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SCARNA20 Gene(RNA Gene)

Small Cajal Body-Specific RNA 20

GCID:
GC17M060232
GIFtS:
13
Genes Participants
UDN Logo

Aliases for SCARNA20 Gene

Subcategory (RNA class) for SCARNA20 Gene

scaRNA

Quality Score for this RNA gene is

3

Aliases for SCARNA20 Gene

  • Small Cajal Body-Specific RNA 20 2 3 5
  • ACA66 3

External Ids for SCARNA20 Gene

ORGUL Members 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 scaRNA class.

Additional gene information for SCARNA20 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 SCARNA20 Gene

Genomics for SCARNA20 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for SCARNA20 Gene

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
GH17I060231 Enhancer 0.5 ENCODE 550.8 +0.3 331 0.2 ZSCAN21 CTCF ZNF654 SMC3 RAD21 GC17M060233 SCARNA20 GC17M060184 USP32
GH17I060304 Enhancer 0.9 Ensembl ENCODE 11.7 -73.7 -73710 1 HDAC1 ELF3 PKNOX1 USF1 SAP130 MAX MZF1 KLF5 ZNF776 ZNF766 GC17M060304 HEATR6 RPL32P32 SCARNA20 LOC100418753 USP32
GH17I060269 Enhancer 0.3 ENCODE 11.6 -38.0 -37959 0.1 PKNOX1 SCARNA20 C17orf64 USP32 HEATR6 LOC100418753 GC17M060304
GH17I060213 Enhancer 0.3 Ensembl 0.4 +18.5 18545 0.2 MNT SCARNA20 GC17M060233 GC17M060184 USP32
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SCARNA20 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SCARNA20 gene promoter:

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)

Genomic View for SCARNA20 Gene

Genes around SCARNA20 on UCSC Golden Path with GeneCards custom track

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 Structure • Gene Density

RefSeq DNA sequence for SCARNA20 Gene

Proteins for SCARNA20 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

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

HGNC:

Graphical View of Domain Structure for InterPro Entry

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

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SCARNA20 Gene

Function for SCARNA20 Gene

Products:

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

Phenotypes From GWAS Catalog for SCARNA20 Gene

Animal Model Products

Clone 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

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 SCARNA20 Gene

Pathways & Interactions for SCARNA20 Gene

SuperPathways for SCARNA20 Gene

PathCards logo More details on SuperPathways for SCARNA20
No Data Available

Interacting Proteins for SCARNA20 Gene

Gene Ontology (GO) - Biological Process for SCARNA20 Gene

None

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

Drugs & Compounds for SCARNA20 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SCARNA20 Gene

Products:

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

mRNA/cDNA for SCARNA20 Gene

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

Clone 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
ECgene alternative splicing isoforms for
SCARNA20

Expression for SCARNA20 Gene

Products:

  1. Primer
  2. Gene Expression Assay

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

mRNA expression in normal human tissues for SCARNA20 Gene
mRNA expression by GTEx for SCARNA20 Gene

NURSA nuclear receptor signaling pathways regulating expression of SCARNA20 Gene:

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 34
  • 100 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia SCARNA20 34
  • 80 (a)
 OneToMany
cow
(Bos Taurus)
 Mammalia SCARNA20 34 34
  • 71 (a)
 ManyToMany
oppossum
(Monodelphis domestica)
 Mammalia SCARNA20 34
  • 68 (a)
 OneToMany
platypus
(Ornithorhynchus anatinus)
 Mammalia SCARNA20 34
  • 60 (a)
 OneToMany
chicken
(Gallus gallus)
 Aves SCARNA20 34
  • 60 (a)
 OneToMany
Species where no ortholog for SCARNA20 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)
  • 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 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 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

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for SCARNA20 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1001103471 -- 60,231,576(-) G/A non_coding_transcript_variant
rs1003256989 -- 60,233,442(-) A/G upstream_transcript_variant
rs1004760899 -- 60,232,285(-) G/C upstream_transcript_variant
rs1004920881 -- 60,232,234(-) A/G upstream_transcript_variant
rs1006663657 -- 60,232,927(-) A/G upstream_transcript_variant

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 and Variation tolerance for SCARNA20 Gene

Disorders for SCARNA20 Gene

Additional Disease Information for SCARNA20

ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SCARNA20 Gene.

No data available for MalaCards , 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 58

Products for SCARNA20 Gene

Sources for SCARNA20 Gene

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