5730476P14Rik
Modification date2020032920200313
UniProtAcc

O95786

.
Ensembl transtripts involved in fusion geneENST idsENST00000379868, ENST00000545044, 
ENST00000379882, ENST00000379883, 
ENST00000542096, 
ENST00000368642, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score7 X 7 X 6=2948 X 6 X 6=288
# samples 99
** MAII scorelog2(9/294*10)=-1.70781924850669
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(9/288*10)=-1.67807190511264
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: DDX58 [Title/Abstract] AND TCERG1L [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)DDX58(32526058)-TCERG1L(132902617), # samples:1
DDX58(32526059)-TCERG1L(132902617), # samples:1
Anticipated loss of major functional domain due to fusion event.DDX58-TCERG1L 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.
DDX58-TCERG1L 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.
DDX58-TCERG1L 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.
DDX58-TCERG1L 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
HgeneDDX58

GO:0009597

detection of virus

17079289

HgeneDDX58

GO:0010628

positive regulation of gene expression

24409285

HgeneDDX58

GO:0030334

regulation of cell migration

19122199

HgeneDDX58

GO:0032725

positive regulation of granulocyte macrophage colony-stimulating factor production

24409285

HgeneDDX58

GO:0032727

positive regulation of interferon-alpha production

19576794

HgeneDDX58

GO:0032728

positive regulation of interferon-beta production

17079289

HgeneDDX58

GO:0032755

positive regulation of interleukin-6 production

24409285

HgeneDDX58

GO:0032757

positive regulation of interleukin-8 production

24409285

HgeneDDX58

GO:0039529

RIG-I signaling pathway

28469175

HgeneDDX58

GO:0045944

positive regulation of transcription by RNA polymerase II

17079289

HgeneDDX58

GO:0051091

positive regulation of DNA-binding transcription factor activity

17079289

HgeneDDX58

GO:0051607

defense response to virus

21478870


check buttonFusion gene breakpoints across DDX58 (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 TCERG1L (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
ChimerDB4LUADTCGA-86-7713-01ADDX58chr9

32526059

-TCERG1Lchr10

132902617

-
ChimerDB4LUADTCGA-86-7713DDX58chr9

32526058

-TCERG1Lchr10

132902617

-


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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)
ENST00000379882DDX58chr932526058-ENST00000368642TCERG1Lchr10132902617-1401264327629100
ENST00000379883DDX58chr932526058-ENST00000368642TCERG1Lchr10132902617-1401264327629100
ENST00000379882DDX58chr932526059-ENST00000368642TCERG1Lchr10132902617-1401264327629100
ENST00000379883DDX58chr932526059-ENST00000368642TCERG1Lchr10132902617-1401264327629100

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
ENST00000379882ENST00000368642DDX58chr932526058-TCERG1Lchr10132902617-0.718980670.28101933
ENST00000379883ENST00000368642DDX58chr932526058-TCERG1Lchr10132902617-0.718980670.28101933
ENST00000379882ENST00000368642DDX58chr932526059-TCERG1Lchr10132902617-0.718980670.28101933
ENST00000379883ENST00000368642DDX58chr932526059-TCERG1Lchr10132902617-0.718980670.28101933

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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

>22062_22062_1_DDX58-TCERG1L_DDX58_chr9_32526058_ENST00000379882_TCERG1L_chr10_132902617_ENST00000368642_length(amino acids)=100AA_BP=
MLNSEERKQIFEQFVKTRIKEEYKEKKSKLLLAKEEFKKLLEESKVSPRTTFKEFAEKYGRDQRFRLVQKRKDQEHFFNQFILILKKRDK

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

>22062_22062_2_DDX58-TCERG1L_DDX58_chr9_32526058_ENST00000379883_TCERG1L_chr10_132902617_ENST00000368642_length(amino acids)=100AA_BP=
MLNSEERKQIFEQFVKTRIKEEYKEKKSKLLLAKEEFKKLLEESKVSPRTTFKEFAEKYGRDQRFRLVQKRKDQEHFFNQFILILKKRDK

