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SNHG16 Gene(RNA Gene)

Small Nucleolar RNA Host Gene 16

GCID:
GC17P076559
GIFtS:
17
Genes Participants
UDN Logo

Aliases for SNHG16 Gene

Subcategory (RNA class) for SNHG16 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for SNHG16 Gene

  • Small Nucleolar RNA Host Gene 16 2 3 5
  • Small Nucleolar RNA Host Gene 16 (Non-Protein Coding) 2 3
  • Non-Coding RNA Expressed In Aggressive Neuroblastoma 2 3
  • Nbla10727 3
  • Nbla12061 3
  • NcRAN 3

External Ids for SNHG16 Gene

Previous GeneCards Identifiers for SNHG16 Gene

  • GC17P074570
  • GC17P074578
  • GC17P074592
  • GC17P074604

Summaries for SNHG16 Gene

GeneCards Summary for SNHG16 Gene

SNHG16 (Small Nucleolar RNA Host Gene 16) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with SNHG16 include Neuroblastoma and Cervical Cancer.

Additional gene information for SNHG16 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNHG16 Gene

Genomics for SNHG16 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for SNHG16 Gene

Promoters and enhancers for SNHG16 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
GH17J076555 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE 683 +1.7 1694 8.1 CLOCK ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF143 SP3 NFYC ZNF610 SNHG16 ENSG00000267546 PIR59539 GC17P076607 CYGB SNORD1C SNORD1B PIR56918 GC17P076624 GC17P076621
GH17J075665 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 15 -890.4 -890446 3.1 PKNOX1 SMAD1 ARID4B NEUROD1 SIN3A DMAP1 ZNF2 ZBTB7B YY1 POLR2B RECQL5 SAP30BP SNHG16 ENSG00000266980 NUP85 MIF4GD SLC25A19 ENSG00000267078 SPHK1 ST6GALNAC2
GH17J076542 Enhancer 1.4 Ensembl ENCODE dbSUPER 22.1 -12.7 -12699 5.9 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A YBX1 ZNF2 POLR2B ZNF207 UNK SRSF2 ENSG00000267342 ENSG00000267543 ENSG00000266980 METTL23 ENSG00000267546 SEPT9 TRIM65 SNHG16
GH17J075894 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 15 -661.2 -661239 3.3 HDGF CLOCK ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF213 TRIM65 ENSG00000267342 FBF1 SNHG16 MIF4GD ENSG00000267078 SPHK1 ST6GALNAC2 TRIM47
GH17J076669 Promoter/Enhancer 1.8 Ensembl ENCODE dbSUPER 15.1 +114.5 114485 4.6 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 ZNF143 GC17M076671 LOC105274304 UNK SRSF2 METTL23 ENSG00000267342 ENSG00000266980 MXRA7 MFSD11 SRP68
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNHG16 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SNHG16 Gene

Genomic Locations for SNHG16 Gene
chr17:76,557,764-76,565,348
(GRCh38/hg38)
Size:
7,585 bases
Orientation:
Plus strand
chr17:74,553,846-74,561,430
(GRCh37/hg19)
Size:
7,585 bases
Orientation:
Plus strand

Genomic View for SNHG16 Gene

Genes around SNHG16 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNHG16 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNHG16 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SNHG16 Gene

Proteins for SNHG16 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for SNHG16 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNHG16 Gene

Domains & Families for SNHG16 Gene

Gene Families for SNHG16 Gene

HGNC:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNHG16: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNHG16 Gene

Function for SNHG16 Gene

Products:

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

Animal Model Products

miRNA for SNHG16 Gene

miRTarBase miRNAs that target SNHG16

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNHG16 Gene

Localization for SNHG16 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 SNHG16 gene
Compartment Confidence
extracellular 3
nucleus 1
cytosol 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 SNHG16 Gene

Pathways & Interactions for SNHG16 Gene

SuperPathways for SNHG16 Gene

PathCards logo More details on SuperPathways for SNHG16
No Data Available

Interacting Proteins for SNHG16 Gene

Gene Ontology (GO) - Biological Process for SNHG16 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNHG16 Gene

