Aliases for SCARNA20 Gene

Subcategory (RNA class) for SCARNA20 Gene

snoRNA

Number of RNA Genes sources:

2 / 17

Aliases for SCARNA20 Gene

  • Small Cajal Body-Specific RNA 20 2 3 5
  • SCARNA20 2 5
  • ACA66 2 3
  • SNODB1748 177
  • SNODB1321 177
  • RF00601 168

External Ids for SCARNA20 Gene

Previous GeneCards Identifiers for SCARNA20 Gene

  • GC17P055663
  • GC17M055664
  • GC17M058308
  • GC17M053679

Summaries for SCARNA20 Gene

GeneCards Summary for SCARNA20 Gene

SCARNA20 (Small Cajal Body-Specific RNA 20) is an RNA Gene, and is affiliated with the snoRNA class. Diseases associated with SCARNA20 include Optic Nerve Neoplasm and Optic Nerve Glioma.

Rfam classification for SCARNA20 Gene

  • Small Cajal body specific RNA 20

Additional gene information for SCARNA20 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for SCARNA20 Gene

Genomics for SCARNA20 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SCARNA20 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
GH17J060231 Enhancer 0.7 Ensembl ENCODE 600.7 -0.1 -106 1.3 CTCF RAD21 NFE2 ZNF316 ZBTB48 SMC3 MAFK ZNF654 ZNF362 NFE2L2 SCARNA20 RPL32P32 C17orf64 USP32 lnc-HEATR6-5 CA4
GH17J060305 Enhancer 1 Ensembl ENCODE 11.7 -72.7 -72654 5.8 PRDM10 REST TFE3 ZNF512 RFX1 PRDM1 ZNF143 ZNF776 PKNOX1 IKZF2 lnc-APPBP2-2 HEATR6 RPL32P32 ENSG00000267248 SCARNA20 CA4 KR153194-075 C17orf64 USP32
GH17J060311 Enhancer 0.8 Ensembl 11.7 -84.0 -83955 7.2 CTCF KDM1A JUND FOXA1 PKNOX1 MTA1 REST ZNF24 IKZF2 HDAC1 H3P42 lnc-C17orf64-1 HEATR6 SCARNA20 C17orf64 USP32 ENSG00000275860 piR-38580-119 CA4
GH17J060309 Enhancer 0.6 Ensembl 11.7 -78.7 -78654 2.2 ATF7 ZNF629 CEBPB ATF2 ZNF366 ZNF146 ATF3 PRDM6 JUND JUN piR-38580-119 HEATR6 SCARNA20 H3P42 lnc-C17orf64-1 C17orf64 USP32 CA4
GH17J060269 Enhancer 0.4 Ensembl ENCODE 11.6 -38.2 -38155 0.8 PKNOX1 SCARNA20 C17orf64 USP32 HEATR6 KR153194-075 ENSG00000275562 CA4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SCARNA20 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the SCARNA20 gene promoter:
  • aMEF-2
  • E47
  • HNF-4alpha1
  • MEF-2
  • MEF-2A
  • Pax-2
  • Pax-2a
  • Pax-2b
  • Tal-1
  • ZID

Genomic Locations for SCARNA20 Gene

Genomic Locations for SCARNA20 Gene
chr17:60,231,516-60,231,646
(GRCh38/hg38)
Size:
131 bases
Orientation:
Minus strand
chr17:58,308,877-58,309,007
(GRCh37/hg19)
Size:
131 bases
Orientation:
Minus strand

Genomic View for SCARNA20 Gene

Genes around SCARNA20 on UCSC Golden Path with GeneCards custom track
SCARNA20 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
SCARNA20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCARNA20 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCARNA20 Gene

Proteins for SCARNA20 Gene

Post-translational modifications for SCARNA20 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SCARNA20 Gene

Domains & Families for SCARNA20 Gene

Gene Families for SCARNA20 Gene

genes like me logo Genes that share domains with SCARNA20: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SCARNA20 Gene

Function for SCARNA20 Gene

Phenotypes From GWAS Catalog for SCARNA20 Gene

Animal Model Products

CRISPR 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 SCARNA20 Gene

Localization for SCARNA20 Gene

Gene Ontology (GO) - Cellular Components for SCARNA20 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 SCARNA20: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Subcellular locations from the Human Protein Atlas (HPA) for SCARNA20 Gene

Pathways & Interactions for SCARNA20 Gene

PathCards logo

SuperPathways for SCARNA20 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCARNA20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing IEA --
genes like me logo Genes that share ontologies with SCARNA20: view

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for SCARNA20 Gene

Drugs & Compounds for SCARNA20 Gene

No Compound Related Data Available

Transcripts for SCARNA20 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SCARNA20 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000070CFEE_9606 snoRNA 131 3

Ensembl: ENST00000516768 (view in UCSC) ,

Rfam: RF00601,

snoDB: SNODB1748,

URS000075C168_9606 guide_RNA 130 3

HGNC: 32578,

RefSeq: NR_002999,

snoDB: SNODB1321,

SCARNA20 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCARNA20 Gene

No ASD Table

Relevant External Links for SCARNA20 Gene

GeneLoc Exon Structure for
SCARNA20

No data available for mRNA/cDNA for SCARNA20 Gene

Expression for SCARNA20 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCARNA20 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SCARNA20

genes like me logo Genes that share expression patterns with SCARNA20: 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 SCARNA20 Gene

Orthologs for SCARNA20 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCARNA20 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SCARNA20 31
  • 100 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia SCARNA20 31
  • 80 (a)
OneToMany
Cow
(Bos Taurus)
Mammalia SCARNA20 31 31
  • 69 (a)
ManyToMany
Oppossum
(Monodelphis domestica)
Mammalia SCARNA20 31
  • 68 (a)
OneToMany
Platypus
(Ornithorhynchus anatinus)
Mammalia SCARNA20 31
  • 60 (a)
OneToMany
Chicken
(Gallus gallus)
Aves SCARNA20 31
  • 60 (a)
OneToMany
Species where no ortholog for SCARNA20 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • 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)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (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 SCARNA20 Gene

ENSEMBL:
Gene Tree for SCARNA20 (if available)
TreeFam:
Gene Tree for SCARNA20 (if available)

Paralogs for SCARNA20 Gene

No data available for Paralogs for SCARNA20 Gene

Variants for SCARNA20 Gene

Additional dbSNP identifiers (rs#s) for SCARNA20 Gene

Structural Variations from Database of Genomic Variants (DGV) for SCARNA20 Gene

Variant ID Type Subtype PubMed ID
nsv833504 CNV gain 17160897

Additional Variant Information for SCARNA20 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCARNA20

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for SCARNA20 Gene

Disorders for SCARNA20 Gene

MalaCards: The human disease database

(2) MalaCards diseases for SCARNA20 Gene - From: DISEASES

Disorder Aliases PubMed IDs
optic nerve neoplasm
  • neoplasm of optic nerve
optic nerve glioma
  • glioma of the optic nerve
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with SCARNA20: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SCARNA20 Gene

Publications for SCARNA20 Gene

  1. A computational screen for mammalian pseudouridylation guide H/ACA RNAs. (PMID: 16373490) Schattner P … Lowe TM (RNA (New York, N.Y.) 2006) 2 3

Products for SCARNA20 Gene

Sources for SCARNA20 Gene