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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: 39652

FusionGeneSummary for TRNAU1AP_RCC1

check button Fusion gene summary
Fusion gene informationFusion gene name: TRNAU1AP_RCC1
Fusion gene ID: 39652
HgeneTgene
Gene symbol

TRNAU1AP

RCC1

Gene ID

54952

1104

Gene nametRNA selenocysteine 1 associated protein 1regulator of chromosome condensation 1
SynonymsPRO1902|SECP43|TRSPAP1CHC1|RCC1-I|SNHG3-RCC1
Cytomap

1p35.3

1p35.3

Type of geneprotein-codingprotein-coding
DescriptiontRNA selenocysteine 1-associated protein 1tRNA selenocysteine associated protein (SECP43)tRNA selenocysteine-associated protein 1regulator of chromosome condensationSNHG3-RCC1 readthroughcell cycle regulatory proteinguanine nucleotide-releasing protein
Modification date2018051920180522
UniProtAcc

Q9NX07

P18754

Ensembl transtripts involved in fusion geneENST00000373830, ENST00000495995, 
ENST00000398958, ENST00000373833, 
ENST00000373832, ENST00000373831, 
ENST00000429051, 
Fusion gene scores* DoF score3 X 2 X 2=125 X 5 X 5=125
# samples 36
** MAII scorelog2(3/12*10)=1.32192809488736
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(6/125*10)=-1.05889368905357
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TRNAU1AP [Title/Abstract] AND RCC1 [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
TgeneRCC1

GO:0007052

mitotic spindle organization

15014043

TgeneRCC1

GO:0007088

regulation of mitotic nuclear division

15014043

TgeneRCC1

GO:0051290

protein heterotetramerization

11336674


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-C8-A134-01ATRNAU1APchr1

28893925

+RCC1chr1

28861562

+
* 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-shiftENST00000373830ENST00000398958TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
Frame-shiftENST00000373830ENST00000373833TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
Frame-shiftENST00000373830ENST00000373832TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
Frame-shiftENST00000373830ENST00000373831TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
5CDS-3UTRENST00000373830ENST00000429051TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
intron-3CDSENST00000495995ENST00000398958TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
intron-3CDSENST00000495995ENST00000373833TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
intron-3CDSENST00000495995ENST00000373832TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
intron-3CDSENST00000495995ENST00000373831TRNAU1APchr1

28893925

+RCC1chr1

28861562

+
intron-3UTRENST00000495995ENST00000429051TRNAU1APchr1

28893925

+RCC1chr1

28861562

+

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FusionProtFeatures for TRNAU1AP_RCC1


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

Q9NX07

RCC1

P18754

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}. Guanine-nucleotide releasing factor that promotes theexchange of Ran-bound GDP by GTP, and thereby plays an importantrole in RAN-mediated functions in nuclear import and mitosis(PubMed:1944575, PubMed:17435751, PubMed:20668449,PubMed:22215983, PubMed:11336674). Contributes to the generationof high levels of chromosome-associated, GTP-bound RAN, which isimportant for mitotic spindle assembly and normal progress throughmitosis (PubMed:12194828, PubMed:17435751, PubMed:22215983). Viaits role in maintaining high levels of GTP-bound RAN in thenucleus, contributes to the release of cargo proteins fromimportins after nuclear import (PubMed:22215983). Involved in theregulation of onset of chromosome condensation in the S phase(PubMed:3678831). Binds both to the nucleosomes and double-stranded DNA (PubMed:17435751, PubMed:18762580).{ECO:0000269|PubMed:11336674, ECO:0000269|PubMed:12194828,ECO:0000269|PubMed:17435751, ECO:0000269|PubMed:18762580,ECO:0000269|PubMed:1944575, ECO:0000269|PubMed:20668449,ECO:0000269|PubMed:22215983, ECO:0000269|PubMed:3678831}.

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_RCC1


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_RCC1


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, BRCA1RCC1CSNK1A1, RAN, TAL1, KPNA3, RANBP3, XPO1, H2AFY, KPNA4, KPNB1, NTMT1, HIST1H3A, HIST2H2AC, HIST2H2BE, HIST1H4A, NUDT21, CHGB, SPRED1, USP4, TP53, CSAD, PKM, NGFR, DYNC1I1, PDHB, GNB2, SDF4, RPA1, FLAD1, DDAH2, APLP1, UNC119, HADHB, ZNF135, WIZ, TLE1, KMT2B, TRMT2A, ACTB, CCT7, BAG6, HOXD8, LRIF1, FAF1, TUBB3, CDK2AP2, HDGF, RANBP1, NCSTN, U2AF1, HNRNPM, SF3B6, RBM14, LUC7L3, ACIN1, HNRNPK, FN1, VCAM1, ITGA4, HMGA1, HDAC9, PTMA, ENO1, SHMT2, MOV10, NXF1, CUL7, OBSL1, SUZ12, RNF2, NUSAP1, RGPD3, RGPD8, RANBP2, RGPD5, RANGAP1, NAV1, DIS3, GLYR1, UBE2I, NUP153, NUP107, RBPJ, TEAD2, FOXA1, FOXB1, FOXE1, FOXH1, FOXI2, FOXP1, FOXQ1, OTUB1, PPM1G, DLGAP5, DNM1L, TRIM25, G3BP1


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_RCC1


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_RCC1


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