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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:APIP-CD44 (FusionGDB2 ID:HG51074TG960)

Fusion Gene Summary for APIP-CD44

check button Fusion gene summary
Fusion gene informationFusion gene name: APIP-CD44
Fusion gene ID: hg51074tg960
HgeneTgene
Gene symbol

APIP

CD44

Gene ID

51074

960

Gene nameAPAF1 interacting proteinCD44 molecule (Indian blood group)
SynonymsAPIP2|CGI-29|CGI29|MMRP19|hAPIPCDW44|CSPG8|ECMR-III|HCELL|HUTCH-I|IN|LHR|MC56|MDU2|MDU3|MIC4|Pgp1
Cytomap('APIP')('CD44')

11p13

11p13

Type of geneprotein-codingprotein-coding
Descriptionmethylthioribulose-1-phosphate dehydrataseMTRu-1-P dehydrataseprobable methylthioribulose-1-phosphate dehydrataseCD44 antigenGP90 lymphocyte homing/adhesion receptorHermes antigenIndian blood group antigencell surface glycoprotein CD44chondroitin sulfate proteoglycan 8epicanextracellular matrix receptor IIIhematopoietic cell E- and L-selectin ligandheparan
Modification date2020032720200329
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000278359, ENST00000395787, 
ENST00000527830, 
Fusion gene scores* DoF score5 X 4 X 6=12012 X 14 X 4=672
# samples 916
** MAII scorelog2(9/120*10)=-0.415037499278844
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(16/672*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: APIP [Title/Abstract] AND CD44 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointAPIP(34937774)-CD44(35236398), # samples:1
APIP(34937775)-CD44(35236399), # samples:1
Anticipated loss of major functional domain due to fusion event.APIP-CD44 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
APIP-CD44 seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
APIP-CD44 seems lost the major protein functional domain in Tgene 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
HgeneAPIP

GO:0051289

protein homotetramerization

24367089

TgeneCD44

GO:0007155

cell adhesion

19703720

TgeneCD44

GO:0016477

cell migration

22726066

TgeneCD44

GO:0030214

hyaluronan catabolic process

17170110

TgeneCD44

GO:0033138

positive regulation of peptidyl-serine phosphorylation

17045821

TgeneCD44

GO:0042110

T cell activation

7528188

TgeneCD44

GO:0043518

negative regulation of DNA damage response, signal transduction by p53 class mediator

17045821

TgeneCD44

GO:0044344

cellular response to fibroblast growth factor stimulus

19577615

TgeneCD44

GO:0050731

positive regulation of peptidyl-tyrosine phosphorylation

17045821

TgeneCD44

GO:0070374

positive regulation of ERK1 and ERK2 cascade

17045821

TgeneCD44

GO:1902166

negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator

17045821



check button Fusion gene information
* 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
ChimerDB4STADTCGA-FP-8209-01AAPIPchr11

34937775

-CD44chr11

35236399

+
ChimerDB4STADTCGA-FP-8209APIPchr11

34937774

-CD44chr11

35236398

+


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Fusion Gene ORF analysis for APIP-CD44

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
5CDS-intronENST00000278359ENST00000278386APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000278386APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000352818APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000352818APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000360158APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000360158APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000415148APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000415148APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000428726APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000428726APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000433354APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000433354APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000433892APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000433892APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000434472APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000434472APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000437706APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000437706APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000449691APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000449691APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000526025APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000526025APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000526669APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000526669APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000278359ENST00000528922APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000278359ENST00000528922APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000278386APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000278386APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000352818APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000352818APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000360158APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000360158APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000415148APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000415148APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000428726APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000428726APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000433354APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000433354APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000433892APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000433892APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000434472APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000434472APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000437706APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000437706APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000449691APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000449691APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000526025APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000526025APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000526669APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000526669APIPchr11

