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Aliases for SNORD3D Gene

Subcategory (RNA class) for SNORD3D Gene


Quality Score for this RNA gene is


Aliases for SNORD3D Gene

  • Small Nucleolar RNA, C/D Box 3D 2 3 5
  • U3 Small Nucleolar RNA D 2 3
  • U3 SnoRNA D 2 3
  • RNU3-4 3
  • U3-4 3

External Ids for SNORD3D Gene

ORGUL Members for SNORD3D Gene

Previous GeneCards Identifiers for SNORD3D Gene

  • GC17U900824
  • GC17M018959
  • GC17M019015

Summaries for SNORD3D Gene

GeneCards Summary for SNORD3D Gene

SNORD3D (Small Nucleolar RNA, C/D Box 3D) is an RNA Gene, and is affiliated with the snoRNA class.

Additional gene information for SNORD3D 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 SNORD3D Gene

Genomics for SNORD3D Gene

GeneHancer (GH) Regulatory Elements for SNORD3D Gene

Promoters and enhancers for SNORD3D Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J019110 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 650.7 +0.7 735 2.6 HNRNPUL1 PKNOX1 SMAD1 ARNT ZNF121 POLR2B GLIS2 ZFP91 ATF7 SNIP1 ENSG00000262202 SNORD3D GC17M019113 EPN2 MAPK7 SMCR8 FOXO3B AKAP10 TOP3A LOC102724624
GH17J019109 Enhancer 0.4 Ensembl dbSUPER 0.7 +2.9 2935 0.2 GC17M019113 SNORD3D ENSG00000262202 GC17P019094
GH17J019125 Enhancer 0.4 Ensembl dbSUPER 0.4 -13.1 -13065 0.2 GRAPL ENSG00000262202 SNORD3D GC17M019113
GH17J019120 Enhancer 0.2 dbSUPER 0.4 -8.6 -8593 1.5 LOC102724624 ENSG00000262202 SNORD3D GC17M019113 GRAPL
GH17J019105 Enhancer 0.2 dbSUPER 0.4 +7.0 7014 0.7 ENSG00000262202 SNORD3D GC17M019113 GC17P019094
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNORD3D on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SNORD3D gene promoter:
  • HTF
  • AREB6
  • Sox9
  • GATA-1
  • SRY
  • Bach1
  • SREBP-1c
  • SREBP-1b
  • SREBP-1a

Genomic Locations for SNORD3D Gene

Genomic Locations for SNORD3D Gene
217 bases
Minus strand
637 bases
Minus strand

Genomic View for SNORD3D Gene

Genes around SNORD3D on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORD3D Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORD3D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORD3D Gene

Proteins for SNORD3D Gene

Post-translational modifications for SNORD3D Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORD3D Gene

Domains & Families for SNORD3D Gene

Gene Families for SNORD3D Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORD3D: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORD3D Gene

Function for SNORD3D Gene

Animal Model Products

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 , miRNA , Transcription Factor Targets and HOMER Transcription for SNORD3D Gene

Localization for SNORD3D 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 SNORD3D Gene

Pathways & Interactions for SNORD3D Gene

SuperPathways for SNORD3D Gene

No Data Available

Interacting Proteins for SNORD3D Gene

Gene Ontology (GO) - Biological Process for SNORD3D Gene


No data available for Pathways by source and SIGNOR curated interactions for SNORD3D Gene

Drugs & Compounds for SNORD3D Gene

No Compound Related Data Available

Transcripts for SNORD3D Gene

mRNA/cDNA for SNORD3D Gene

(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :
(2) RNA Central transcripts :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNORD3D Gene

No ASD Table

Relevant External Links for SNORD3D Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SNORD3D Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNORD3D Gene

mRNA differential expression in normal tissues according to GTEx for SNORD3D Gene

This gene is overexpressed in Testis (x14.4) and Skin - Not Sun Exposed (Suprapubic) (x4.6).

NURSA nuclear receptor signaling pathways regulating expression of SNORD3D Gene:

genes like me logo Genes that share expression patterns with SNORD3D: 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 , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNORD3D Gene

Orthologs for SNORD3D Gene

Evolution for SNORD3D Gene

Gene Tree for SNORD3D (if available)
Gene Tree for SNORD3D (if available)

No data available for Orthologs for SNORD3D Gene

Paralogs for SNORD3D Gene

No data available for Paralogs for SNORD3D Gene

Variants for SNORD3D Gene

Sequence variations from dbSNP and Humsavar for SNORD3D Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000841269 -- 19,112,124(-) A/C downstream_transcript_variant
rs1021031508 -- 19,112,066(-) A/G downstream_transcript_variant
rs1028333671 -- 19,112,148(-) G/A downstream_transcript_variant
rs1039674048 -- 19,111,998(-) C/T downstream_transcript_variant
rs1055350 -- 19,112,335(-) G/T downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SNORD3D Gene

Variant ID Type Subtype PubMed ID
esv3892976 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
nsv9504 CNV gain+loss 18304495
nsv978479 CNV duplication 23825009
esv3892975 CNV loss 25118596
esv33572 CNV gain 17666407
esv3337010 OTHER inversion 20981092
esv2763157 CNV loss 21179565
esv2758678 CNV gain+loss 17122850
esv25927 CNV gain+loss 19812545
dgv895e212 CNV loss 25503493
dgv5494n54 CNV loss 21841781
dgv5493n54 CNV loss 21841781
dgv5492n54 CNV loss 21841781
dgv3116n100 CNV gain 25217958

Additional Variant Information for SNORD3D Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNORD3D Gene

Disorders for SNORD3D Gene

Additional Disease Information for SNORD3D

No disorders were found for SNORD3D Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNORD3D Gene

Publications for SNORD3D 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 AG (Nucleic acids research 1997) 2 3 58
  2. An updated human snoRNAome. (PMID: 27174936) Jorjani H … Gruber AR (Nucleic acids research 2016) 3 58

Products for SNORD3D Gene

Sources for SNORD3D Gene

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