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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: 25090

FusionGeneSummary for NUDT19_LSM14A

check button Fusion gene summary
Fusion gene informationFusion gene name: NUDT19_LSM14A
Fusion gene ID: 25090
HgeneTgene
Gene symbol

NUDT19

LSM14A

Gene ID

390916

26065

Gene namenudix hydrolase 19LSM14A, mRNA processing body assembly factor
SynonymsRP2C19orf13|FAM61A|RAP55|RAP55A
Cytomap

19q13.11

19q13.11

Type of geneprotein-codingprotein-coding
Descriptionnucleoside diphosphate-linked moiety X motif 19CTC-379B2.4nucleoside diphosphate-linked moiety X motif 19, mitochondrialnudix (nucleoside diphosphate linked moiety X)-type motif 19nudix motif 19protein LSM14 homolog ALSM14 homolog ALSM14A, SCD6 homolog ARNA-associated protein 55RNA-associated protein 55AalphaSNBPfamily with sequence similarity 61, member AhRAP55hRAP55Aprotein SCD6 homologputative alpha-synuclein-binding protein
Modification date2018052220180519
UniProtAcc

A8MXV4

Q8ND56

Ensembl transtripts involved in fusion geneENST00000397061, ENST00000540746, 
ENST00000544216, ENST00000433627, 
Fusion gene scores* DoF score4 X 2 X 3=248 X 7 X 6=336
# samples 48
** MAII scorelog2(4/24*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(8/336*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NUDT19 [Title/Abstract] AND LSM14A [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
TgeneLSM14A

GO:0033962

cytoplasmic mRNA processing body assembly

16484376


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
TCGALDOVTCGA-61-1918-01ANUDT19chr19

33183580

+LSM14Achr19

34685383

+
* 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-shiftENST00000397061ENST00000540746NUDT19chr19

33183580

+LSM14Achr19

34685383

+
Frame-shiftENST00000397061ENST00000544216NUDT19chr19

33183580

+LSM14Achr19

34685383

+
Frame-shiftENST00000397061ENST00000433627NUDT19chr19

33183580

+LSM14Achr19

34685383

+

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FusionProtFeatures for NUDT19_LSM14A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
NUDT19

A8MXV4

LSM14A

Q8ND56

Coenzyme A diphosphatase that mediates the hydrolysis ofa wide range of CoA esters, including choloyl-CoA and branched-chain fatty-acyl-CoA esters. At low substrate concentrationsmedium and long-chain fatty-acyl-CoA esters are the primarysubstrates (By similarity). {ECO:0000250}. Essential for formation of P-bodies, cytoplasmicstructures that provide storage sites for non-translating mRNAs.{ECO:0000269|PubMed:16484376, ECO:0000269|PubMed:17074753}.

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 NUDT19_LSM14A


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 NUDT19_LSM14A


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
NUDT19SLC9A3R2, NPC2, PEX5, SLC25A41, OXLD1, CEP19, WBSCR16, NDUFAF4, HSPD1, BPNT1, YBEY, NIT1, DEFA5, ACSM5LSM14AELAVL1, RAE1, HNRNPDL, SYNCRIP, CIRBP, HNRNPH1, DDX1, HNRNPU, HNRNPL, CSNK2A1, HECW2, TP53, PRMT8, NTRK1, XPO1, AHSA1, SORT1, EGFR, SFPQ, STRAP, 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 NUDT19_LSM14A


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 NUDT19_LSM14A


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