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Aliases for SNORD3A Gene

Subcategory (RNA class) for SNORD3A Gene


Quality Score for this RNA gene is


Aliases for SNORD3A Gene

  • Small Nucleolar RNA, C/D Box 3A 2 3 5
  • RNA, U3 Small Nucleolar 3
  • RNU3 3
  • U3 3

External Ids for SNORD3A Gene

ORGUL Members for SNORD3A Gene

Previous GeneCards Identifiers for SNORD3A Gene

  • GC17U900799
  • GC17P019032
  • GC17P019091

Summaries for SNORD3A Gene

Entrez Gene Summary for SNORD3A Gene

  • U3 RNA, an abundant small nucleolar RNA (snoRNA), is thought to play a role in the processing of ribosomal RNA precursors (Bernstein et al., 1983 [PubMed 6186397]).[supplied by OMIM, Jun 2009]

GeneCards Summary for SNORD3A Gene

SNORD3A (Small Nucleolar RNA, C/D Box 3A) is an RNA Gene, and is affiliated with the lncRNA class. Among its related pathways are Ribosome biogenesis in eukaryotes and RNA transport.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNORD3A Gene

Genomics for SNORD3A Gene

Regulatory Elements for SNORD3A Gene

Enhancers for SNORD3A Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH17F019188 0.4 ENCODE 0.8 +0.1 97 0.1 MTA2 KLF17 BMI1 POLR2H ZNF318 ZNF316 POLR2A NCOR1 TARDBP NBN GC17M019194 GC17P019191 SNORD3A SNORD3C
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SNORD3A on UCSC Golden Path with GeneCards custom track

Promoters for SNORD3A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001805724 1184 4001 MTA2 KLF17 BMI1 ZIC2 ZNF664 POLR2H ZNF318 ZNF316 NCOR1 POLR2A

Genomic Location for SNORD3A Gene

19,188,016 bp from pter
19,188,714 bp from pter
699 bases
Plus strand

Genomic View for SNORD3A Gene

Genes around SNORD3A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORD3A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORD3A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORD3A Gene

Proteins for SNORD3A Gene

Post-translational modifications for SNORD3A Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORD3A Gene

Domains & Families for SNORD3A Gene

Gene Families for SNORD3A Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORD3A: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORD3A Gene

Function for SNORD3A Gene

Animal Model Products

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 SNORD3A Gene

Localization for SNORD3A Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SNORD3A Gene

Pathways & Interactions for SNORD3A Gene

genes like me logo Genes that share pathways with SNORD3A: view

Pathways by source for SNORD3A Gene

2 KEGG pathways for SNORD3A Gene

Interacting Proteins for SNORD3A Gene

Gene Ontology (GO) - Biological Process for SNORD3A Gene


No data available for SIGNOR curated interactions for SNORD3A Gene

Transcripts for SNORD3A Gene

mRNA/cDNA for SNORD3A Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SNORD3A Gene

No ASD Table

Relevant External Links for SNORD3A Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SNORD3A Gene

mRNA expression in normal human tissues for SNORD3A Gene

mRNA differential expression in normal tissues according to GTEx for SNORD3A Gene

This gene is overexpressed in Testis (x4.5).

NURSA nuclear receptor signaling pathways regulating expression of SNORD3A Gene:

genes like me logo Genes that share expression patterns with SNORD3A: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for SNORD3A Gene

Orthologs for SNORD3A Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for SNORD3A Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia U3 35 35
  • 94 (a)
Species where no ortholog for SNORD3A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SNORD3A Gene

Gene Tree for SNORD3A (if available)
Gene Tree for SNORD3A (if available)

Paralogs for SNORD3A Gene

No data available for Paralogs for SNORD3A Gene

Variants for SNORD3A Gene

Sequence variations from dbSNP and Humsavar for SNORD3A Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1055344 -- 19,188,289(+) GTTTC(C/G/T)GGGCT downstream-variant-500B
rs111391809 -- 19,188,004(+) TGTGC(A/G)AGGAG upstream-variant-2KB
rs1133786 -- 19,188,139(+) GCTTT(C/T)TGGCG nc-transcript-variant
rs190586226 -- 19,188,121(+) CTCCT(A/C/G/T)AGCGT nc-transcript-variant
rs199499551 -- 19,187,831(+) AACAA(C/T)TTTTA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SNORD3A Gene

Variant ID Type Subtype PubMed ID
dgv3116n100 CNV gain 25217958
dgv5493n54 CNV loss 21841781
dgv5494n54 CNV loss 21841781
dgv895e212 CNV loss 25503493
esv25927 CNV gain+loss 19812545
esv2758678 CNV gain+loss 17122850
esv2763157 CNV loss 21179565
esv33572 CNV gain 17666407
esv3892975 CNV loss 25118596
nsv1061317 CNV gain 25217958
nsv2001 CNV deletion 18451855
nsv428336 CNV gain+loss 18775914
nsv574555 CNV loss 21841781
nsv7291 OTHER inversion 18451855
nsv833391 CNV loss 17160897
nsv833393 CNV gain+loss 17160897
nsv9504 CNV gain+loss 18304495

Relevant External Links for SNORD3A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNORD3A Gene

Disorders for SNORD3A Gene

No disorders were found for SNORD3A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for SNORD3A Gene

Publications for SNORD3A Gene

  1. Human genes encoding U3 snRNA associate with coiled bodies in interphase cells and are clustered on chromosome 17p11.2 in a complex inverted repeat structure. (PMID: 9365252) Gao L. … Matera A.G. (Nucleic Acids Res. 1997) 2 3 64
  2. Substrate specificity analysis and novel substrates of the protein lysine methyltransferase NSD1. (PMID: 24412544) Kudithipudi S. … Jeltsch A. (Chem. Biol. 2014) 3 64
  3. A weak C' box renders U3 snoRNA levels dependent on hU3-55K binding. (PMID: 21505065) Knox A.A. … Watkins N.J. (Mol. Cell. Biol. 2011) 3 64
  4. PHAX and CRM1 are required sequentially to transport U3 snoRNA to nucleoli. (PMID: 15574332) Boulon S. … Bertrand E. (Mol. Cell 2004) 3 64
  5. Assembly and maturation of the U3 snoRNP in the nucleoplasm in a large dynamic multiprotein complex. (PMID: 15574333) Watkins N.J. … Luehrmann R. (Mol. Cell 2004) 3 64

Products for SNORD3A Gene

Sources for SNORD3A Gene

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