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Aliases for SCARNA9 Gene

Subcategory (RNA class) for SCARNA9 Gene


Quality Score for this RNA gene is


Aliases for SCARNA9 Gene

  • Small Cajal Body-Specific RNA 9 2 3 5
  • MgU2-19/30 ScaRNA 3
  • MgU2-19/30 3
  • Z32 3

External Ids for SCARNA9 Gene

ORGUL Members for SCARNA9 Gene

Previous GeneCards Identifiers for SCARNA9 Gene

  • GC11P093098
  • GC11P093456
  • GC11P089531
  • GC11P093457
  • GC11P093458
  • GC11P093459
  • GC11P093460
  • GC11P093462
  • GC11P093466
  • GC11P093479
  • GC11P093723
  • GC11P093725
  • GC11P093728
  • GC11P093730

Summaries for SCARNA9 Gene

GeneCards Summary for SCARNA9 Gene

SCARNA9 (Small Cajal Body-Specific RNA 9) 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 SCARNA9 Gene

Genomics for SCARNA9 Gene

Regulatory Elements for SCARNA9 Gene

Enhancers for SCARNA9 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
GH11F094148 1.1 Ensembl ENCODE 9.9 +430.1 430060 5.6 PKNOX1 ATF1 ZFP64 ARID4B SIN3A FEZF1 YY1 CBX5 FOS SP5 HEPHL1 PANX1 SCARNA9 ENSG00000255445 PIR47114 GC11P094183
GH11F094664 0.6 ENCODE 4.8 +943.0 943010 0.6 ZMYM3 MYC SCARNA9 GC11M094662 PIR37342
GH11F094673 0.4 ENCODE 4.8 +953.0 953018 2.5 PBX2 AMOTL1 LOC105369438 SCARNA9 PIR37342
GH11F094676 0.7 ENCODE 4.5 +956.5 956456 3.2 GATA3 RFX1 JUND NR2F1 NR2F6 NR2C2 AMOTL1 LOC105369438 ENSG00000256469 SCARNA9 ENSG00000255893 LOC105369435 PIR37342
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SCARNA9 on UCSC Golden Path with GeneCards custom track

Genomic Location for SCARNA9 Gene

93,721,513 bp from pter
93,721,866 bp from pter
354 bases
Plus strand

Genomic View for SCARNA9 Gene

Genes around SCARNA9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCARNA9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCARNA9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCARNA9 Gene

ORGUL Member Location for SCARNA9 Gene

ORGUL Member Location for SCARNA9 gene

Proteins for SCARNA9 Gene

Post-translational modifications for SCARNA9 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SCARNA9 Gene

Domains & Families for SCARNA9 Gene

Gene Families for SCARNA9 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SCARNA9: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SCARNA9 Gene

Function for SCARNA9 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 SCARNA9 Gene

Localization for SCARNA9 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SCARNA9 Gene

Pathways & Interactions for SCARNA9 Gene

SuperPathways for SCARNA9 Gene

No Data Available

Interacting Proteins for SCARNA9 Gene

Gene Ontology (GO) - Biological Process for SCARNA9 Gene


No data available for Pathways by source and SIGNOR curated interactions for SCARNA9 Gene

Transcripts for SCARNA9 Gene

mRNA/cDNA for SCARNA9 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SCARNA9 Gene

No ASD Table

Relevant External Links for SCARNA9 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SCARNA9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCARNA9 Gene

NURSA nuclear receptor signaling pathways regulating expression of SCARNA9 Gene:

genes like me logo Genes that share expression patterns with SCARNA9: 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 SCARNA9 Gene

Orthologs for SCARNA9 Gene

Evolution for SCARNA9 Gene

Gene Tree for SCARNA9 (if available)
Gene Tree for SCARNA9 (if available)

No data available for Orthologs for SCARNA9 Gene

Paralogs for SCARNA9 Gene

No data available for Paralogs for SCARNA9 Gene

Variants for SCARNA9 Gene

Sequence variations from dbSNP and Humsavar for SCARNA9 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs11020501 -- 93,719,543(+) GACTA(A/G)AGGGG intron-variant, upstream-variant-2KB
rs11020502 -- 93,720,489(+) AAAAA(A/G)ACTGT intron-variant, upstream-variant-2KB
rs111524157 -- 93,720,929(+) TATGC(A/G)TGTTT intron-variant, upstream-variant-2KB
rs111936415 -- 93,720,248(+) TGGGC(A/G)GATCA intron-variant, upstream-variant-2KB
rs11371094 -- 93,720,062(+) GCTGT(-/A)AAAAA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SCARNA9 Gene

Variant ID Type Subtype PubMed ID
esv3627294 CNV gain 21293372
nsv832232 CNV gain 17160897

Relevant External Links for SCARNA9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SCARNA9 Gene

Disorders for SCARNA9 Gene

Relevant External Links for SCARNA9

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for SCARNA9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCARNA9 Gene

Publications for SCARNA9 Gene

  1. Guide RNAs with 5' caps and novel box C/D snoRNA-like domains for modification of snRNAs in metazoa. (PMID: 15556860) Tycowski K.T. … Steitz J.A. (Curr. Biol. 2004) 2 3 64
  2. 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) 3 64

Products for SCARNA9 Gene

Sources for SCARNA9 Gene

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