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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: 39650

FusionGeneSummary for TRNAU1AP_PHACTR4

check button Fusion gene summary
Fusion gene informationFusion gene name: TRNAU1AP_PHACTR4
Fusion gene ID: 39650
HgeneTgene
Gene symbol

TRNAU1AP

PHACTR4

Gene ID

54952

65979

Gene nametRNA selenocysteine 1 associated protein 1phosphatase and actin regulator 4
SynonymsPRO1902|SECP43|TRSPAP1PPP1R124
Cytomap

1p35.3

1p35.3

Type of geneprotein-codingprotein-coding
DescriptiontRNA selenocysteine 1-associated protein 1tRNA selenocysteine associated protein (SECP43)tRNA selenocysteine-associated protein 1phosphatase and actin regulator 4protein phosphatase 1, regulatory subunit 124
Modification date2018051920180519
UniProtAcc

Q9NX07

Q8IZ21

Ensembl transtripts involved in fusion geneENST00000373830, ENST00000495995, 
ENST00000373839, ENST00000493669, 
ENST00000373836, 
Fusion gene scores* DoF score3 X 2 X 2=122 X 2 X 2=8
# samples 32
** MAII scorelog2(3/12*10)=1.32192809488736
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(2/8*10)=1.32192809488736
Context

PubMed: TRNAU1AP [Title/Abstract] AND PHACTR4 [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
TCGARVBRCATCGA-AO-A1KR-01ATRNAU1APchr1

28880249

+PHACTR4chr1

28800066

+
* 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
Frame-shitENST00000373830ENST00000373839TRNAU1APchr1

28880249

+PHACTR4chr1

28800066

+
5CDS-3UTRENST00000373830ENST00000493669TRNAU1APchr1

28880249

+PHACTR4chr1

28800066

+
5CDS-3UTRENST00000373830ENST00000373836TRNAU1APchr1

28880249

+PHACTR4chr1

28800066

+
3UTR-3CDSENST00000495995ENST00000373839TRNAU1APchr1

28880249

+PHACTR4chr1

28800066

+
3UTR-3UTRENST00000495995ENST00000493669TRNAU1APchr1

28880249

+PHACTR4chr1

28800066

+
3UTR-3UTRENST00000495995ENST00000373836TRNAU1APchr1

28880249

+PHACTR4chr1

28800066

+

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FusionProtFeatures for TRNAU1AP_PHACTR4


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
TRNAU1AP

Q9NX07

PHACTR4

Q8IZ21

Involved in the early steps of selenocysteinebiosynthesis and tRNA(Sec) charging to the later steps resultingin the cotranslational incorporation of selenocysteine intoselenoproteins. Stabilizes the SECISBP2, EEFSEC and tRNA(Sec)complex. May be involved in the methylation of tRNA(Sec). Enhancesefficiency of selenoproteins synthesis (By similarity).{ECO:0000250, ECO:0000269|PubMed:16508009}.

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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FusionGeneSequence for TRNAU1AP_PHACTR4


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 TRNAU1AP_PHACTR4


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
TRNAU1APCAND1, LMNB2, PRPF39, ZG16B, BRCA1PHACTR4CALM1, RAD21, ELAVL1, SH3KBP1, APP, PPP1CC, GRB2, SNRPD3, PPP1CA, RAB9B, NPHP1, SCLT1, TMEM17, LLGL2, UBE2I, TOMM40, CDH1, IFIT2, BCL7A, IFIT3, BCL7C, IFIT1, GAPDHS, TRIM25


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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RelatedDrugs for TRNAU1AP_PHACTR4


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 TRNAU1AP_PHACTR4


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