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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:LITAF-GIPR (FusionGDB2 ID:45673)

Fusion Gene Summary for LITAF-GIPR

check button Fusion gene summary
Fusion gene informationFusion gene name: LITAF-GIPR
Fusion gene ID: 45673
HgeneTgene
Gene symbol

LITAF

GIPR

Gene ID

9516

2696

Gene namelipopolysaccharide induced TNF factorgastric inhibitory polypeptide receptor
SynonymsPIG7|SIMPLE|TP53I7PGQTL2
Cytomap

16p13.13

19q13.32

Type of geneprotein-codingprotein-coding
Descriptionlipopolysaccharide-induced tumor necrosis factor-alpha factorLPS-induced TNF-alpha factorlipopolysaccharide-induced TNF-alpha factorp53-induced gene 7 proteinsmall integral membrane protein of lysosome/late endosometumor protein p53 inducible proteingastric inhibitory polypeptide receptorGIP-Rglucose-dependent insulinotropic polypeptide receptor
Modification date2020032820200313
UniProtAcc

Q99732

P48546

Ensembl transtripts involved in fusion geneENST00000339430, ENST00000381810, 
ENST00000413364, ENST00000570904, 
ENST00000571459, ENST00000571688, 
ENST00000571976, ENST00000572255, 
ENST00000574703, ENST00000574763, 
ENST00000576036, 		ENST00000263281, 
ENST00000304207, ENST00000590918, 
ENST00000593127, 
Fusion gene scores* DoF score11 X 12 X 6=7921 X 1 X 1=1
# samples 171
** MAII scorelog2(17/792*10)=-2.21996568394191
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(1/1*10)=3.32192809488736
Context

PubMed: LITAF [Title/Abstract] AND GIPR [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointLITAF(11674720)-GIPR(46179100), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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

check buttonFusion gene breakpoints across LITAF (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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

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
ChiTaRS5.0N/AEI786562LITAFchr16

11674720

+GIPRchr19

46179100

-


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Fusion Gene ORF analysis for LITAF-GIPR

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-intronENST00000339430ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000339430ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000339430ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000339430ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000381810ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000381810ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000381810ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000381810ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000413364ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000413364ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000413364ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000413364ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000570904ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000570904ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000570904ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000570904ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571459ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571459ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571459ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571459ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571688ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571688ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571688ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571688ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571976ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571976ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571976ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000571976ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000572255ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000572255ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000572255ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000572255ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574703ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574703ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574703ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574703ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574763ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574763ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574763ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000574763ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000576036ENST00000263281LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000576036ENST00000304207LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000576036ENST00000590918LITAFchr16

11674720

+GIPRchr19

46179100

-
intron-intronENST00000576036ENST00000593127LITAFchr16

11674720

+GIPRchr19

46179100

-

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

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

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Fusion Genomic Features for LITAF-GIPR


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for LITAF-GIPR


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/:11674720/:46179100)
- 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
LITAF

Q99732

GIPR

P48546

FUNCTION: Plays a role in endosomal protein trafficking and in targeting proteins for lysosomal degradation (PubMed:23166352). Plays a role in targeting endocytosed EGFR and ERGG3 for lysosomal degradation, and thereby helps downregulate downstream signaling cascades (PubMed:23166352). Helps recruit the ESCRT complex components TSG101, HGS and STAM to cytoplasmic membranes (PubMed:23166352). Probably plays a role in regulating protein degradation via its interaction with NEDD4 (PubMed:15776429). May also contribute to the regulation of gene expression in the nucleus (PubMed:10200294, PubMed:15793005). Binds DNA (in vitro) and may play a synergistic role with STAT6 in the nucleus in regulating the expression of various cytokines (PubMed:15793005). May regulate the expression of numerous cytokines, such as TNF, CCL2, CCL5, CXCL1, IL1A and IL10 (PubMed:10200294, PubMed:15793005). {ECO:0000269|PubMed:15793005, ECO:0000269|PubMed:23166352, ECO:0000303|PubMed:15776429, ECO:0000305|PubMed:10200294}.FUNCTION: This is a receptor for GIP. The activity of this receptor is mediated by G proteins which activate adenylyl cyclase.

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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Fusion Gene Sequence for LITAF-GIPR


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for LITAF-GIPR


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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Related Drugs for LITAF-GIPR


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for LITAF-GIPR


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