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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: 17042

FusionGeneSummary for IDS_SNHG3

check button Fusion gene summary
Fusion gene informationFusion gene name: IDS_SNHG3
Fusion gene ID: 17042
HgeneTgene
Gene symbol

IDS

SNHG3

Gene ID

3423

8420

Gene nameiduronate 2-sulfatasesmall nucleolar RNA host gene 3
SynonymsMPS2|SIDSNCRNA00014|RNU17C|RNU17D|U17HG|U17HG-A|U17HG-AB
Cytomap

Xq28

1p35.3

Type of geneprotein-codingncRNA
Descriptioniduronate 2-sulfatasealpha-L-iduronate sulfate sulfataseiduronate 2-sulfatase 14 kDa chainiduronate 2-sulfatase 42 kDa chainidursulfaseU17 small nucleolar RNA hostsmall nucleolar RNA host gene (non-protein coding) 3small nucleolar RNA host gene 3 (non-protein coding)
Modification date2018052320180519
UniProtAcc

P22304

Ensembl transtripts involved in fusion geneENST00000340855, ENST00000537071, 
ENST00000541269, ENST00000422081, 
ENST00000370441, ENST00000490775, 
ENST00000370443, ENST00000427113, 
ENST00000428056, 
ENST00000364938, 
Fusion gene scores* DoF score7 X 9 X 2=1262 X 2 X 1=4
# samples 92
** MAII scorelog2(9/126*10)=-0.485426827170242
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/4*10)=2.32192809488736
Context

PubMed: IDS [Title/Abstract] AND SNHG3 [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
ChiTaRS3.1BU622671IDSchrX

148560630

+SNHG3chr1

28835825

-
* 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
intron-intronENST00000340855ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000537071ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000541269ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000422081ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000370441ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000490775ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000370443ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000427113ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-
intron-intronENST00000428056ENST00000364938IDSchrX

148560630

+SNHG3chr1

28835825

-

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FusionProtFeatures for IDS_SNHG3


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

P22304

SNHG3

Required for the lysosomal degradation of heparansulfate and dermatan sulfate. Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}.

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 IDS_SNHG3


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 IDS_SNHG3


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


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 IDS_SNHG3


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 IDS_SNHG3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneIDSC0026705Mucopolysaccharidosis II28CTD_human;UNIPROT