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Aliases for SCARNA3 Gene

Subcategory (RNA class) for SCARNA3 Gene


Quality Score for this RNA gene is


Aliases for SCARNA3 Gene

  • Small Cajal Body-Specific RNA 3 2 3 5
  • HBI-100 3

External Ids for SCARNA3 Gene

ORGUL Members for SCARNA3 Gene

Previous GeneCards Identifiers for SCARNA3 Gene

  • GC01M174204
  • GC01M175937
  • GC01M147164

Summaries for SCARNA3 Gene

GeneCards Summary for SCARNA3 Gene

SCARNA3 (Small Cajal Body-Specific RNA 3) 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 SCARNA3 Gene

Genomics for SCARNA3 Gene

Regulatory Elements for SCARNA3 Gene

Enhancers for SCARNA3 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
GH01F175920 0.2 ENCODE 10.8 +48.0 47982 1.0 NR2F1 TAL1 BHLHE40 SCARNA3 ENSG00000227740 RPS29P5
GH01F175922 0.6 ENCODE 10.8 +46.1 46051 0.3 MAX SCARNA3 GC01P175927 RPS29P5
GH01F176034 0.6 Ensembl 10 -65.7 -65661 0.4 SCARNA3 ENSG00000228686 RFWD2
GH01F175968 0.6 ENCODE 0.8 -0.7 -691 2.3 ESRRA GC01M175971 SCARNA3 ENSG00000228686
GH01F175984 0.2 ENCODE 0.3 -16.5 -16460 0.2 HNF4G SCARNA3 GC01M175971 ENSG00000228686
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SCARNA3 on UCSC Golden Path with GeneCards custom track

Genomic Location for SCARNA3 Gene

175,968,397 bp from pter
175,968,540 bp from pter
144 bases
Minus strand

Genomic View for SCARNA3 Gene

Genes around SCARNA3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCARNA3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCARNA3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCARNA3 Gene

Proteins for SCARNA3 Gene

Post-translational modifications for SCARNA3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SCARNA3 Gene

Domains & Families for SCARNA3 Gene

Gene Families for SCARNA3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SCARNA3: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SCARNA3 Gene

Function for SCARNA3 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 SCARNA3 Gene

Localization for SCARNA3 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SCARNA3 Gene

Pathways & Interactions for SCARNA3 Gene

SuperPathways for SCARNA3 Gene

No Data Available

Interacting Proteins for SCARNA3 Gene

Gene Ontology (GO) - Biological Process for SCARNA3 Gene


No data available for Pathways by source and SIGNOR curated interactions for SCARNA3 Gene

Transcripts for SCARNA3 Gene

mRNA/cDNA for SCARNA3 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SCARNA3 Gene

No ASD Table

Relevant External Links for SCARNA3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SCARNA3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCARNA3 Gene

NURSA nuclear receptor signaling pathways regulating expression of SCARNA3 Gene:

genes like me logo Genes that share expression patterns with SCARNA3: 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 SCARNA3 Gene

Orthologs for SCARNA3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCARNA3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SCARNA3 35
  • 98 (a)
(Bos Taurus)
Mammalia SCARNA3 35
  • 93 (a)
(Canis familiaris)
Mammalia SCARNA3 35
  • 93 (a)
(Mus musculus)
Mammalia Scarna3a 35
  • 86 (a)
Scarna3b 35
  • 86 (a)
Gm22416 35
  • 72 (a)
Gm25119 35
  • 72 (a)
Gm22387 35
  • 71 (a)
Gm24718 35
  • 71 (a)
(Monodelphis domestica)
Mammalia SCARNA3 35
  • 85 (a)
(Ornithorhynchus anatinus)
Mammalia SCARNA3 35
  • 85 (a)
(Gallus gallus)
Aves SCARNA3 35
  • 69 (a)
(Anolis carolinensis)
Reptilia SCARNA3 35
  • 71 (a)
Species where no ortholog for SCARNA3 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)
  • zebrafish (Danio rerio)

Evolution for SCARNA3 Gene

Gene Tree for SCARNA3 (if available)
Gene Tree for SCARNA3 (if available)

Paralogs for SCARNA3 Gene

No data available for Paralogs for SCARNA3 Gene

Variants for SCARNA3 Gene

Sequence variations from dbSNP and Humsavar for SCARNA3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10798426 -- 175,970,173(+) TGAAT(G/T)TGAAC intron-variant, upstream-variant-2KB, utr-variant-3-prime
rs113140584 -- 175,968,165(+) ATGCT(C/T)GGCAA intron-variant, downstream-variant-500B, utr-variant-3-prime
rs114259741 -- 175,968,613(+) ATCAA(A/G)TTCTC intron-variant, upstream-variant-2KB, utr-variant-3-prime
rs1143376 -- 175,968,050(-) tctct(A/G)ctgaa intron-variant, downstream-variant-500B, utr-variant-3-prime
rs115604846 -- 175,969,124(+) TAACA(C/G)AAAAA intron-variant, upstream-variant-2KB, utr-variant-3-prime

Relevant External Links for SCARNA3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for SCARNA3 Gene

Disorders for SCARNA3 Gene

Relevant External Links for SCARNA3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for SCARNA3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCARNA3 Gene

Publications for SCARNA3 Gene

  1. RNomics: an experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse. (PMID: 11387227) HA1ttenhofer A. … Brosius J. (EMBO J. 2001) 2 3 64
  2. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A. … Hentze M.W. (Cell 2012) 3 64

Products for SCARNA3 Gene

Sources for SCARNA3 Gene

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