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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:SELENBP1-HCFC1 (FusionGDB2 ID:HG8991TG3054)

Fusion Gene Summary for SELENBP1-HCFC1

check button Fusion gene summary
Fusion gene informationFusion gene name: SELENBP1-HCFC1
Fusion gene ID: hg8991tg3054
HgeneTgene
Gene symbol

SELENBP1

HCFC1

Gene ID

8991

3054

Gene nameselenium binding protein 1host cell factor C1
SynonymsEHMTO|HEL-S-134P|LPSB|MTO|SBP56|SP56|hSBPCFF|HCF|HCF-1|HCF1|HFC1|MRX3|PPP1R89|VCAF
Cytomap('SELENBP1')('HCFC1')

1q21.3

Xq28

Type of geneprotein-codingprotein-coding
Descriptionmethanethiol oxidase56 kDa selenium-binding proteinepididymis secretory sperm binding protein Li 134Phost cell factor 1VP16-accessory proteinprotein phosphatase 1, regulatory subunit 89
Modification date2020032720200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000368868, ENST00000426705, 
ENST00000435071, ENST00000447402, 
ENST00000473693, 
Fusion gene scores* DoF score6 X 7 X 2=846 X 7 X 3=126
# samples 77
** MAII scorelog2(7/84*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(7/126*10)=-0.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SELENBP1 [Title/Abstract] AND HCFC1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSELENBP1(151336954)-HCFC1(153221112), # samples:2
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
TgeneHCFC1

GO:0006355

regulation of transcription, DNA-templated

12670868

TgeneHCFC1

GO:0010628

positive regulation of gene expression

21285374

TgeneHCFC1

GO:0043254

regulation of protein complex assembly

10675337

TgeneHCFC1

GO:0043981

histone H4-K5 acetylation

20018852

TgeneHCFC1

GO:0043982

histone H4-K8 acetylation

20018852

TgeneHCFC1

GO:0043984

histone H4-K16 acetylation

20018852

TgeneHCFC1

GO:0050821

protein stabilization

21285374



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/ABE646188SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
ChiTaRS5.0N/ABE646218SELENBP1chr1

151336954

+HCFC1chrX

153221112

+


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Fusion Gene ORF analysis for SELENBP1-HCFC1

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-intronENST00000368868ENST00000310441SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000368868ENST00000354233SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000368868ENST00000369984SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000368868ENST00000461098SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000426705ENST00000310441SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000426705ENST00000354233SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000426705ENST00000369984SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000426705ENST00000461098SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000435071ENST00000310441SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000435071ENST00000354233SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000435071ENST00000369984SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000435071ENST00000461098SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000447402ENST00000310441SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000447402ENST00000354233SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000447402ENST00000369984SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000447402ENST00000461098SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000473693ENST00000310441SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000473693ENST00000354233SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000473693ENST00000369984SELENBP1chr1

151336954

+HCFC1chrX

153221112

+
intron-intronENST00000473693ENST00000461098SELENBP1chr1

151336954

+HCFC1chrX

153221112

+

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 SELENBP1-HCFC1


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 SELENBP1-HCFC1


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/:151336954/:153221112)
- 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 SELENBP1-HCFC1


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 SELENBP1-HCFC1


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 SELENBP1-HCFC1


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 SELENBP1-HCFC1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSELENBP1C0001418Adenocarcinoma2CTD_human
HgeneSELENBP1C0024623Malignant neoplasm of stomach2CTD_human
HgeneSELENBP1C0036341Schizophrenia2CTD_human
HgeneSELENBP1C0038356Stomach Neoplasms2CTD_human
HgeneSELENBP1C0205641Adenocarcinoma, Basal Cell2CTD_human
HgeneSELENBP1C0205642Adenocarcinoma, Oxyphilic2CTD_human
HgeneSELENBP1C0205643Carcinoma, Cribriform2CTD_human
HgeneSELENBP1C0205644Carcinoma, Granular Cell2CTD_human
HgeneSELENBP1C0205645Adenocarcinoma, Tubular2CTD_human
HgeneSELENBP1C0919267ovarian neoplasm2CTD_human
HgeneSELENBP1C1140680Malignant neoplasm of ovary2CTD_human
HgeneSELENBP1C1708349Hereditary Diffuse Gastric Cancer2CTD_human
HgeneSELENBP1C0009402Colorectal Carcinoma1CTD_human
HgeneSELENBP1C0009404Colorectal Neoplasms1CTD_human
HgeneSELENBP1C0018520Halitosis1CTD_human
HgeneSELENBP1C0019193Hepatitis, Toxic1CTD_human
HgeneSELENBP1C0024121Lung Neoplasms1CTD_human
HgeneSELENBP1C0025521Inborn Errors of Metabolism1CTD_human
HgeneSELENBP1C0033958Psychosis, Brief Reactive1CTD_human
HgeneSELENBP1C0033975Psychotic Disorders1CTD_human
HgeneSELENBP1C0036337Schizoaffective Disorder1CTD_human
HgeneSELENBP1C0036358Schizophreniform Disorders1CTD_human
HgeneSELENBP1C0242379Malignant neoplasm of lung1CTD_human
HgeneSELENBP1C0860207Drug-Induced Liver Disease1CTD_human
HgeneSELENBP1C1262760Hepatitis, Drug-Induced1CTD_human
HgeneSELENBP1C3658290Drug-Induced Acute Liver Injury1CTD_human
HgeneSELENBP1C4277682Chemical and Drug Induced Liver Injury1CTD_human
HgeneSELENBP1C4279912Chemically-Induced Liver Toxicity1CTD_human
HgeneSELENBP1C4748387EXTRAORAL HALITOSIS DUE TO METHANETHIOL OXIDASE DEFICIENCY1UNIPROT
TgeneC0796208MENTAL RETARDATION, X-LINKED 32CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneC0023903Liver neoplasms1CTD_human
TgeneC0345904Malignant neoplasm of liver1CTD_human
TgeneC2931498Mental Retardation, X-Linked 11ORPHANET