Drugs & Compounds for SNHG16 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SNHG16 Gene

Products:

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

mRNA/cDNA for SNHG16 Gene

(18) Additional mRNA sequences :
(8) Ensembl transcripts including schematic representations, and UCSC links where relevant :
(11) RNA Central transcripts :

Unigene Clusters for SNHG16 Gene

Small nucleolar RNA host gene 16 (non-protein coding):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNHG16 Gene

No ASD Table

Relevant External Links for SNHG16 Gene

GeneLoc Exon Structure for
SNHG16
ECgene alternative splicing isoforms for
SNHG16

Expression for SNHG16 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNHG16 Gene

mRNA expression in normal human tissues for SNHG16 Gene
mRNA expression by GTEx for SNHG16 Gene

NURSA nuclear receptor signaling pathways regulating expression of SNHG16 Gene:

SNHG16

SOURCE GeneReport for Unigene cluster for SNHG16 Gene:

Hs.288215

Evidence on tissue expression from TISSUES for SNHG16 Gene

  • Nervous system(3.8)
  • Skin(3.7)
  • Eye(2.8)
  • Lung(2.8)
  • Liver(2)
genes like me logo Genes that share expression patterns with SNHG16: 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 SNHG16 Gene

Orthologs for SNHG16 Gene

Evolution for SNHG16 Gene

ENSEMBL:
Gene Tree for SNHG16 (if available)
TreeFam:
Gene Tree for SNHG16 (if available)

No data available for Orthologs for SNHG16 Gene

Paralogs for SNHG16 Gene

No data available for Paralogs for SNHG16 Gene

Variants for SNHG16 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for SNHG16 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000971841 -- 76,563,333(+) C/G non_coding_transcript_variant
rs1001121602 -- 76,561,191(+) A/T intron_variant
rs1001154963 -- 76,557,980(+) A/C intron_variant
rs1001250913 -- 76,557,140(+) G/C upstream_transcript_variant
rs1001375879 -- 76,562,189(+) A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SNHG16 Gene

Variant ID Type Subtype PubMed ID
esv3641290 CNV gain 21293372
esv3641291 CNV gain 21293372
nsv828107 CNV loss 20364138

Additional Variant Information for SNHG16 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNHG16

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNHG16 Gene

Disorders for SNHG16 Gene

MalaCards: The human disease database

(9) MalaCards diseases for SNHG16 Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
neuroblastoma
  • neuroblastoma, susceptibility to
cervical cancer
  • cervical cancer, somatic
esophageal cancer
  • esophageal cancer, somatic
bladder cancer
  • bladder cancer, somatic
ovarian cancer
  • ovarian cancer, somatic
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SNHG16

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with SNHG16: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNHG16 Gene

Publications for SNHG16 Gene

  1. Down-regulation of ncRAN, a long non-coding RNA, contributes to colorectal cancer cell migration and invasion and predicts poor overall survival for colorectal cancer patients. (PMID: 24519959) Qi P … Du X (Molecular carcinogenesis 2015) 2 3 58
  2. ncRAN, a newly identified long noncoding RNA, enhances human bladder tumor growth, invasion, and survival. (PMID: 21147498) Zhu Y … Li Z (Urology 2011) 2 3 58
  3. High expression of ncRAN, a novel non-coding RNA mapped to chromosome 17q25.1, is associated with poor prognosis in neuroblastoma. (PMID: 19287950) Yu M … Nakagawara A (International journal of oncology 2009) 2 3 58
  4. SNHG16/miR-216-5p/ZEB1 signal pathway contributes to the tumorigenesis of cervical cancer cells. (PMID: 29126969) Zhu H … Ye W (Archives of biochemistry and biophysics 2018) 3 58
  5. LncRNA SNHG16 Functions as an Oncogene by Sponging MiR-4518 and Up-Regulating PRMT5 Expression in Glioma. (PMID: 29529599) Lu YF … Chen JB (Cellular physiology and biochemistry : international journal of experimental cellular physiology, biochemistry, and pharmacology 2018) 3 58

Products for SNHG16 Gene

Sources for SNHG16 Gene

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