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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:AP1M1-RAB8A (FusionGDB2 ID:HG8907TG4218)

Fusion Gene Summary for AP1M1-RAB8A

check button Fusion gene summary
Fusion gene informationFusion gene name: AP1M1-RAB8A
Fusion gene ID: hg8907tg4218
HgeneTgene
Gene symbol

AP1M1

RAB8A

Gene ID

8907

4218

Gene nameadaptor related protein complex 1 subunit mu 1RAB8A, member RAS oncogene family
SynonymsAP47|CLAPM2|CLTNM|MU-1AMEL|RAB8
Cytomap('AP1M1')('RAB8A')

19p13.11

19p13.11

Type of geneprotein-codingprotein-coding
DescriptionAP-1 complex subunit mu-1AP-mu chain family member mu1AHA1 47 kDa subunitadapter-related protein complex 1 subunit mu-1adaptor protein complex AP-1 mu-1 subunitadaptor protein complex AP-1 subunit mu-1adaptor related protein complex 1 mu 1 subunitcras-related protein Rab-8Amel transforming oncogene (RAB8 homolog)mel transforming oncogene (derived from cell line NK14)mel transforming oncogene (derived from cell line NK14)- RAB8 homologoncogene c-melras-associated protein RAB8
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000291439, ENST00000429941, 
ENST00000444449, ENST00000541844, 
ENST00000590756, 
Fusion gene scores* DoF score7 X 6 X 5=2103 X 3 X 3=27
# samples 84
** MAII scorelog2(8/210*10)=-1.39231742277876
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/27*10)=0.567040592723894
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: AP1M1 [Title/Abstract] AND RAB8A [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointAP1M1(16319988)-RAB8A(16236280), # samples:3
Anticipated loss of major functional domain due to fusion event.AP1M1-RAB8A seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
AP1M1-RAB8A seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame 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
TgeneRAB8A

GO:0006904

vesicle docking involved in exocytosis

17574030

TgeneRAB8A

GO:0048210

Golgi vesicle fusion to target membrane

17574030

TgeneRAB8A

GO:0060271

cilium assembly

17574030


check buttonFusion gene breakpoints across AP1M1 (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 RAB8A (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4BRCATCGA-AC-A5EH-01AAP1M1chr19

16319988

-RAB8Achr19

16236280

+
ChimerDB4BRCATCGA-AC-A5EH-01AAP1M1chr19

16319988

+RAB8Achr19

16236280

+


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Fusion Gene ORF analysis for AP1M1-RAB8A

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-intronENST00000291439ENST00000586682AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000291439ENST00000588105AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000429941ENST00000586682AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000429941ENST00000588105AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000444449ENST00000586682AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000444449ENST00000588105AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000541844ENST00000586682AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000541844ENST00000588105AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000590756ENST00000586682AP1M1chr19

16319988

+RAB8Achr19

16236280

+
5CDS-intronENST00000590756ENST00000588105AP1M1chr19

16319988

+RAB8Achr19

16236280

+
In-frameENST00000291439ENST00000300935AP1M1chr19

16319988

+RAB8Achr19

16236280

+
In-frameENST00000429941ENST00000300935AP1M1chr19

16319988

+RAB8Achr19

16236280

+
In-frameENST00000444449ENST00000300935AP1M1chr19

16319988

+RAB8Achr19

16236280

+
In-frameENST00000541844ENST00000300935AP1M1chr19

16319988

+RAB8Achr19

16236280

+
In-frameENST00000590756ENST00000300935AP1M1chr19

16319988

+RAB8Achr19

16236280

+

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 AP1M1-RAB8A


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)
AP1M1chr1916319988+RAB8Achr1916236279+9.52E-111
AP1M1chr1916319988+RAB8Achr1916236279+9.52E-111

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.
genomic feature

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 AP1M1-RAB8A


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/chr19:16319988/chr19:16236280)
- 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
TgeneRAB8Achr19:16319988chr19:16236280ENST0000030093528121_12482208.0Nucleotide bindingGTP
TgeneRAB8Achr19:16319988chr19:16236280ENST0000030093528152_15482208.0Nucleotide bindingGTP

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneAP1M1chr19:16319988chr19:16236280ENST00000291439+512168_421182424.0DomainMHD
HgeneAP1M1chr19:16319988chr19:16236280ENST00000444449+513168_421182436.0DomainMHD
TgeneRAB8Achr19:16319988chr19:16236280ENST000003009352837_4582208.0MotifEffector region
TgeneRAB8Achr19:16319988chr19:16236280ENST000003009352817_2282208.0Nucleotide bindingGTP
TgeneRAB8Achr19:16319988chr19:16236280ENST000003009352834_4082208.0Nucleotide bindingGTP
TgeneRAB8Achr19:16319988chr19:16236280ENST000003009352863_6782208.0Nucleotide bindingGTP


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Fusion Gene Sequence for AP1M1-RAB8A


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 AP1M1-RAB8A


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 AP1M1-RAB8A


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 AP1M1-RAB8A


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC0003873Rheumatoid Arthritis1CTD_human