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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:ALCAM-YIF1B (FusionGDB2 ID:HG214TG90522)

Fusion Gene Summary for ALCAM-YIF1B

check button Fusion gene summary
Fusion gene informationFusion gene name: ALCAM-YIF1B
Fusion gene ID: hg214tg90522
HgeneTgene
Gene symbol

ALCAM

YIF1B

Gene ID

214

90522

Gene nameactivated leukocyte cell adhesion moleculeYip1 interacting factor homolog B, membrane trafficking protein
SynonymsCD166|MEMDFinGER8
Cytomap('ALCAM')('YIF1B')

3q13.11

19q13.2

Type of geneprotein-codingprotein-coding
DescriptionCD166 antigenprotein YIF1BYIP1-interacting factor homolog B
Modification date2020032020200327
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000306107, ENST00000472644, 
ENST00000389927, ENST00000481337, 
ENST00000486979, 
Fusion gene scores* DoF score15 X 13 X 6=11707 X 4 X 6=168
# samples 178
** MAII scorelog2(17/1170*10)=-2.78290187833307
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: ALCAM [Title/Abstract] AND YIF1B [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointALCAM(105086325)-YIF1B(38800283), # samples:4
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 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-BH-A0BP-01AALCAMchr3

105086325

-YIF1Bchr19

38800283

-
ChimerDB4BRCATCGA-BH-A0BP-01AALCAMchr3

105086325

+YIF1Bchr19

38800283

-
ChimerDB4BRCATCGA-BH-A0BPALCAMchr3

105086325

+YIF1Bchr19

38800283

-


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Fusion Gene ORF analysis for ALCAM-YIF1B

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-5UTRENST00000306107ENST00000329420ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000337679ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000339413ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000392124ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000587361ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000591755ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000591784ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000592246ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000306107ENST00000592694ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000329420ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000337679ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000339413ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000392124ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000587361ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000591755ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000591784ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000592246ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
5CDS-5UTRENST00000472644ENST00000592694ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000329420ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000337679ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000339413ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000392124ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000587361ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000591755ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000591784ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000592246ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000389927ENST00000592694ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000329420ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000337679ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000339413ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000392124ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000587361ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000591755ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000591784ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000592246ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000481337ENST00000592694ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000329420ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000337679ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000339413ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000392124ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000587361ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000591755ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000591784ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000592246ALCAMchr3

105086325

+YIF1Bchr19

38800283

-
intron-5UTRENST00000486979ENST00000592694ALCAMchr3

105086325

+YIF1Bchr19

38800283

-

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 ALCAM-YIF1B


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)


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Fusion Protein Features for ALCAM-YIF1B


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/:105086325/:38800283)
- 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 ALCAM-YIF1B


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 ALCAM-YIF1B


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 ALCAM-YIF1B


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 ALCAM-YIF1B


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneALCAMC0007097Carcinoma1CTD_human
HgeneALCAMC0024667Animal Mammary Neoplasms1CTD_human
HgeneALCAMC0024668Mammary Neoplasms, Experimental1CTD_human
HgeneALCAMC0205696Anaplastic carcinoma1CTD_human
HgeneALCAMC0205697Carcinoma, Spindle-Cell1CTD_human
HgeneALCAMC0205698Undifferentiated carcinoma1CTD_human
HgeneALCAMC0205699Carcinomatosis1CTD_human
HgeneALCAMC1257925Mammary Carcinoma, Animal1CTD_human