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SNHG1 Gene(RNA Gene)

Small Nucleolar RNA Host Gene 1

GCID:
GC11M062903
GIFtS:
19
Genes Participants
UDN Logo

Aliases for SNHG1 Gene

Subcategory (RNA class) for SNHG1 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for SNHG1 Gene

  • Small Nucleolar RNA Host Gene 1 2 3 5
  • Small Nucleolar RNA Host Gene 1 (Non-Protein Coding) 2 3
  • Long Intergenic Non-Protein Coding RNA 57 2 3
  • Non-Protein Coding RNA 57 2
  • U22 SnoRNA Host Gene 2
  • U22 SnoRNA Host 3
  • NCRNA00057 3
  • LINC00057 3
  • LncRNA16 3
  • U22HG 3
  • UHG 3

External Ids for SNHG1 Gene

Previous GeneCards Identifiers for SNHG1 Gene

  • GC11U900889
  • GC11M062409
  • GC11M062419
  • GC11M062428
  • GC11M062619
  • GC11M062852
  • GC11M062862
  • GC11M062863
  • GC11M062869
  • GC11M062877
  • GC11M062887
  • GC11M062895

Summaries for SNHG1 Gene

Entrez Gene Summary for SNHG1 Gene

  • This locus represents a small nucleolar RNA host gene that produces multiple alternatively spliced long non-coding RNAs. This gene is upregulated in cancers and is thought to act as promoter of cell proliferation. This transcript negatively regulates tumor suppressor genes such as tumor protein p53. Expression of this locus may be a marker of tumor progression. [provided by RefSeq, Dec 2017]

GeneCards Summary for SNHG1 Gene

SNHG1 (Small Nucleolar RNA Host Gene 1) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for SNHG1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNHG1 Gene

Genomics for SNHG1 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for SNHG1 Gene

Promoters and enhancers for SNHG1 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH11I062852 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 631.7 +0.1 77 5.9 MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 SNHG1 SLC3A2 ENSG00000278527 GC11M062919 GC11M062920 GC11M062923 GC11M062930 SNORD25 SNORD26 SNORD27
GH11I062838 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 90.2 +15.1 15068 4.8 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 WDR74 GC11M062842 RNU2-2P NXF1 CSKMT INTS5 UBXN1 MTA2 SNHG1 GANAB
GH11I062041 Enhancer 1.3 ENCODE dbSUPER 78.6 +810.5 810486 8.1 PKNOX1 SMAD1 ARNT ZFP64 FEZF1 ZNF766 ZNF213 E2F8 FOS SP3 CSKMT CPSF7 SNHG1 GANAB NXF1 LOC105369332 TMEM138 TUT1 MTA2 INTS5
GH11I062664 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 45.7 +189.9 189872 4.1 HDGF HNRNPUL1 SMAD1 MLX ZFP64 ARID4B SIN3A DMAP1 YBX1 YY1 CSKMT GC11P062669 SNORA57 ENSG00000255432 C11orf98 EML3 SNHG1 NXF1 MTA2 GANAB
GH11I062878 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 37.7 -25.9 -25919 5.9 HDGF PKNOX1 CLOCK SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SLC3A2 SNHG1 TAF6L GANAB NXF1 CSKMT EML3 STX5 INTS5 MTA2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNHG1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SNHG1 gene promoter:

Genomic Locations for SNHG1 Gene

Genomic Locations for SNHG1 Gene
chr11:62,851,988-62,855,914
(GRCh38/hg38)
Size:
3,927 bases
Orientation:
Minus strand
chr11:62,619,460-62,623,386
(GRCh37/hg19)

Genomic View for SNHG1 Gene

Genes around SNHG1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNHG1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNHG1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SNHG1 Gene

Proteins for SNHG1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for SNHG1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNHG1 Gene

Domains & Families for SNHG1 Gene

Gene Families for SNHG1 Gene

HGNC:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNHG1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNHG1 Gene

