This gene is small nucleolar RNA host gene 10 and represents a non-protein coding RNA. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jan 2013] See more...

Aliases for SNHG10 Gene

Data sources for SNHG10 Gene:

Subcategory (RNA class) for SNHG10 Gene

lncRNA

Aliases for SNHG10 Gene

External Ids for SNHG10 Gene

Previous HGNC Symbols for SNHG10 Gene

  • C14orf62

Previous GeneCards Identifiers for SNHG10 Gene

  • GC14U900667
  • GC14M095073
  • GC14M096000
  • GC14M076184
  • GC14M096001
  • GC14M096003
  • GC14M096005

Summaries for SNHG10 Gene

Entrez Gene Summary for SNHG10 Gene

  • This gene is small nucleolar RNA host gene 10 and represents a non-protein coding RNA. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jan 2013]

GeneCards Summary for SNHG10 Gene

SNHG10 (Small Nucleolar RNA Host Gene 10) is an RNA Gene, and is affiliated with the lncRNA class.

Rfam classification for SNHG10 Gene

  • Small Cajal body specific RNA 13

Additional gene information for SNHG10 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for SNHG10 Gene

Genomics for SNHG10 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SNHG10 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
GH14J095530 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 269.3 +0.0 14 8.8 ZSCAN16 TBP SP1 CEBPA NR2C1 FOXA1 MNT IKZF1 SMAD5 ETS1 GLRX5 SNHG10 SCARNA13 SYNE3 PAPOLA DICER1 ENSG00000258572 TCL1B
GH14J095259 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 86.8 +271.7 271735 9.5 BCL11A MXD4 SP1 CEBPA DEK ZNF217 ELF1 ZIC2 HOMEZ THAP11 SNHG10 SCARNA13 DICER1 CLMN piR-36588-165 piR-38352-184
GH14J095290 Enhancer 1.2 FANTOM5 ENCODE dbSUPER 62 +243.2 243225 2.4 ZFP64 POLR2A ZIC2 ZNF513 ZNF521 ZNF639 ZNF148 RXRA ZNF132 KLF9 lnc-GLRX5-5 SNHG10 SCARNA13 CLMN C14orf132 DICER1 piR-36588-165
GH14J095155 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 28.8 +378.0 377988 3.8 ZSCAN16 CHD2 ZBTB10 SP1 FEZF1 NR2C1 MNT SMAD5 MBD2 ZNF217 DICER1 DICER1-AS1 lnc-DICER1-2 SCARNA13 SNHG10 MIR3173 GSC
GH14J096390 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE CraniofacialAtlas 26.6 -857.1 -857112 2.8 SP1 MNT SMAD5 POLR2A BHLHE40 ZEB1 ZIC2 SIN3A ZNF639 MAX AK7 lnc-ATG2B-11 PAPOLA SCARNA13 SNHG10 GSKIP
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNHG10 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the SNHG10 gene promoter:
  • E47
  • GR
  • GR-alpha
  • GR-beta
  • NF-kappaB1
  • Nkx2-5
  • Nkx5-1
  • Pax-5
  • POU2F1
  • POU2F1a

Genomic Locations for SNHG10 Gene

Latest Assembly
chr14:95,521,723-95,534,889
(GRCh38/hg38)
Size:
13,167 bases
Orientation:
Minus strand

Previous Assembly
chr14:95,999,249-96,001,209
(GRCh37/hg19 by Entrez Gene)
Size:
1,961 bases
Orientation:
Minus strand

chr14:95,998,634-96,001,209
(GRCh37/hg19 by Ensembl)
Size:
2,576 bases
Orientation:
Minus strand

Genomic View for SNHG10 Gene

Genes around SNHG10 on UCSC Golden Path with GeneCards custom track
SNHG10 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
SNHG10 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNHG10 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNHG10 Gene

Proteins for SNHG10 Gene

Post-translational modifications for SNHG10 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNHG10 Gene

