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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: 20046

FusionGeneSummary for LPP_SSU72

check button Fusion gene summary
Fusion gene informationFusion gene name: LPP_SSU72
Fusion gene ID: 20046
HgeneTgene
Gene symbol

LPP

SSU72

Gene ID

4026

29101

Gene nameLIM domain containing preferred translocation partner in lipomaSSU72 homolog, RNA polymerase II CTD phosphatase
Synonyms-HSPC182|PNAS-120
Cytomap

3q27.3-q28

1p36.33

Type of geneprotein-codingprotein-coding
Descriptionlipoma-preferred partnerLIM proteinlipoma preferred partnerRNA polymerase II subunit A C-terminal domain phosphatase SSU72CTD phosphatase SSU72
Modification date2018051920180523
UniProtAcc

Q93052

Q9NP77

Ensembl transtripts involved in fusion geneENST00000448637, ENST00000312675, 
ENST00000543006, ENST00000471917, 
ENST00000291386, ENST00000359060, 
Fusion gene scores* DoF score29 X 22 X 11=70189 X 7 X 6=378
# samples 3710
** MAII scorelog2(37/7018*10)=-4.24546277188585
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(10/378*10)=-1.91838623444635
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LPP [Title/Abstract] AND SSU72 [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
TgeneSSU72

GO:0070940

dephosphorylation of RNA polymerase II C-terminal domain

20861839


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
ChiTaRS3.1BG011761LPPchr3

188064351

+SSU72chr1

1491547

-
* 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-intronENST00000448637ENST00000291386LPPchr3

188064351

+SSU72chr1

1491547

-
intron-intronENST00000448637ENST00000359060LPPchr3

188064351

+SSU72chr1

1491547

-
intron-intronENST00000312675ENST00000291386LPPchr3

188064351

+SSU72chr1

1491547

-
intron-intronENST00000312675ENST00000359060LPPchr3

188064351

+SSU72chr1

1491547

-
intron-intronENST00000543006ENST00000291386LPPchr3

188064351

+SSU72chr1

1491547

-
intron-intronENST00000543006ENST00000359060LPPchr3

188064351

+SSU72chr1

1491547

-
intron-intronENST00000471917ENST00000291386LPPchr3

188064351

+SSU72chr1

1491547

-
intron-intronENST00000471917ENST00000359060LPPchr3

188064351

+SSU72chr1

1491547

-

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FusionProtFeatures for LPP_SSU72


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

Q93052

SSU72

Q9NP77

May play a structural role at sites of cell adhesion inmaintaining cell shape and motility. In addition to thesestructural functions, it may also be implicated in signalingevents and activation of gene transcription. May be involved insignal transduction from cell adhesion sites to the nucleusallowing successful integration of signals arising from solublefactors and cell-cell adhesion sites. Also suggested to serve as ascaffold protein upon which distinct protein complexes areassembled in the cytoplasm and in the nucleus.{ECO:0000269|PubMed:10637295, ECO:0000269|Ref.2}. Protein phosphatase that catalyzes the dephosphorylationof the C-terminal domain of RNA polymerase II. Plays a role in RNAprocessing and termination. Plays a role in pre-mRNApolyadenylation via its interaction with SYMPK.{ECO:0000269|PubMed:15659578, ECO:0000269|PubMed:20861839,ECO:0000269|PubMed:23070812}.

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 LPP_SSU72


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 LPP_SSU72


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 LPP_SSU72


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 LPP_SSU72


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLPPC3495559Juvenile arthritis1CTD_human