34937774

-CD44chr11

35236398

+
5CDS-intronENST00000395787ENST00000528922APIPchr11

34937775

-CD44chr11

35236399

+
5CDS-intronENST00000395787ENST00000528922APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-3CDSENST00000527830ENST00000263398APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-3CDSENST00000527830ENST00000263398APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000278386APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000278386APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000352818APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000352818APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000360158APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000360158APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000415148APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000415148APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000428726APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000428726APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000433354APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000433354APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000433892APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000433892APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000434472APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000434472APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000437706APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000437706APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000449691APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000449691APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000526025APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000526025APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000526669APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000526669APIPchr11

34937774

-CD44chr11

35236398

+
5UTR-intronENST00000527830ENST00000528922APIPchr11

34937775

-CD44chr11

35236399

+
5UTR-intronENST00000527830ENST00000528922APIPchr11

34937774

-CD44chr11

35236398

+
Frame-shiftENST00000278359ENST00000263398APIPchr11

34937775

-CD44chr11

35236399

+
Frame-shiftENST00000278359ENST00000263398APIPchr11

34937774

-CD44chr11

35236398

+
Frame-shiftENST00000395787ENST00000263398APIPchr11

34937775

-CD44chr11

35236399

+
Frame-shiftENST00000395787ENST00000263398APIPchr11

34937774

-CD44chr11

35236398

+

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 APIP-CD44


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)
APIPchr1134937774-CD44chr1135236398+0.0253862330.9746138
APIPchr1134937774-CD44chr1135236398+0.0253862330.9746138
APIPchr1134937774-CD44chr1135236398+0.0253862330.9746138
APIPchr1134937774-CD44chr1135236398+0.0253862330.9746138


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.
genomic feature of top 1%

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Fusion Protein Features for APIP-CD44


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/:34937774/:35236398)
- 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
..
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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 APIP-CD44


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 APIP-CD44


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 APIP-CD44


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 APIP-CD44


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC0023487Acute Promyelocytic Leukemia2CTD_human
TgeneC0009405Hereditary Nonpolyposis Colorectal Neoplasms1CTD_human
TgeneC0011616Contact Dermatitis1CTD_human
TgeneC0017661IGA Glomerulonephritis1CTD_human
TgeneC0022660Kidney Failure, Acute1CTD_human
TgeneC0023467Leukemia, Myelocytic, Acute1CTD_human
TgeneC0024623Malignant neoplasm of stomach1CTD_human
TgeneC0024668Mammary Neoplasms, Experimental1CTD_human
TgeneC0026998Acute Myeloid Leukemia, M11CTD_human
TgeneC0027627Neoplasm Metastasis1CTD_human
TgeneC0027746Nerve Degeneration1CTD_human
TgeneC0030297Pancreatic Neoplasm1CTD_human
TgeneC0032580Adenomatous Polyposis Coli1CTD_human
TgeneC0037274Dermatologic disorders1CTD_human
TgeneC0038356Stomach Neoplasms1CTD_human
TgeneC0042900Vitiligo1CTD_human
TgeneC0162351Contact hypersensitivity1CTD_human
TgeneC0274861Arsenic Poisoning, Inorganic1CTD_human
TgeneC0274862Nervous System, Organic Arsenic Poisoning1CTD_human
TgeneC0311375Arsenic Poisoning1CTD_human
TgeneC0346647Malignant neoplasm of pancreas1CTD_human
TgeneC0751851Arsenic Encephalopathy1CTD_human
TgeneC0751852Arsenic Induced Polyneuropathy1CTD_human
TgeneC1333990Hereditary Nonpolyposis Colorectal Cancer1CTD_human
TgeneC1565662Acute Kidney Insufficiency1CTD_human
TgeneC1708349Hereditary Diffuse Gastric Cancer1CTD_human
TgeneC1879321Acute Myeloid Leukemia (AML-M2)1CTD_human
TgeneC2609414Acute kidney injury1CTD_human
TgeneC2713442Polyposis, Adenomatous Intestinal1CTD_human
TgeneC2713443Familial Intestinal Polyposis1CTD_human
TgeneC4552100Lynch Syndrome1CTD_human