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

>22062_22062_3_DDX58-TCERG1L_DDX58_chr9_32526059_ENST00000379882_TCERG1L_chr10_132902617_ENST00000368642_length(amino acids)=100AA_BP=
MLNSEERKQIFEQFVKTRIKEEYKEKKSKLLLAKEEFKKLLEESKVSPRTTFKEFAEKYGRDQRFRLVQKRKDQEHFFNQFILILKKRDK

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

>22062_22062_4_DDX58-TCERG1L_DDX58_chr9_32526059_ENST00000379883_TCERG1L_chr10_132902617_ENST00000368642_length(amino acids)=100AA_BP=
MLNSEERKQIFEQFVKTRIKEEYKEKKSKLLLAKEEFKKLLEESKVSPRTTFKEFAEKYGRDQRFRLVQKRKDQEHFFNQFILILKKRDK

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

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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/chr9:32526058/chr10:132902617)
- 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
DDX58

O95786

.
FUNCTION: Innate immune receptor that senses cytoplasmic viral nucleic acids and activates a downstream signaling cascade leading to the production of type I interferons and proinflammatory cytokines. Forms a ribonucleoprotein complex with viral RNAs on which it homooligomerizes to form filaments. The homooligomerization allows the recruitment of RNF135 an E3 ubiquitin-protein ligase that activates and amplifies the RIG-I-mediated antiviral signaling in an RNA length-dependent manner through ubiquitination-dependent and -independent mechanisms (PubMed:28469175, PubMed:31006531). Upon activation, associates with mitochondria antiviral signaling protein (MAVS/IPS1) that activates the IKK-related kinases TBK1 and IKBKE which in turn phosphorylate the interferon regulatory factors IRF3 and IRF7, activating transcription of antiviral immunological genes including the IFN-alpha and IFN-beta interferons (PubMed:28469175, PubMed:31006531). Ligands include 5'-triphosphorylated ssRNAs and dsRNAs but also short dsRNAs (<1 kb in length). In addition to the 5'-triphosphate moiety, blunt-end base pairing at the 5'-end of the RNA is very essential. Overhangs at the non-triphosphorylated end of the dsRNA RNA have no major impact on its activity. A 3'overhang at the 5'triphosphate end decreases and any 5'overhang at the 5' triphosphate end abolishes its activity. Detects both positive and negative strand RNA viruses including members of the families Paramyxoviridae: Human respiratory syncytial virus and measles virus (MeV), Rhabdoviridae: vesicular stomatitis virus (VSV), Orthomyxoviridae: influenza A and B virus, Flaviviridae: Japanese encephalitis virus (JEV), hepatitis C virus (HCV), dengue virus (DENV) and west Nile virus (WNV). It also detects rotaviruses and reoviruses. Also involved in antiviral signaling in response to viruses containing a dsDNA genome such as Epstein-Barr virus (EBV). Detects dsRNA produced from non-self dsDNA by RNA polymerase III, such as Epstein-Barr virus-encoded RNAs (EBERs). May play important roles in granulocyte production and differentiation, bacterial phagocytosis and in the regulation of cell migration. {ECO:0000269|PubMed:15208624, ECO:0000269|PubMed:15708988, ECO:0000269|PubMed:16125763, ECO:0000269|PubMed:16127453, ECO:0000269|PubMed:16153868, ECO:0000269|PubMed:17190814, ECO:0000269|PubMed:18636086, ECO:0000269|PubMed:19122199, ECO:0000269|PubMed:19211564, ECO:0000269|PubMed:19576794, ECO:0000269|PubMed:19609254, ECO:0000269|PubMed:19631370, ECO:0000269|PubMed:21742966, ECO:0000269|PubMed:28469175, ECO:0000269|PubMed:29117565, ECO:0000269|PubMed:31006531}.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.

