Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SNHG4 Gene

Subcategory (RNA class) for SNHG4 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for SNHG4 Gene

  • Small Nucleolar RNA Host Gene 4 2 3 5
  • Small Nucleolar RNA Host Gene 4 (Non-Protein Coding) 2 3
  • Small Nucleolar RNA Host Gene (Non-Protein Coding) 4 3
  • Non-Protein Coding RNA 59 2
  • NCRNA00059 3
  • U19 Host 3
  • U19H 3

External Ids for SNHG4 Gene

Previous GeneCards Identifiers for SNHG4 Gene

  • GC05U900619
  • GC05P138610

Summaries for SNHG4 Gene

GeneCards Summary for SNHG4 Gene

SNHG4 (Small Nucleolar RNA Host Gene 4) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for SNHG4 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 SNHG4 Gene

Genomics for SNHG4 Gene

GeneHancer (GH) Regulatory Elements for SNHG4 Gene

Promoters and enhancers for SNHG4 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
GH05I139270 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE 550.8 +1.3 1295 8.2 HDGF HNRNPUL1 PKNOX1 CLOCK FOXA2 MLX ARID4B SIN3A FEZF1 DMAP1 MATR3 ENSG00000280987 SNHG4 SNORA74D KDM3B RPL7P19 SLC23A1 DNAJC18 ETF1 LOC105379194
GH05I139261 Enhancer 1.1 Ensembl ENCODE 0.4 -10.9 -10856 1.9 ARID4B SIN3A ZNF2 ETS1 ZNF766 ZNF213 ZNF207 ZNF143 ATF7 RUNX3 SLC23A1 ENSG00000280987 SNHG4 MATR3 SIL1 RNU6-572P GC05P138946
GH05I139281 Enhancer 0.7 ENCODE 0.4 +7.5 7505 0.2 ZSCAN5A PKNOX1 INSM2 ZNF384 ZNF2 BCL11B POLR2A ZNF600 ZNF280D ZNF362 PIR57006 ENSG00000280987 SNHG4 MATR3 SIL1 GC05P138946
GH05I139268 Enhancer 0.7 Ensembl 0.4 -5.1 -5051 0.2 SOX13 CTCF PYGO2 IRF4 RAD21 EGR1 SCRT2 IKZF2 CREM SCRT1 SLC23A1 ENSG00000280987 SNHG4 MATR3 SIL1 RNU6-572P GC05P138946
GH05I139245 Enhancer 0.9 Ensembl ENCODE 0.3 -27.3 -27258 1.1 ETV1 ZKSCAN1 FOSL1 ZNF335 ZFHX2 GLIS2 EGR1 VEZF1 EGR2 MAZ RNU6-572P ENSG00000280987 MATR3 SNHG4 SIL1 GC05P138946
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNHG4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SNHG4 gene promoter:

Genomic Locations for SNHG4 Gene

Genomic Locations for SNHG4 Gene
chr5:139,273,752-139,283,244
(GRCh38/hg38)
Size:
9,493 bases
Orientation:
Plus strand
chr5:138,609,441-138,618,873
(GRCh37/hg19)

Genomic View for SNHG4 Gene

Genes around SNHG4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNHG4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNHG4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNHG4 Gene

Proteins for SNHG4 Gene

Post-translational modifications for SNHG4 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNHG4 Gene

Domains & Families for SNHG4 Gene

Gene Families for SNHG4 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNHG4: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNHG4 Gene

Function for SNHG4 Gene

Animal Model 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 , miRNA , Transcription Factor Targets and HOMER Transcription for SNHG4 Gene

Localization for SNHG4 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for SNHG4 Gene

Pathways & Interactions for SNHG4 Gene

SuperPathways for SNHG4 Gene

No Data Available

Interacting Proteins for SNHG4 Gene

Gene Ontology (GO) - Biological Process for SNHG4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNHG4 Gene

Drugs & Compounds for SNHG4 Gene

No Compound Related Data Available

Transcripts for SNHG4 Gene

mRNA/cDNA for SNHG4 Gene

(8) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNHG4 Gene

No ASD Table

Relevant External Links for SNHG4 Gene

GeneLoc Exon Structure for
SNHG4
ECgene alternative splicing isoforms for
SNHG4

Expression for SNHG4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNHG4 Gene

NURSA nuclear receptor signaling pathways regulating expression of SNHG4 Gene:

SNHG4
genes like me logo Genes that share expression patterns with SNHG4: 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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNHG4 Gene

Orthologs for SNHG4 Gene

Evolution for SNHG4 Gene

ENSEMBL:
Gene Tree for SNHG4 (if available)
TreeFam:
Gene Tree for SNHG4 (if available)

No data available for Orthologs for SNHG4 Gene

Paralogs for SNHG4 Gene

No data available for Paralogs for SNHG4 Gene

Variants for SNHG4 Gene

Sequence variations from dbSNP and Humsavar for SNHG4 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs11242456 benign, Distal myopathy 139,273,920(+) C/G/T non_coding_transcript_variant
rs141402332 benign, Distal myopathy 139,279,060(+) C/T non_coding_transcript_variant
rs765907489 likely-benign, Distal myopathy 139,273,887(+) A/G non_coding_transcript_variant
rs773123084 likely-benign, Distal myopathy 139,273,746(+) G/A upstream_transcript_variant
rs779721416 uncertain-significance, Distal myopathy 139,273,881(+) C/T non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SNHG4 Gene

Variant ID Type Subtype PubMed ID
esv3606937 CNV loss 21293372

Additional Variant Information for SNHG4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNHG4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNHG4 Gene

Disorders for SNHG4 Gene

Additional Disease Information for SNHG4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SNHG4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNHG4 Gene

Publications for SNHG4 Gene

  1. Integrated genomic analysis implicates haploinsufficiency of multiple chromosome 5q31.2 genes in de novo myelodysplastic syndromes pathogenesis. (PMID: 19240791) Graubert TA … Walter MJ (PloS one 2009) 3 44 58
  2. Human U19 intron-encoded snoRNA is processed from a long primary transcript that possesses little potential for protein coding. (PMID: 9630250) Bortolin ML … Kiss T (RNA (New York, N.Y.) 1998) 2 3 58
  3. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A … Hentze MW (Cell 2012) 3 58
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 58
  5. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PMID: 15146197) Brandenberger R … Stanton LW (Nature biotechnology 2004) 3 58

Products for SNHG4 Gene

Sources for SNHG4 Gene

Content
Loading form....