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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: 25720

FusionGeneSummary for PABPC1_PABPC1

check button Fusion gene summary
Fusion gene informationFusion gene name: PABPC1_PABPC1
Fusion gene ID: 25720
HgeneTgene
Gene symbol

PABPC1

PABPC1

Gene ID

26986

26986

Gene namepoly(A) binding protein cytoplasmic 1poly(A) binding protein cytoplasmic 1
SynonymsPAB1|PABP|PABP1|PABPC2|PABPL1PAB1|PABP|PABP1|PABPC2|PABPL1
Cytomap

8q22.3

8q22.3

Type of geneprotein-codingprotein-coding
Descriptionpolyadenylate-binding protein 1poly(A) binding protein, cytoplasmic 2polyadenylate-binding protein 1poly(A) binding protein, cytoplasmic 2
Modification date2018052320180523
UniProtAcc

P11940

P11940

Ensembl transtripts involved in fusion geneENST00000318607, ENST00000519004, 
ENST00000522387, ENST00000519596, 
ENST00000318607, ENST00000519004, 
ENST00000522387, ENST00000519596, 
Fusion gene scores* DoF score11 X 10 X 5=5507 X 8 X 3=168
# samples 128
** MAII scorelog2(12/550*10)=-2.1963972128035
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/168*10)=-1.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PABPC1 [Title/Abstract] AND PABPC1 [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
HgenePABPC1

GO:2000623

negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay

18447585

TgenePABPC1

GO:2000623

negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay

18447585


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
ChiTaRS3.1AW880952PABPC1chr8

101721812

-PABPC1chr8

101725017

-
ChiTaRS3.1BF087781PABPC1chr8

101719216

+PABPC1chr8

101721787

-
* 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-3CDSENST00000318607ENST00000318607PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000318607ENST00000519004PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000318607ENST00000522387PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-5UTRENST00000318607ENST00000519596PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000519004ENST00000318607PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000519004ENST00000519004PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000519004ENST00000522387PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-5UTRENST00000519004ENST00000519596PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000522387ENST00000318607PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000522387ENST00000519004PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000522387ENST00000522387PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-5UTRENST00000522387ENST00000519596PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000519596ENST00000318607PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000519596ENST00000519004PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000519596ENST00000522387PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-5UTRENST00000519596ENST00000519596PABPC1chr8

101721812

-PABPC1chr8

101725017

-
intron-3CDSENST00000318607ENST00000318607PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000318607ENST00000519004PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000318607ENST00000522387PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-5UTRENST00000318607ENST00000519596PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000519004ENST00000318607PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000519004ENST00000519004PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000519004ENST00000522387PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-5UTRENST00000519004ENST00000519596PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000522387ENST00000318607PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000522387ENST00000519004PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000522387ENST00000522387PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-5UTRENST00000522387ENST00000519596PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000519596ENST00000318607PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000519596ENST00000519004PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-3CDSENST00000519596ENST00000522387PABPC1chr8

101719216

+PABPC1chr8

101721787

-
intron-5UTRENST00000519596ENST00000519596PABPC1chr8

101719216

+PABPC1chr8

101721787

-

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FusionProtFeatures for PABPC1_PABPC1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PABPC1

P11940

PABPC1

P11940

Binds the poly(A) tail of mRNA, including that of itsown transcript. May be involved in cytoplasmic regulatoryprocesses of mRNA metabolism such as pre-mRNA splicing. Itsfunction in translational initiation regulation can either beenhanced by PAIP1 or repressed by PAIP2. Can probably bind tocytoplasmic RNA sequences other than poly(A) in vivo. Involved intranslationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translationaland decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. Involved inregulation of nonsense-mediated decay (NMD) of mRNAs containingpremature stop codons; for the recognition of prematuretermination codons (PTC) and initiation of NMD a competitiveinteraction between UPF1 and PABPC1 with the ribosome-boundrelease factors is proposed. By binding to long poly(A) tails, mayprotect them from uridylation by ZCCHC6/ZCCHC11 and hencecontribute to mRNA stability (PubMed:25480299). Positivelyregulates the replication of dengue virus (DENV)(PubMed:26735137). {ECO:0000269|PubMed:11051545,ECO:0000269|PubMed:17212783, ECO:0000269|PubMed:18447585,ECO:0000269|PubMed:20573744, ECO:0000269|PubMed:25480299,ECO:0000269|PubMed:26735137}. Binds the poly(A) tail of mRNA, including that of itsown transcript. May be involved in cytoplasmic regulatoryprocesses of mRNA metabolism such as pre-mRNA splicing. Itsfunction in translational initiation regulation can either beenhanced by PAIP1 or repressed by PAIP2. Can probably bind tocytoplasmic RNA sequences other than poly(A) in vivo. Involved intranslationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translationaland decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. Involved inregulation of nonsense-mediated decay (NMD) of mRNAs containingpremature stop codons; for the recognition of prematuretermination codons (PTC) and initiation of NMD a competitiveinteraction between UPF1 and PABPC1 with the ribosome-boundrelease factors is proposed. By binding to long poly(A) tails, mayprotect them from uridylation by ZCCHC6/ZCCHC11 and hencecontribute to mRNA stability (PubMed:25480299). Positivelyregulates the replication of dengue virus (DENV)(PubMed:26735137). {ECO:0000269|PubMed:11051545,ECO:0000269|PubMed:17212783, ECO:0000269|PubMed:18447585,ECO:0000269|PubMed:20573744, ECO:0000269|PubMed:25480299,ECO:0000269|PubMed:26735137}.

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 PABPC1_PABPC1


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 PABPC1_PABPC1


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


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 PABPC1_PABPC1


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 PABPC1_PABPC1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePABPC1C0005695Bladder Neoplasm1CTD_human
HgenePABPC1C0007138Carcinoma, Transitional Cell1CTD_human
HgenePABPC1C1458155Mammary Neoplasms1CTD_human
TgenePABPC1C0005695Bladder Neoplasm1CTD_human
TgenePABPC1C0007138Carcinoma, Transitional Cell1CTD_human
TgenePABPC1C1458155Mammary Neoplasms1CTD_human