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Aliases for SCARNA17 Gene

Subcategory (RNA class) for SCARNA17 Gene

scaRNA

Quality Score for this RNA gene is

3

Aliases for SCARNA17 Gene

  • Small Cajal Body-Specific RNA 17 2 3 5
  • MgU12-22/U4-8 3
  • U91 3

External Ids for SCARNA17 Gene

ORGUL Members for SCARNA17 Gene

Previous GeneCards Identifiers for SCARNA17 Gene

  • GC18P045597
  • GC18P047341
  • GC18P044194
  • GC18P047345
  • GC18P047352

Summaries for SCARNA17 Gene

GeneCards Summary for SCARNA17 Gene

SCARNA17 (Small Cajal Body-Specific RNA 17) 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 SCARNA17 Gene

Genomics for SCARNA17 Gene

Regulatory Elements for SCARNA17 Gene

Enhancers for SCARNA17 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
GH18F049788 1.3 Ensembl ENCODE 11.5 -25.1 -25073 1.0 OSR2 ELF3 PKNOX1 IKZF1 JUNB PRDM1 RAD21 SPI1 ACAA2 ENSG00000252139 SCARNA17 GC18M049763 GC18M049798
GH18F049837 0.2 ENCODE 11.2 +24.2 24234 1.1 SOX13 ATF1 ZNF792 ARID4B CEBPG ZNF644 RAD21 RARA TEAD3 YY1 ACAA2 SCARNA17 ENSG00000252139 LIPG ENSG00000266997 ENSG00000201668 GC18M049872
GH18F049848 1.1 Ensembl ENCODE 11.2 +35.5 35528 2.1 TBP SREBF2 RAD21 RFX5 GLIS2 ZNF366 SCRT2 RCOR1 FOS ZNF263 ACAA2 ENSG00000252139 SCARNA17 LIPG ENSG00000266997 ENSG00000201668 GC18M049872
GH18F049839 0.9 ENCODE 10.8 +25.2 25183 0.2 JUND SMC3 USF2 CHD2 ENSG00000252139 ACAA2 SCARNA17 ENSG00000266997 ENSG00000201668 GC18M049872
GH18F049843 0.7 ENCODE 10.8 +30.0 30019 0.9 SCRT1 SCRT2 MAFK ENSG00000252139 ACAA2 SCARNA17 ENSG00000266997 GC18M049872 ENSG00000201668
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SCARNA17 on UCSC Golden Path with GeneCards custom track

Promoters for SCARNA17 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001515111 -922 3800 HDGF PKNOX1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ZNF207 ZNF263

Genomic Location for SCARNA17 Gene

Chromosome:
18
Start:
49,814,023 bp from pter
End:
49,814,443 bp from pter
Size:
421 bases
Orientation:
Plus strand

Genomic View for SCARNA17 Gene

Genes around SCARNA17 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCARNA17 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCARNA17 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCARNA17 Gene

Proteins for SCARNA17 Gene

Post-translational modifications for SCARNA17 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SCARNA17 Gene

Domains & Families for SCARNA17 Gene

Gene Families for SCARNA17 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SCARNA17: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SCARNA17 Gene

Function for SCARNA17 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 SCARNA17 Gene

Localization for SCARNA17 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SCARNA17 Gene

Pathways & Interactions for SCARNA17 Gene

SuperPathways for SCARNA17 Gene

No Data Available

Interacting Proteins for SCARNA17 Gene

Gene Ontology (GO) - Biological Process for SCARNA17 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SCARNA17 Gene

Transcripts for SCARNA17 Gene

mRNA/cDNA for SCARNA17 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SCARNA17 Gene

No ASD Table

Relevant External Links for SCARNA17 Gene

GeneLoc Exon Structure for
SCARNA17
ECgene alternative splicing isoforms for
SCARNA17

Expression for SCARNA17 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCARNA17 Gene

mRNA differential expression in normal tissues according to GTEx for SCARNA17 Gene

This gene is overexpressed in Whole Blood (x4.3).

NURSA nuclear receptor signaling pathways regulating expression of SCARNA17 Gene:

SCARNA17
genes like me logo Genes that share expression patterns with SCARNA17: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for SCARNA17 Gene

Orthologs for SCARNA17 Gene

This gene was present in the common ancestor of mammals.

Orthologs for SCARNA17 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCARNA17 35
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SCARNA17 35 35 35
  • 87 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia SCARNA17 35 35 35
  • 77 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Gm25913 35
  • 70 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia SCARNA17 35
  • 60 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia SCARNA17 35
  • 59 (a)
OneToMany
Species where no ortholog for SCARNA17 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)
  • chicken (Gallus gallus)
  • 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)
  • lizard (Anolis carolinensis)
  • 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 SCARNA17 Gene

ENSEMBL:
Gene Tree for SCARNA17 (if available)
TreeFam:
Gene Tree for SCARNA17 (if available)

Paralogs for SCARNA17 Gene

No data available for Paralogs for SCARNA17 Gene

Variants for SCARNA17 Gene

Sequence variations from dbSNP and Humsavar for SCARNA17 Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type
rs111246188 -- 49,813,142(+) CATTT(C/T)TTCTA intron-variant, upstream-variant-2KB
rs112575680 -- 49,813,929(+) CGCGG(C/G)CGCCA upstream-variant-2KB
rs112600621 -- 49,814,032(+) GCTTG(G/T)GCCGC nc-transcript-variant, upstream-variant-2KB
rs113527304 -- 49,813,928(+) CCGCG(C/G)CCGCC upstream-variant-2KB
rs11549021 -- 49,814,278(-) GCCCC(C/T)GCTCC intron-variant, nc-transcript-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SCARNA17 Gene

Variant ID Type Subtype PubMed ID
nsv516056 CNV gain 19592680
nsv576863 CNV gain 21841781

Relevant External Links for SCARNA17 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCARNA17

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SCARNA17 Gene

Disorders for SCARNA17 Gene

Relevant External Links for SCARNA17

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SCARNA17

No disorders were found for SCARNA17 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCARNA17 Gene

Publications for SCARNA17 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 SCARNA17 Gene

Sources for SCARNA17 Gene

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