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Aliases for SCARNA13 Gene

Subcategory (RNA class) for SCARNA13 Gene


Quality Score for this RNA gene is


Aliases for SCARNA13 Gene

  • Small Cajal Body-Specific RNA 13 2 3 5
  • U93 3

External Ids for SCARNA13 Gene

ORGUL Members for SCARNA13 Gene

Previous GeneCards Identifiers for SCARNA13 Gene

  • GC14U900662
  • GC14M095071
  • GC14M095999
  • GC14M076185

Summaries for SCARNA13 Gene

GeneCards Summary for SCARNA13 Gene

SCARNA13 (Small Cajal Body-Specific RNA 13) is an RNA Gene, and is affiliated with the scaRNA 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 SCARNA13 Gene

Genomics for SCARNA13 Gene

Regulatory Elements for SCARNA13 Gene

Enhancers for SCARNA13 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
GH14F095254 0.6 Ensembl ENCODE 27 +278.2 278214 2.8 ZFP64 INSM2 KLF17 FEZF1 GLIS2 EGR1 CBX5 ZNF366 SCRT2 ETV6 SNHG10 CLMN SCARNA13 ENSG00000258615
GH14F095258 1.5 FANTOM5 Ensembl ENCODE 25.3 +270.3 270275 9.1 HDGF PKNOX1 WRNIP1 ARID4B SIN3A FOS DEK JUNB MXD4 REST SNHG10 CLMN SCARNA13 ENSG00000258866 ENSG00000258516 ENSG00000258927 DICER1 ENSG00000258615
GH14F094779 0.5 ENCODE 19.9 +764.4 764351 0.2 ZNF202 ZNF664 CBX8 RNF2 SUZ12 CBX2 EZH2 SCARNA13 SNHG10 GSC RPSAP4
GH14F096038 0.5 ENCODE 19.9 -506.1 -506149 2.1 SIN3A THRB CHAMP1 ZNF366 SCRT2 EGR2 ZNF263 ZNF202 SP3 REST SCARNA13 SNHG10 ATG2B C14orf132 BDKRB2
GH14F096224 1.2 Ensembl ENCODE 16.6 -691.7 -691661 2.5 CTCF KLF1 STAT1 HLF ZNF140 MNT RAD21 SMC3 EGR2 SNHG10 SCARNA13 ATG2B GC14P096224 ENSG00000259036
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SCARNA13 on UCSC Golden Path with GeneCards custom track

Promoters for SCARNA13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001460013 -971 3201 PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 FOS

Genomic Location for SCARNA13 Gene

95,533,355 bp from pter
95,533,629 bp from pter
275 bases
Minus strand

Genomic View for SCARNA13 Gene

Genes around SCARNA13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCARNA13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCARNA13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCARNA13 Gene

Proteins for SCARNA13 Gene

Post-translational modifications for SCARNA13 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SCARNA13 Gene

Domains & Families for SCARNA13 Gene

Gene Families for SCARNA13 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SCARNA13: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SCARNA13 Gene

Function for SCARNA13 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 SCARNA13 Gene

Localization for SCARNA13 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SCARNA13 Gene

Pathways & Interactions for SCARNA13 Gene

SuperPathways for SCARNA13 Gene

No Data Available

Interacting Proteins for SCARNA13 Gene

Gene Ontology (GO) - Biological Process for SCARNA13 Gene


No data available for Pathways by source and SIGNOR curated interactions for SCARNA13 Gene

Transcripts for SCARNA13 Gene

mRNA/cDNA for SCARNA13 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SCARNA13 Gene

No ASD Table

Relevant External Links for SCARNA13 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SCARNA13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCARNA13 Gene

NURSA nuclear receptor signaling pathways regulating expression of SCARNA13 Gene:

genes like me logo Genes that share expression patterns with SCARNA13: 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 and mRNA Expression by UniProt/SwissProt for SCARNA13 Gene

Orthologs for SCARNA13 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCARNA13 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SCARNA13 35
  • 99 (a)
(Mus musculus)
Mammalia Scarna13 35
  • 86 (a)
Gm25624 35
  • 79 (a)
Gm26489 35
  • 78 (a)
(Bos Taurus)
Mammalia SCARNA13 35
  • 83 (a)
(Canis familiaris)
Mammalia SCARNA13 35
  • 80 (a)
(Monodelphis domestica)
Mammalia SCARNA13 35
  • 77 (a)
(Ornithorhynchus anatinus)
Mammalia SCARNA13 35
  • 72 (a)
(Gallus gallus)
Aves SCARNA13 35
  • 74 (a)
(Anolis carolinensis)
Reptilia SCARNA13 35
  • 68 (a)
(Danio rerio)
Actinopterygii SCARNA13 35
  • 56 (a)
Species where no ortholog for SCARNA13 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)
  • 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 SCARNA13 Gene

Gene Tree for SCARNA13 (if available)
Gene Tree for SCARNA13 (if available)

Paralogs for SCARNA13 Gene

No data available for Paralogs for SCARNA13 Gene

Variants for SCARNA13 Gene

Sequence variations from dbSNP and Humsavar for SCARNA13 Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs121908584 Pathogenic 95,535,383(+) CGACA(A/G)GGTCA upstream-variant-2KB, reference, synonymous-codon
rs869320757 Pathogenic 95,535,240(+) TGAAG(-/AAG)GACAA upstream-variant-2KB, cds-indel
rs869320758 Pathogenic 95,535,182(+) GGGCG(-/TGCGGGCG)GCGGG upstream-variant-2KB, reference, frameshift-variant
rs587776500 untested 95,535,218(+) GCGGA(C/G)CAGTT upstream-variant-2KB, reference, missense
rs10135660 -- 95,534,507(+) GGGGA(C/G)GCTCA nc-transcript-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SCARNA13 Gene

Variant ID Type Subtype PubMed ID
dgv89e55 CNV gain 17911159
esv3635400 CNV gain 21293372
nsv1042858 CNV gain 25217958
nsv565631 CNV gain 21841781

Relevant External Links for SCARNA13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SCARNA13 Gene

Disorders for SCARNA13 Gene

Relevant External Links for SCARNA13

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for SCARNA13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCARNA13 Gene

Publications for SCARNA13 Gene

  1. A Cajal body-specific pseudouridylation guide RNA is composed of two box H/ACA snoRNA-like domains. (PMID: 12409454) Kiss A.M. … Kiss T. (Nucleic Acids Res. 2002) 2 3 64
  2. hNaf1 is required for accumulation of human box H/ACA snoRNPs, scaRNPs, and telomerase. (PMID: 16601202) Hoareau-Aveilla C. … Henry Y. (RNA 2006) 3 64

Products for SCARNA13 Gene

Sources for SCARNA13 Gene

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