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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: 35168

FusionGeneSummary for SNRNP200_NAALADL2

check button Fusion gene summary
Fusion gene informationFusion gene name: SNRNP200_NAALADL2
Fusion gene ID: 35168
HgeneTgene
Gene symbol

SNRNP200

NAALADL2

Gene ID

23020

254827

Gene namesmall nuclear ribonucleoprotein U5 subunit 200N-acetylated alpha-linked acidic dipeptidase like 2
SynonymsASCC3L1|BRR2|HELIC2|RP33|U5-200KD-
Cytomap

2q11.2

3q26.31

Type of geneprotein-codingprotein-coding
DescriptionU5 small nuclear ribonucleoprotein 200 kDa helicaseBRR2 homologU5 snRNP-specific 200 kDa proteinactivating signal cointegrator 1 complex subunit 3-like 1bad response to refrigeration 2 homologsmall nuclear ribonucleoprotein 200kDa (U5)small nuclear inactive N-acetylated-alpha-linked acidic dipeptidase-like protein 2N-acetylated alpha-linked acidic dipeptidase 2NAALADase L2glutamate carboxypeptidase II-type non-peptidase homologue
Modification date2018052320180519
UniProtAcc

O75643

Q58DX5

Ensembl transtripts involved in fusion geneENST00000323853, ENST00000349783, 
ENST00000454872, ENST00000473253, 
Fusion gene scores* DoF score4 X 6 X 2=4815 X 8 X 7=840
# samples 615
** MAII scorelog2(6/48*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(15/840*10)=-2.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SNRNP200 [Title/Abstract] AND NAALADL2 [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
HgeneSNRNP200

GO:0000398

mRNA splicing, via spliceosome

8670905


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
TCGALDPRADTCGA-EJ-5497-01ASNRNP200chr2

96971131

-NAALADL2chr3

175165017

+
* 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-shiftENST00000323853ENST00000454872SNRNP200chr2

96971131

-NAALADL2chr3

175165017

+
5CDS-3UTRENST00000323853ENST00000473253SNRNP200chr2

96971131

-NAALADL2chr3

175165017

+
Frame-shiftENST00000349783ENST00000454872SNRNP200chr2

96971131

-NAALADL2chr3

175165017

+
5CDS-3UTRENST00000349783ENST00000473253SNRNP200chr2

96971131

-NAALADL2chr3

175165017

+

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FusionProtFeatures for SNRNP200_NAALADL2


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SNRNP200

O75643

NAALADL2

Q58DX5

RNA helicase that plays an essential role in pre-mRNAsplicing as component of the U5 snRNP and U4/U6-U5 tri-snRNPcomplexes. Involved in spliceosome assembly, activation anddisassembly. Mediates changes in the dynamic network of RNA-RNAinteractions in the spliceosome. Catalyzes the ATP-dependentunwinding of U4/U6 RNA duplices, an essential step in the assemblyof a catalytically active spliceosome.{ECO:0000269|PubMed:16723661, ECO:0000269|PubMed:23045696,ECO:0000269|PubMed:8670905, ECO:0000269|PubMed:9539711}. May be catalytically inactive.

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 SNRNP200_NAALADL2


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 SNRNP200_NAALADL2


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
SNRNP200CD2BP2, SNRNP40, RNPS1, SNRPB, MCC, YWHAG, PRKAB1, MYC, RNU11, SMNDC1, USP39, MEPCE, TCEA1, APC, SRRM1, HDAC5, RBM39, TOP1, GRB2, IRAK1, IRAK2, TIRAP, MEGF10, SF3A2, CDC5L, SIRT7, HNRNPA1, ISG15, CUL3, CUL5, CUL2, COPS5, DCUN1D1, CAND1, CHMP1B, RNU4ATAC, RNU6ATAC, SART1, PRPF6, EFTUD2, SNRNP200, PRPF8, SNRPA1, SF3B3, SF3B1, HNRNPR, U2AF2, HNRNPC, HNRNPU, SRSF1, SNRPD1, SNRPD2, SNRPD3, SF3A1, SNRNP70, SNRPB2, YBX1, PABPC1, BCAS2, PRPF19, KIAA1429, TUBB, THOC6, CRNKL1, PDCD7, YEATS2, AAR2, UBR4, HUWE1, PSMC2, ZBTB10, USP9X, TOP2B, TUBA1B, CPT1A, BARD1, BRCA1, ECT2, EIF4A3, MAGOH, HSP90AA1, FN1, VCAM1, SF3B2, LSM8, RNF113A, RBM5, ITGA4, USP19, PRPF4B, FBXO6, TARDBP, PARK2, PIN1, KIAA1033, POLR2H, ELP3, TSC22D1, USP34, WDHD1, RPA1, RPA2, RPA3, WWOX, ERG, LGR4, STAU1, CDKN1A, EMD, PHF6, CUL7, OBSL1, CCDC8, UBE2I, EZH2, SUZ12, EED, RNF2, SIRT6, GCFC2, DDX23, TSSC4, EAPP, ZMYND11, HSPB1, NTRK1, BPTF, RANBP2, SF3A3, DHX15, LUC7L2, MED12, PRPF31, PRPF4, SNW1, TFAP4, XAB2, SNRPE, SRRM2, RNU12, BLM, SNCA, RAB4B, FERMT3, FOXG1, FOXK2, CRY2, FOXM1, FOXQ1, MCM2, MCM5, USP37, RC3H1, TTC27, C1orf131, C9orf78, DPF3, ZNF746, SNRPN, SNRPF, SNRPG, KIAA1143, ECD, GPR156, CDH5, USB1, PRPF3, GPBP1L1, ZBTB46, SMU1, RIOK1, NCL, ZNHIT2, RUVBL1, RUVBL2, SLC7A6OS, WDR92, MTF1NAALADL2CUL3, APP, GPR25, GRM2, SLC30A3, ITM2B, LAPTM4B, SCAP, KLC2, NAALAD2, KCTD17, IGSF3, ERBB2, KCNJ8, CELSR2, SCARB2, HLA-DRB1


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 SNRNP200_NAALADL2


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 SNRNP200_NAALADL2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSNRNP200C1835895RETINITIS PIGMENTOSA 33 (disorder)5CTD_human;UNIPROT