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
TgeneTCERG1Lchr9:32526058chr10:132902617ENST00000368642812515_570465.0587.0DomainNote=FF 2
TgeneTCERG1Lchr9:32526059chr10:132902617ENST00000368642812515_570465.0587.0DomainNote=FF 2

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-1171_8735.333333333333336881.0DomainNote=CARD 1
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-117251_43035.333333333333336881.0DomainHelicase ATP-binding
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-117610_77635.333333333333336881.0DomainHelicase C-terminal
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-117794_92535.333333333333336881.0DomainRLR CTR
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-11792_17235.333333333333336881.0DomainNote=CARD 2
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-1181_8735.333333333333336926.0DomainNote=CARD 1
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-118251_43035.333333333333336926.0DomainHelicase ATP-binding
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-118610_77635.333333333333336926.0DomainHelicase C-terminal
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-118794_92535.333333333333336926.0DomainRLR CTR
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-11892_17235.333333333333336926.0DomainNote=CARD 2
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-1171_8735.333333333333336881.0DomainNote=CARD 1
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-117251_43035.333333333333336881.0DomainHelicase ATP-binding
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-117610_77635.333333333333336881.0DomainHelicase C-terminal
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-117794_92535.333333333333336881.0DomainRLR CTR
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-11792_17235.333333333333336881.0DomainNote=CARD 2
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-1181_8735.333333333333336926.0DomainNote=CARD 1
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-118251_43035.333333333333336926.0DomainHelicase ATP-binding
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-118610_77635.333333333333336926.0DomainHelicase C-terminal
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-118794_92535.333333333333336926.0DomainRLR CTR
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-11892_17235.333333333333336926.0DomainNote=CARD 2
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-117372_37535.333333333333336881.0MotifNote=DECH box
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-118372_37535.333333333333336926.0MotifNote=DECH box
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-117372_37535.333333333333336881.0MotifNote=DECH box
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-118372_37535.333333333333336926.0MotifNote=DECH box
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-117264_27135.333333333333336881.0Nucleotide bindingATP
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-118264_27135.333333333333336926.0Nucleotide bindingATP
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-117264_27135.333333333333336881.0Nucleotide bindingATP
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-118264_27135.333333333333336926.0Nucleotide bindingATP
TgeneTCERG1Lchr9:32526058chr10:132902617ENST00000368642812100_105465.0587.0Compositional biasNote=Poly-Ala
TgeneTCERG1Lchr9:32526058chr10:132902617ENST00000368642812237_247465.0587.0Compositional biasNote=Poly-Ala
TgeneTCERG1Lchr9:32526059chr10:132902617ENST00000368642812100_105465.0587.0Compositional biasNote=Poly-Ala
TgeneTCERG1Lchr9:32526059chr10:132902617ENST00000368642812237_247465.0587.0Compositional biasNote=Poly-Ala
TgeneTCERG1Lchr9:32526058chr10:132902617ENST00000368642812148_181465.0587.0DomainWW 1
TgeneTCERG1Lchr9:32526058chr10:132902617ENST00000368642812339_372465.0587.0DomainWW 2
TgeneTCERG1Lchr9:32526058chr10:132902617ENST00000368642812450_503465.0587.0DomainNote=FF 1
TgeneTCERG1Lchr9:32526059chr10:132902617ENST00000368642812148_181465.0587.0DomainWW 1
TgeneTCERG1Lchr9:32526059chr10:132902617ENST00000368642812339_372465.0587.0DomainWW 2
TgeneTCERG1Lchr9:32526059chr10:132902617ENST00000368642812450_503465.0587.0DomainNote=FF 1


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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
DDX58
TCERG1L


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
HgeneDDX58chr9:32526058chr10:132902617ENST00000379882-117218_92535.333333333333336881.0ZC3HAV1
HgeneDDX58chr9:32526058chr10:132902617ENST00000379883-118218_92535.333333333333336926.0ZC3HAV1
HgeneDDX58chr9:32526059chr10:132902617ENST00000379882-117218_92535.333333333333336881.0ZC3HAV1
HgeneDDX58chr9:32526059chr10:132902617ENST00000379883-118218_92535.333333333333336926.0ZC3HAV1


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Related Drugs to DDX58-TCERG1L


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 DDX58-TCERG1L


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