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SCARNA5 Gene(RNA Gene)

Small Cajal Body-Specific RNA 5

GCID:
GC02P233275
GIFtS:
16
Genes Participants
UDN Logo

Aliases for SCARNA5 Gene

Subcategory (RNA class) for SCARNA5 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for SCARNA5 Gene

  • Small Cajal Body-Specific RNA 5 2 3 5
  • U87 3

External Ids for SCARNA5 Gene

Previous GeneCards Identifiers for SCARNA5 Gene

  • GC02P233849
  • GC02P234184
  • GC02P225985

Summaries for SCARNA5 Gene

GeneCards Summary for SCARNA5 Gene

SCARNA5 (Small Cajal Body-Specific RNA 5) is an RNA Gene, and is affiliated with the non-coding RNA class.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCARNA5 Gene

Genomics for SCARNA5 Gene

Products:

  1. Regulatory Element

Regulatory Elements for SCARNA5 Gene

Enhancers for SCARNA5 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around SCARNA5 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the SCARNA5 gene promoter:

Genomic Location for SCARNA5 Gene

Chromosome:
2
Start:
233,275,726 bp from pter
End:
233,276,003 bp from pter
Size:
278 bases
Orientation:
Plus strand

Genomic View for SCARNA5 Gene

Genes around SCARNA5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCARNA5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCARNA5 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SCARNA5 Gene

Proteins for SCARNA5 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for SCARNA5 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SCARNA5 Gene

Domains & Families for SCARNA5 Gene

Gene Families for SCARNA5 Gene

HGNC:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SCARNA5: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SCARNA5 Gene

Function for SCARNA5 Gene

Products:

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

Flow Cytometry 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 SCARNA5 Gene

Localization for SCARNA5 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SCARNA5 Gene

Pathways & Interactions for SCARNA5 Gene

SuperPathways for SCARNA5 Gene

PathCards logoMore details on SuperPathways for SCARNA5
No Data Available

Interacting Proteins for SCARNA5 Gene

Gene Ontology (GO) - Biological Process for SCARNA5 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SCARNA5 Gene

Drugs & Compounds for SCARNA5 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SCARNA5 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for SCARNA5 Gene

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

Unigene Clusters for SCARNA5 Gene

Small Cajal body-specific RNA 5:
Representative Sequences:

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCARNA5 Gene

No ASD Table

Relevant External Links for SCARNA5 Gene

GeneLoc Exon Structure for
SCARNA5
ECgene alternative splicing isoforms for
SCARNA5

Expression for SCARNA5 Gene

Products:

  1. Primer

mRNA expression in normal human tissues for SCARNA5 Gene

mRNA expression in normal human tissues for SCARNA5 Gene
mRNA expression by GTEx for SCARNA5 Gene

SOURCE GeneReport for Unigene cluster for SCARNA5 Gene Hs.663619

genes like me logo Genes that share expression patterns with SCARNA5: 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 , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for SCARNA5 Gene

Orthologs for SCARNA5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCARNA5 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia SCARNA6 36
  • 84 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia SCARNA6 36
  • 81 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia SCARNA6 36
  • 60 (a)
 OneToMany
mouse
(Mus musculus)
 Mammalia Gm25395 36
  • 75 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia SCARNA6 36
  • 55 (a)
 ManyToMany
SCARNA6 36
  • 51 (a)
 ManyToMany
chimpanzee
(Pan troglodytes)
 Mammalia SCARNA6 36
  • 100 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves SCARNA6 36
  • 55 (a)
 OneToMany
lizard
(Anolis carolinensis)
 Reptilia SCARNA6 36
  • 58 (a)
 OneToMany
zebrafish
(Danio rerio)
 Actinopterygii SCARNA6 36
  • 52 (a)
 ManyToMany
Species with no ortholog for SCARNA5:
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • 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)

Evolution for SCARNA5 Gene

ENSEMBL:
Gene Tree for SCARNA5 (if available)
TreeFam:
Gene Tree for SCARNA5 (if available)

Paralogs for SCARNA5 Gene

No data available for Paralogs for SCARNA5 Gene

Variants for SCARNA5 Gene

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations from dbSNP and Humsavar , Structural Variations from Database of Genomic Variants (DGV) , Variation tolerance and Relevant External Links for SCARNA5 Gene

Disorders for SCARNA5 Gene

Relevant External Links for SCARNA5

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SCARNA5

No disorders were found for SCARNA5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCARNA5 Gene

Publications for SCARNA5 Gene

  1. Cajal body-specific small nuclear RNAs: a novel class of 2'-O-methylation and pseudouridylation guide RNAs. (PMID: 12032087) Darzacq X. … Kiss T. (EMBO J. 2002) 2 3 67
  2. A genome-wide association study on a southern European population identifies a new Crohn's disease susceptibility locus at RBX1-EP300. (PMID: 22936669) JuliA A. … Marsal S. (Gut 2013) 3
  3. A genome-wide scan of Ashkenazi Jewish Crohn's disease suggests novel susceptibility loci. (PMID: 22412388) Kenny E.E. … Peter I. (PLoS Genet. 2012) 3
  4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A. … Hentze M.W. (Cell 2012) 3
  5. Fucosyltransferase 2 (FUT2) non-secretor status is associated with Crohn's disease. (PMID: 20570966) McGovern D.P. … Rotter J.I. (Hum. Mol. Genet. 2010) 3

Products for SCARNA5 Gene

Sources for SCARNA5 Gene

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