UTHEALTH HOME    ABOUT SBMI    A-Z    WEBMAIL    INSIDE THE UNIVERSITY
FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact

Terms of Use

Center for Computational Systems Medicine level1
leaf

Fusion Gene Summary

leaf

Fusion Gene Sample Information

leaf

Fusion ORF Analysis

leaf

Fusion Amino Acid Sequences

leaf

Fusion Protein Functional Features

leaf

Fusion Protein-Protein Interaction

leaf

Related drugs with this fusion protein

leaf

Related disease with this fusion protein

Fusion Protein:PDSS2-CCDC178

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: PDSS2-CCDC178
FusionPDB ID: 64079
FusionGDB2.0 ID: 64079
HgeneTgene
Gene symbol

PDSS2

CCDC178

Gene ID

57107

374864

Gene namedecaprenyl diphosphate synthase subunit 2coiled-coil domain containing 178
SynonymsC6orf210|COQ10D3|COQ1B|DLP1|bA59I9.3|hDLP1C18orf34
Cytomap

6q21

18q12.1

Type of geneprotein-codingprotein-coding
Descriptiondecaprenyl-diphosphate synthase subunit 2all-trans-decaprenyl-diphosphate synthase subunit 2decaprenyl pyrophosphate synthase subunit 2decaprenyl pyrophosphate synthetase subunit 2prenyl (decaprenyl) diphosphate synthase, subunit 2subunit 2 of decaprcoiled-coil domain-containing protein 178
Modification date2020031320200313
UniProtAcc.

Q5BJE1

Ensembl transtripts involved in fusion geneENST idsENST00000369031, ENST00000369037, 
ENST00000453874, 
ENST00000579947, 
ENST00000583550, ENST00000300227, 
ENST00000383096, ENST00000402325, 
ENST00000403303, ENST00000406524, 
ENST00000579916, ENST00000581852, 
ENST00000583930, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score11 X 8 X 6=52813 X 11 X 8=1144
# samples 1316
** MAII scorelog2(13/528*10)=-2.02202630633
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(16/1144*10)=-2.83794324189103
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: PDSS2 [Title/Abstract] AND CCDC178 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)PDSS2(107655402)-CCDC178(30554645), # samples:2
Anticipated loss of major functional domain due to fusion event.PDSS2-CCDC178 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
PDSS2-CCDC178 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted 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
HgenePDSS2

GO:0006744

ubiquinone biosynthetic process

16262699

HgenePDSS2

GO:0008299

isoprenoid biosynthetic process

16262699


check buttonFusion gene breakpoints across PDSS2 (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 CCDC178 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


Top

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
ChimerDB4PAADTCGA-IB-7652-01APDSS2chr6

107655402

-CCDC178chr18

30554645

-
ChimerDB4PAADTCGA-IB-7652PDSS2chr6

107655402

-CCDC178chr18

30518055

-
ChimerDB4PAADTCGA-IB-7652PDSS2chr6

107655402

-CCDC178chr18

30554645

-


Top

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)
ENST00000369037PDSS2chr6107655402-ENST00000581852CCDC178chr1830518055-1399709209727172
ENST00000369037PDSS2chr6107655402-ENST00000300227CCDC178chr1830518055-1176709209727172
ENST00000453874PDSS2chr6107655402-ENST00000581852CCDC178chr1830518055-1392702202720172
ENST00000453874PDSS2chr6107655402-ENST00000300227CCDC178chr1830518055-1169702202720172
ENST00000369031PDSS2chr6107655402-ENST00000581852CCDC178chr1830518055-1400710210728172
ENST00000369031PDSS2chr6107655402-ENST00000300227CCDC178chr1830518055-1177710210728172

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
ENST00000369037ENST00000581852PDSS2chr6107655402-CCDC178chr1830518055-0.448391850.55160815
ENST00000369037ENST00000300227PDSS2chr6107655402-CCDC178chr1830518055-0.188191790.81180817
ENST00000453874ENST00000581852PDSS2chr6107655402-CCDC178chr1830518055-0.43795960.5620404
ENST00000453874ENST00000300227PDSS2chr6107655402-CCDC178chr1830518055-0.194475460.80552447
ENST00000369031ENST00000581852PDSS2chr6107655402-CCDC178chr1830518055-0.442089380.5579106
ENST00000369031ENST00000300227PDSS2chr6107655402-CCDC178chr1830518055-0.169543670.8304563

Top

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

>64079_64079_1_PDSS2-CCDC178_PDSS2_chr6_107655402_ENST00000369031_CCDC178_chr18_30518055_ENST00000300227_length(amino acids)=172AA_BP=
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM

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

>64079_64079_2_PDSS2-CCDC178_PDSS2_chr6_107655402_ENST00000369031_CCDC178_chr18_30518055_ENST00000581852_length(amino acids)=172AA_BP=
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM

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

>64079_64079_3_PDSS2-CCDC178_PDSS2_chr6_107655402_ENST00000369037_CCDC178_chr18_30518055_ENST00000300227_length(amino acids)=172AA_BP=
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM

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

>64079_64079_4_PDSS2-CCDC178_PDSS2_chr6_107655402_ENST00000369037_CCDC178_chr18_30518055_ENST00000581852_length(amino acids)=172AA_BP=
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM

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

>64079_64079_5_PDSS2-CCDC178_PDSS2_chr6_107655402_ENST00000453874_CCDC178_chr18_30518055_ENST00000300227_length(amino acids)=172AA_BP=
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM

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

>64079_64079_6_PDSS2-CCDC178_PDSS2_chr6_107655402_ENST00000453874_CCDC178_chr18_30518055_ENST00000581852_length(amino acids)=172AA_BP=
MPLVCFPRHFWIPPGPRPFQTQTMNFRQLLLHLPRYLGASGSPRRLWWSPSLDTISSVGSWRGRSSKSPAHWNQVVSEAEKIVGYPTSFM

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

Top

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/chr6:107655402/chr18:30554645)
- 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
.CCDC178

Q5BJE1

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
TgeneCCDC178chr6:107655402chr18:30518055ENST00000579947023153_2040850.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST00000579947023233_4140850.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST00000579947023445_4700850.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST00000579947023662_6960850.0Coiled coilOntology_term=ECO:0000255

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneCCDC178chr6:107655402chr18:30518055ENST000003002272022153_204803.0830.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000003002272022233_414803.0830.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000003002272022445_470803.0830.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000003002272022662_696803.0830.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000003830962123153_204841.0868.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000003830962123233_414841.0868.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000003830962123445_470841.0868.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000003830962123662_696841.0868.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004023251820153_204791.0818.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004023251820233_414791.0818.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004023251820445_470791.0818.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004023251820662_696791.0818.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004033032022153_204841.0868.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004033032022233_414841.0868.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004033032022445_470841.0868.0Coiled coilOntology_term=ECO:0000255
TgeneCCDC178chr6:107655402chr18:30518055ENST000004033032022662_696841.0868.0Coiled coilOntology_term=ECO:0000255


Top

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
PDSS2
CCDC178


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


Top

Related Drugs to PDSS2-CCDC178


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

Top

Related Diseases to PDSS2-CCDC178


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