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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 40645

FusionGeneSummary for UBXN4_R3HDM1

check button Fusion gene summary
Fusion gene informationFusion gene name: UBXN4_R3HDM1
Fusion gene ID: 40645
HgeneTgene
Gene symbol

UBXN4

R3HDM1

Gene ID

23190

23518

Gene nameUBX domain protein 4R3H domain containing 1
SynonymsUBXD2|UBXDC1|erasinR3HDM
Cytomap

2q21.3

2q21.3

Type of geneprotein-codingprotein-coding
DescriptionUBX domain-containing protein 4UBX domain containing 2UBX domain-containing 1UBX domain-containing protein 2R3H domain-containing protein 1R3H domain (binds single-stranded nucleic acids) containing
Modification date2018051920180519
UniProtAcc

Q92575

Q15032

Ensembl transtripts involved in fusion geneENST00000272638, ENST00000490163, 
ENST00000409478, ENST00000329971, 
ENST00000264160, ENST00000410054, 
ENST00000409606, ENST00000443537, 
Fusion gene scores* DoF score2 X 5 X 4=407 X 7 X 6=294
# samples 510
** MAII scorelog2(5/40*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(10/294*10)=-1.55581615506164
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: UBXN4 [Title/Abstract] AND R3HDM1 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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 from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGALDBRCATCGA-A7-A6VY-01AUBXN4chr2

136533921

+R3HDM1chr2

136437743

+
TCGARVLUADTCGA-44-6778-01AUBXN4chr2

136537955

+R3HDM1chr2

136360070

+
TCGARVLUADTCGA-55-7576-01AUBXN4chr2

136505939

+R3HDM1chr2

136467003

+
TCGALDOVTCGA-61-1724-01AUBXN4chr2

136527393

+R3HDM1chr2

136360070

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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
In-frameENST00000272638ENST00000409478UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
In-frameENST00000272638ENST00000329971UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
In-frameENST00000272638ENST00000264160UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
In-frameENST00000272638ENST00000410054UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
In-frameENST00000272638ENST00000409606UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
5CDS-intronENST00000272638ENST00000443537UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
3UTR-3CDSENST00000490163ENST00000409478UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
3UTR-3CDSENST00000490163ENST00000329971UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
3UTR-3CDSENST00000490163ENST00000264160UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
3UTR-3CDSENST00000490163ENST00000410054UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
3UTR-3CDSENST00000490163ENST00000409606UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
3UTR-intronENST00000490163ENST00000443537UBXN4chr2

136533921

+R3HDM1chr2

136437743

+
5CDS-5UTRENST00000272638ENST00000409478UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000329971UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000264160UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000410054UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000409606UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
5CDS-intronENST00000272638ENST00000443537UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000409478UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000329971UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000264160UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000410054UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000409606UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
3UTR-intronENST00000490163ENST00000443537UBXN4chr2

136537955

+R3HDM1chr2

136360070

+
In-frameENST00000272638ENST00000409478UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
In-frameENST00000272638ENST00000329971UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
In-frameENST00000272638ENST00000264160UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
In-frameENST00000272638ENST00000410054UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
In-frameENST00000272638ENST00000409606UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
5CDS-intronENST00000272638ENST00000443537UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
intron-3CDSENST00000490163ENST00000409478UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
intron-3CDSENST00000490163ENST00000329971UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
intron-3CDSENST00000490163ENST00000264160UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
intron-3CDSENST00000490163ENST00000410054UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
intron-3CDSENST00000490163ENST00000409606UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
intron-intronENST00000490163ENST00000443537UBXN4chr2

136505939

+R3HDM1chr2

136467003

+
5CDS-5UTRENST00000272638ENST00000409478UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000329971UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000264160UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000410054UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
5CDS-5UTRENST00000272638ENST00000409606UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
5CDS-intronENST00000272638ENST00000443537UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000409478UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000329971UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000264160UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000410054UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
3UTR-5UTRENST00000490163ENST00000409606UBXN4chr2

136527393

+R3HDM1chr2

136360070

+
3UTR-intronENST00000490163ENST00000443537UBXN4chr2

136527393

+R3HDM1chr2

136360070

+

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FusionProtFeatures for UBXN4_R3HDM1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
UBXN4

Q92575

R3HDM1

Q15032

Involved in endoplasmic reticulum-associated proteindegradation (ERAD). Acts as a platform to recruit both UBQLN1 andVCP to the ER during ERAD (PubMed:19822669).{ECO:0000269|PubMed:16968747, ECO:0000269|PubMed:19822669}.

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
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000264160+1926822_8267841100Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000329971+1623822_826655971Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000264160+1826822_8267341100Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000329971+1523822_826605971Compositional biasNote=Poly-Pro

- In-frame and not-retained protein feature among the 13 regional features.
>>>>>>>>
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneUBXN4chr2:136505939chr2:136467003ENST00000272638+213315_39361509DomainUBX
HgeneUBXN4chr2:136533921chr2:136437743ENST00000272638+1013315_393351509DomainUBX
HgeneUBXN4chr2:136505939chr2:136467003ENST00000272638+213414_43461509IntramembraneOntology_term=ECO:0000255
HgeneUBXN4chr2:136533921chr2:136437743ENST00000272638+1013414_434351509IntramembraneOntology_term=ECO:0000255
HgeneUBXN4chr2:136505939chr2:136467003ENST00000272638+2131_41361509Topological domainCytoplasmic
HgeneUBXN4chr2:136505939chr2:136467003ENST00000272638+213435_50861509Topological domainCytoplasmic
HgeneUBXN4chr2:136533921chr2:136437743ENST00000272638+10131_413351509Topological domainCytoplasmic
HgeneUBXN4chr2:136533921chr2:136437743ENST00000272638+1013435_508351509Topological domainCytoplasmic
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000264160+1926589_6087841100Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000264160+192689_947841100Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000329971+1623589_608655971Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000329971+162389_94655971Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000264160+1826589_6087341100Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000264160+182689_947341100Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000329971+1523589_608605971Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000329971+152389_94605971Compositional biasNote=Poly-Pro
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000264160+1926168_2317841100DomainR3H
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000264160+1926232_3027841100DomainSUZ
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000329971+1623168_231655971DomainR3H
TgeneR3HDM1chr2:136505939chr2:136467003ENST00000329971+1623232_302655971DomainSUZ
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000264160+1826168_2317341100DomainR3H
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000264160+1826232_3027341100DomainSUZ
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000329971+1523168_231605971DomainR3H
TgeneR3HDM1chr2:136533921chr2:136437743ENST00000329971+1523232_302605971DomainSUZ


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FusionGeneSequence for UBXN4_R3HDM1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for UBXN4_R3HDM1


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
UBXN4TOM1L1, VCP, ELAVL1, UBQLN1, SEL1L, CANX, AMFR, DERL1, DERL2, UBE4A, PSMA6, ACTA2, VPS13A, VPS13C, IP6K1, FBXO11, BCL11A, DPP8, NSFL1C, TCTN2, TCTN3, EVC2, TMEM17, TMEM216, TMEM67, PPP1R7, C1orf27, SLC27A4, UBXN6, TPTE, FGFR2R3HDM1ATXN1, YWHAB, EWSR1, XPO1, CCDC132, LITAF, WDYHV1, TRIM25


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with
HgeneUBXN4chr2:136533921chr2:136437743ENST00000272638+10131_200351509UBQLN1


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with
HgeneUBXN4chr2:136505939chr2:136467003ENST00000272638+2131_20061509UBQLN1


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for UBXN4_R3HDM1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for UBXN4_R3HDM1


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