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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: 35123

FusionGeneSummary for SNHG1_LDB3

check button Fusion gene summary
Fusion gene informationFusion gene name: SNHG1_LDB3
Fusion gene ID: 35123
HgeneTgene
Gene symbol

SNHG1

LDB3

Gene ID

23642

11155

Gene namesmall nucleolar RNA host gene 1LIM domain binding 3
SynonymsLINC00057|NCRNA00057|U22HG|UHG|lncRNA16CMD1C|CMH24|CMPD3|CYPHER|LDB3Z1|LDB3Z4|LVNC3|MFM4|ORACLE|PDLIM6|ZASP
Cytomap

11q12.3

10q23.2

Type of genencRNAprotein-coding
DescriptionU22 snoRNA hostlong intergenic non-protein coding RNA 57small nucleolar RNA host gene 1 (non-protein coding)LIM domain-binding protein 3PDZ and LIM domain 6Z-band alternatively spliced PDZ-motif proteincardiomyopathy, dilated 1C (autosomal dominant)protein cypher
Modification date2018051920180519
UniProtAcc

O75112

Ensembl transtripts involved in fusion geneENST00000384756, ENST00000364799, 
ENST00000384693, ENST00000383926, 
ENST00000516331, ENST00000384706, 
ENST00000363981, ENST00000384147, 
ENST00000365607, 		ENST00000429277, 
ENST00000352360, ENST00000458213, 
ENST00000263066, ENST00000361373, 
ENST00000372066, ENST00000372056, 
ENST00000310944, ENST00000542786, 
Fusion gene scores* DoF score13 X 10 X 1=1303 X 3 X 1=9
# samples 134
** MAII scorelog2(13/130*10)=0log2(4/9*10)=2.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: SNHG1 [Title/Abstract] AND LDB3 [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
ChiTaRS3.1DB214565SNHG1chr11

62622485

-LDB3chr10

88428264

+
* 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-5UTRENST00000384756ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384756ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384756ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384756ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384756ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384756ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384756ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384756ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384756ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000364799ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000364799ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000364799ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000364799ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000364799ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000364799ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000364799ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000364799ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000364799ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384693ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384693ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384693ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384693ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384693ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384693ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384693ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384693ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384693ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000383926ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000383926ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000383926ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000383926ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000383926ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000383926ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000383926ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000383926ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000383926ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000516331ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000516331ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000516331ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000516331ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000516331ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000516331ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000516331ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000516331ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000516331ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384706ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384706ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384706ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384706ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384706ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384706ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384706ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384706ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384706ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-5UTRENST00000363981ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-5UTRENST00000363981ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-5UTRENST00000363981ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-intronENST00000363981ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-intronENST00000363981ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-intronENST00000363981ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-intronENST00000363981ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-intronENST00000363981ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
5CDS-intronENST00000363981ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384147ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384147ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000384147ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384147ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384147ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384147ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384147ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384147ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000384147ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000365607ENST00000429277SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000365607ENST00000352360SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-5UTRENST00000365607ENST00000458213SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000365607ENST00000263066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000365607ENST00000361373SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000365607ENST00000372066SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000365607ENST00000372056SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000365607ENST00000310944SNHG1chr11

62622485

-LDB3chr10

88428264

+
intron-intronENST00000365607ENST00000542786SNHG1chr11

62622485

-LDB3chr10

88428264

+

Top

FusionProtFeatures for SNHG1_LDB3


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

LDB3

O75112

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


Top

FusionGeneSequence for SNHG1_LDB3


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).

Top

FusionGenePPI for SNHG1_LDB3


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


Top

RelatedDrugs for SNHG1_LDB3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

RelatedDiseases for SNHG1_LDB3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneLDB3C1832244CARDIOMYOPATHY, DILATED, 1C (disorder)2CTD_human;UNIPROT