Domains & Families for SNHG10 Gene

Gene Families for SNHG10 Gene

genes like me logo Genes that share domains with SNHG10: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SNHG10 Gene

Function for SNHG10 Gene

Phenotypes From GWAS Catalog for SNHG10 Gene

CRISPR products for research

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SNHG10 Gene

Localization for SNHG10 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 SNHG10 gene
Compartment Confidence
nucleus 1

Gene Ontology (GO) - Cellular Components for SNHG10 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus IEA --
GO:0015030 Cajal body IEA --
genes like me logo Genes that share ontologies with SNHG10: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for SNHG10 Gene

Pathways & Interactions for SNHG10 Gene

PathCards logo

SuperPathways for SNHG10 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SNHG10 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing IEA --
genes like me logo Genes that share ontologies with SNHG10: view

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for SNHG10 Gene

Drugs & Compounds for SNHG10 Gene

No Compound Related Data Available

Transcripts for SNHG10 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SNHG10 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS0000233496_9606 lncRNA 223 4

Ensembl: ENST00000555866 (view in UCSC) ,

LncBook: HSALNT0215208,

LNCipedia: SNHG10:8,

NONCODE: NONHSAT039456.2,

URS00000DBEFE_9606 lncRNA 1531 3

Ensembl: ENST00000500370 (view in UCSC) ,

LNCipedia: SNHG10:6,

NONCODE: NONHSAT039452.2,

URS000057CE5D_9606 lncRNA 981 3

Ensembl: ENST00000554169 (view in UCSC) ,

LncBook: HSALNT0215203,

LNCipedia: SNHG10:10,

URS000056C0CD_9606 lncRNA 428 3

Ensembl: ENST00000553559 (view in UCSC) ,

LncBook: HSALNT0215207,

LNCipedia: SNHG10:3,

URS0000EED965_9606 lncRNA 3019 1

Ensembl: ENST00000667310 (view in UCSC) ,

SNHG10 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for SNHG10 Gene

4 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for SNHG10 Gene

No ASD Table

Relevant External Links for SNHG10 Gene

GeneLoc Exon Structure for
SNHG10

Expression for SNHG10 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNHG10 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SNHG10

SOURCE GeneReport for Unigene cluster for SNHG10 Gene:

Hs.448753
genes like me logo Genes that share expression patterns with SNHG10: view

Primer products for research

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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNHG10 Gene

Orthologs for SNHG10 Gene

Evolution for SNHG10 Gene

ENSEMBL:
Gene Tree for SNHG10 (if available)
TreeFam:
Gene Tree for SNHG10 (if available)

No data available for Orthologs for SNHG10 Gene

Paralogs for SNHG10 Gene

No data available for Paralogs for SNHG10 Gene

Variants for SNHG10 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SNHG10 Gene

SNP ID Clinical significance and condition Chr 14 pos Variation AA Info Type
rs45582537 Likely Benign: not provided 95,534,813(-) T/A
NC_000014.9:g.95534813T>A
NON_CODING_TRANSCRIPT

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SNHG10 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SNHG10 Gene

Variant ID Type Subtype PubMed ID
dgv89e55 CNV gain 17911159
esv3635400 CNV gain 21293372
nsv1042858 CNV gain 25217958
nsv565631 CNV gain 21841781

Additional Variant Information for SNHG10 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNHG10

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNHG10 Gene

Disorders for SNHG10 Gene

Additional Disease Information for SNHG10

No disorders were found for SNHG10 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNHG10 Gene

Publications for SNHG10 Gene

  1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3
  2. LncRNA SNHG10 Facilitates Hepatocarcinogenesis and Metastasis by Modulating Its Homolog SCARNA13 via a Positive Feedback Loop. (PMID: 31101763) Lan T … Wu H (Cancer research 2019) 3
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3
  4. Normalization and subtraction: two approaches to facilitate gene discovery. (PMID: 8889548) Bonaldo MF … Soares MB (Genome research 1996) 3

Products for SNHG10 Gene

Sources for SNHG10 Gene