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Aliases for SCARNA6 Gene

Subcategory (RNA class) for SCARNA6 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for SCARNA6 Gene

  • Small Cajal Body-Specific RNA 6 2 3 5
  • U88 3

External Ids for SCARNA6 Gene

Previous GeneCards Identifiers for SCARNA6 Gene

  • GC02P233862
  • GC02P234228
  • GC02P225998
  • GC02P234246
  • GC02P234257

Summaries for SCARNA6 Gene

GeneCards Summary for SCARNA6 Gene

SCARNA6 (Small Cajal Body-Specific RNA 6) 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 SCARNA6 Gene

Genomics for SCARNA6 Gene

Regulatory Elements for SCARNA6 Gene

Enhancers for SCARNA6 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
GH02F232313 1.5 FANTOM5 Ensembl ENCODE 23.5 -969.5 -969522 10.9 ATF1 CBX3 PKNOX1 ZFP64 FEZF1 ZBTB40 RAD21 CREM MIXL1 SMAD5 RPL28P2 SCARNA6 ENSG00000251485 ENSG00000261096 ECEL1P2 EIF4E2 LOC730069 GC02P232173
GH02F233412 1.6 FANTOM5 Ensembl ENCODE 10.2 +133.1 133098 18.4 PKNOX1 ATF1 ARNT SIN3A GLIS2 CBX5 FOS REST TBX21 MBD2 USP40 SAG ATG16L1 DGKD SCARNA6 SCARNA5 LOC105373929 INPP5D PIR59405 GC02M233380
GH02F233973 1.6 FANTOM5 Ensembl ENCODE 9.8 +687.1 687113 5.2 PKNOX1 ATF1 MLX ARID4B SIN3A ZNF2 ZNF48 YY1 GLIS2 ZNF207 USP40 SCARNA6 TRPM8 ENSG00000237581 SPP2
GH02F232987 1.3 Ensembl ENCODE 9.8 -300.2 -300231 2.6 PKNOX1 ATF1 ARID4B SIN3A DMAP1 YY1 FOS SP3 NFYC MXD4 USP40 EEF1B2P7 SCARNA6 C2orf82 NGEF LOC101928881 PIR45244
GH02F233383 1.2 Ensembl ENCODE 10.4 +98.0 97961 5.7 MLX ARID4B DMAP1 ZNF48 YY1 SP5 NFYC MXD4 MIER2 REST DGKD ATG16L1 USP40 SAG SCARNA5 SCARNA6 ENSG00000201013 GC02M233380 PIR59405
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SCARNA6 on UCSC Golden Path with GeneCards custom track

Genomic Location for SCARNA6 Gene

233,288,676 bp from pter
233,288,941 bp from pter
266 bases
Plus strand

Genomic View for SCARNA6 Gene

Genes around SCARNA6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCARNA6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCARNA6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCARNA6 Gene

Proteins for SCARNA6 Gene

Post-translational modifications for SCARNA6 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SCARNA6 Gene

Domains & Families for SCARNA6 Gene

Gene Families for SCARNA6 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SCARNA6: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SCARNA6 Gene

Function for SCARNA6 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 SCARNA6 Gene

Localization for SCARNA6 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SCARNA6 Gene

Pathways & Interactions for SCARNA6 Gene

SuperPathways for SCARNA6 Gene

No Data Available

Interacting Proteins for SCARNA6 Gene

Gene Ontology (GO) - Biological Process for SCARNA6 Gene


No data available for Pathways by source and SIGNOR curated interactions for SCARNA6 Gene

Transcripts for SCARNA6 Gene

mRNA/cDNA for SCARNA6 Gene

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

Unigene Clusters for SCARNA6 Gene

Small Cajal body-specific RNA 6:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SCARNA6 Gene

No ASD Table

Relevant External Links for SCARNA6 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SCARNA6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCARNA6 Gene

NURSA nuclear receptor signaling pathways regulating expression of SCARNA6 Gene:


SOURCE GeneReport for Unigene cluster for SCARNA6 Gene:

genes like me logo Genes that share expression patterns with SCARNA6: 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 SCARNA6 Gene

Orthologs for SCARNA6 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCARNA6 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SCARNA6 35
  • 99 (a)
(Mus musculus)
Mammalia Scarna6 35
  • 78 (a)
(Canis familiaris)
Mammalia SCARNA6 35
  • 73 (a)
(Bos Taurus)
Mammalia SCARNA6 35
  • 69 (a)
(Ornithorhynchus anatinus)
Mammalia SCARNA6 35
  • 64 (a)
(Monodelphis domestica)
Mammalia SCARNA6 35
  • 59 (a)
(Gallus gallus)
Aves SCARNA6 35
  • 56 (a)
(Anolis carolinensis)
Reptilia SCARNA6 35
  • 58 (a)
(Danio rerio)
Actinopterygii SCARNA6 35
  • 47 (a)
Species where no ortholog for SCARNA6 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 SCARNA6 Gene

Gene Tree for SCARNA6 (if available)
Gene Tree for SCARNA6 (if available)

Paralogs for SCARNA6 Gene

No data available for Paralogs for SCARNA6 Gene

Variants for SCARNA6 Gene

Sequence variations from dbSNP and Humsavar for SCARNA6 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs111636770 -- 233,287,595(+) ATGTA(A/G)GGCCG intron-variant, upstream-variant-2KB
rs114173755 -- 233,287,599(+) AAGGC(C/T)GGGCA intron-variant, upstream-variant-2KB
rs114499018 -- 233,286,915(+) CCACC(A/G)CGCCT intron-variant, upstream-variant-2KB
rs116638674 -- 233,288,576(+) TTTGC(A/C)AACCC intron-variant, upstream-variant-2KB
rs13390554 -- 233,288,077(+) GCCGG(A/C)ACCCG intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SCARNA6 Gene

Variant ID Type Subtype PubMed ID
nsv584699 CNV gain 21841781

Relevant External Links for SCARNA6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SCARNA6 Gene

Disorders for SCARNA6 Gene

Relevant External Links for SCARNA6

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for SCARNA6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCARNA6 Gene

Publications for SCARNA6 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 64

Products for SCARNA6 Gene

Sources for SCARNA6 Gene

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