Function for SNHG1 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Phenotypes From GWAS Catalog for SNHG1 Gene

Animal Model Products

miRNA for SNHG1 Gene

miRTarBase miRNAs that target SNHG1

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNHG1 Gene

Localization for SNHG1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SNHG1 gene
Compartment Confidence
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for SNHG1 Gene

Pathways & Interactions for SNHG1 Gene

SuperPathways for SNHG1 Gene

PathCards logo More details on SuperPathways for SNHG1
No Data Available

Interacting Proteins for SNHG1 Gene

Gene Ontology (GO) - Biological Process for SNHG1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNHG1 Gene

Drugs & Compounds for SNHG1 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SNHG1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for SNHG1 Gene

(1) Additional mRNA sequences :
(25) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SNHG1 Gene

Small nucleolar RNA host gene 1 (non-protein coding):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNHG1 Gene

No ASD Table

Relevant External Links for SNHG1 Gene

GeneLoc Exon Structure for
SNHG1
ECgene alternative splicing isoforms for
SNHG1

Expression for SNHG1 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNHG1 Gene

mRNA expression in normal human tissues for SNHG1 Gene
mRNA expression by GTEx for SNHG1 Gene

NURSA nuclear receptor signaling pathways regulating expression of SNHG1 Gene:

SNHG1

SOURCE GeneReport for Unigene cluster for SNHG1 Gene:

Hs.655643

Evidence on tissue expression from TISSUES for SNHG1 Gene

  • Urine(2.6)
genes like me logo Genes that share expression patterns with SNHG1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNHG1 Gene

Orthologs for SNHG1 Gene

Evolution for SNHG1 Gene

ENSEMBL:
Gene Tree for SNHG1 (if available)
TreeFam:
Gene Tree for SNHG1 (if available)

No data available for Orthologs for SNHG1 Gene

Paralogs for SNHG1 Gene

No data available for Paralogs for SNHG1 Gene

Variants for SNHG1 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for SNHG1 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000055291 -- 62,855,272(-) T/G intron_variant
rs1000661059 -- 62,855,896(-) C/T upstream_transcript_variant
rs1000988950 -- 62,855,843(-) T/C intron_variant
rs1001419761 -- 62,855,320(-) T/C intron_variant
rs1002424048 -- 62,855,938(-) A/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SNHG1 Gene

Variant ID Type Subtype PubMed ID
nsv1159903 CNV duplication 26073780
nsv508636 CNV deletion 20534489
nsv509416 CNV insertion 20534489

Additional Variant Information for SNHG1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNHG1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNHG1 Gene

Disorders for SNHG1 Gene

Additional Disease Information for SNHG1

ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SNHG1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNHG1 Gene

Publications for SNHG1 Gene

  1. LncRNA16 is a potential biomarker for diagnosis of early-stage lung cancer that promotes cell proliferation by regulating the cell cycle. (PMID: 27999202) Zhu H … Wu N (Oncotarget 2017) 2 3 58
  2. The Use of Three Long Non-Coding RNAs as Potential Prognostic Indicators of Astrocytoma. (PMID: 26252651) Zhi F … Yang Y (PloS one 2015) 2 3 58
  3. Analysis of long non-coding RNA expression profiles in gastric cancer. (PMID: 23801869) Cao WJ … Zhang ZY (World journal of gastroenterology 2013) 2 3 58
  4. A mammalian gene with introns instead of exons generating stable RNA products. (PMID: 8559254) Tycowski KT … Steitz JA (Nature 1996) 2 3 58
  5. Up-regulated lnc-SNHG1 contributes to osteosarcoma progression through sequestration of miR-577 and activation of WNT2B/Wnt/β-catenin pathway. (PMID: 29108989) Jiang Z … Fang J (Biochemical and biophysical research communications 2018) 3 58

Products for SNHG1 Gene

Sources for SNHG1 Gene

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