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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: 35119

FusionGeneSummary for SNHG1_GDI1

check button Fusion gene summary
Fusion gene informationFusion gene name: SNHG1_GDI1
Fusion gene ID: 35119
HgeneTgene
Gene symbol

SNHG1

GDI1

Gene ID

23642

2664

Gene namesmall nucleolar RNA host gene 1GDP dissociation inhibitor 1
SynonymsLINC00057|NCRNA00057|U22HG|UHG|lncRNA161A|GDIL|MRX41|MRX48|OPHN2|RABGD1A|RABGDIA|XAP-4
Cytomap

11q12.3

Xq28

Type of genencRNAprotein-coding
DescriptionU22 snoRNA hostlong intergenic non-protein coding RNA 57small nucleolar RNA host gene 1 (non-protein coding)rab GDP dissociation inhibitor alphaGDI-1guanosine diphosphate dissociation inhibitor 1mental retardation, X-linked 48oligophrenin-2protein XAP-4rab GDI alpharab GDP-dissociation inhibitor, alphatestis secretory sperm-binding protein Li 208a
Modification date2018051920180519
UniProtAcc

P31150

Ensembl transtripts involved in fusion geneENST00000384756, ENST00000364799, 
ENST00000384693, ENST00000383926, 
ENST00000516331, ENST00000384706, 
ENST00000363981, ENST00000384147, 
ENST00000365607, 
ENST00000447750, 
ENST00000465640, 
Fusion gene scores* DoF score13 X 10 X 1=1304 X 4 X 1=16
# samples 134
** MAII scorelog2(13/130*10)=0log2(4/16*10)=1.32192809488736
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: SNHG1 [Title/Abstract] AND GDI1 [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
ChiTaRS3.1DA285383SNHG1chr11

62621378

-GDI1chrX

153665511

+
* 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-5UTRENST00000384756ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000384756ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-5UTRENST00000364799ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000364799ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-5UTRENST00000384693ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000384693ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
5CDS-5UTRENST00000383926ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
5CDS-intronENST00000383926ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-5UTRENST00000516331ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000516331ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-5UTRENST00000384706ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000384706ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-5UTRENST00000363981ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000363981ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-5UTRENST00000384147ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000384147ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-5UTRENST00000365607ENST00000447750SNHG1chr11

62621378

-GDI1chrX

153665511

+
intron-intronENST00000365607ENST00000465640SNHG1chr11

62621378

-GDI1chrX

153665511

+

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FusionProtFeatures for SNHG1_GDI1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SNHG1

GDI1

P31150

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}. Regulates the GDP/GTP exchange reaction of most Rabproteins by inhibiting the dissociation of GDP from them, and thesubsequent binding of GTP to them. Promotes the dissociation ofGDP-bound Rab proteins from the membrane and inhibits theiractivation. Promotes the dissociation of RAB1A, RAB3A, RAB5A andRAB10 from membranes. {ECO:0000269|PubMed:23815289}.

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 SNHG1_GDI1


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 SNHG1_GDI1


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 SNHG1_GDI1


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 SNHG1_GDI1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneGDI1C1136249Mental Retardation, X-Linked2CTD_human
TgeneGDI1C3887939MENTAL RETARDATION, X-LINKED 412UNIPROT
TgeneGDI1C1862939AMYOTROPHIC LATERAL SCLEROSIS 11CTD_human