Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SNORA13 Gene

Subcategory (RNA class) for SNORA13 Gene

snoRNA

Quality Score for this RNA gene is

7.2

Aliases for SNORA13 Gene

  • Small Nucleolar RNA, H/ACA Box 13 2 3 5
  • ACA13 Small Nucleolar RNA Within TIGA1 Host 3
  • ACA13 3

External Ids for SNORA13 Gene

Previous GeneCards Identifiers for SNORA13 Gene

  • GC05P111529
  • GC05P111498
  • GC05P106676
  • GC05P111501
  • GC05P111505
  • GC05P111511

Summaries for SNORA13 Gene

GeneCards Summary for SNORA13 Gene

SNORA13 (Small Nucleolar RNA, H/ACA Box 13) is an RNA Gene, and is affiliated with the snoRNA class.

fRNAdb sequence ontologies for SNORA13 Gene - the ORGUL cluster for this gene includes several descriptions:

  • H_ACA_box_snoRNA: Members of the box H/ACA family contain an ACA triplet, exactly 3 nt upstream from the 3' end and an H-box in a hinge region that links two structurally similar functional domains of the molecule. Both boxes are important for snoRNA biosynthesis and function. A few box H/ACA snoRNAs are involved in rRNA processing; most others are known or predicted to participate in selection of uridine nucleosides in rRNA to be converted to pseudouridines. Site selection is mediated by direct base pairing of the snoRNA with rRNA through one or both targeting domains.

  • nc_conserved_region: Non-coding region of sequence similarity by descent from a common ancestor.

  • Small nucleolar RNA SNORA13: ACA13 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1].

View fRNAdb secondary structures for SNORA13

Additional gene information for SNORA13 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for SNORA13 Gene

Genomics for SNORA13 Gene

GeneHancer (GH) Regulatory Elements for SNORA13 Gene

Promoters and enhancers for SNORA13 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05I112160 Promoter/Enhancer 1.6 Ensembl ENCODE 550.8 +0.1 96 2.8 CLOCK DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 PPARGC1A EPB41L4A-AS1 GC05P112172 GC05M112153 PIR48450 SNORA13 RPS3AP21 STARD4-AS1 DCP2 ENSG00000272389 EPB41L4A
GH05I111753 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 13.1 -405.1 -405059 5.6 HDGF PKNOX1 CLOCK FOXA2 SMAD1 MLX ZFP64 ARID4B SIN3A FEZF1 NREP RPS3AP21 SNORA13 WDR36 BCLAF1P1 RN7SKP57 LOC105379122
GH05I111529 Enhancer 1.5 FANTOM5 Ensembl ENCODE 13.1 -630.6 -630646 2.2 HDGF PKNOX1 ATF1 ARNT POLR2B CBX5 GATA2 ZNF143 ATF7 NCOA1 STARD4 SNORA13 RPS3AP21 WDR36 GC05M111479 STARD4-AS1 ENSG00000251099
GH05I112962 Enhancer 1.1 Ensembl ENCODE 12.2 +802.3 802326 1.9 PKNOX1 ATF1 FOXA2 ARNT FEZF1 ZNF2 IRF4 ZNF766 ATF7 FOS YTHDC2 SRP19 SNORA13 REEP5 GC05M112939 LOC105379126
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNORA13 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SNORA13 gene promoter:

Genomic Locations for SNORA13 Gene

Genomic Locations for SNORA13 Gene
chr5:112,161,485-112,161,617
(GRCh38/hg38)
Size:
133 bases
Orientation:
Plus strand
chr5:111,497,182-111,497,314
(GRCh37/hg19)

Genomic View for SNORA13 Gene

Genes around SNORA13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORA13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORA13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORA13 Gene

ORGUL Member Location for SNORA13 Gene

ORGUL Member Location for SNORA13 gene

Proteins for SNORA13 Gene

Post-translational modifications for SNORA13 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORA13 Gene

Domains & Families for SNORA13 Gene

Gene Families for SNORA13 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORA13: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORA13 Gene

Function for SNORA13 Gene

Phenotypes From GWAS Catalog for SNORA13 Gene

Animal Model Products

Clone 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 SNORA13 Gene

Localization for SNORA13 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for SNORA13 Gene

Pathways & Interactions for SNORA13 Gene

SuperPathways for SNORA13 Gene

No Data Available

Interacting Proteins for SNORA13 Gene

Gene Ontology (GO) - Biological Process for SNORA13 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNORA13 Gene

Drugs & Compounds for SNORA13 Gene

No Compound Related Data Available

Transcripts for SNORA13 Gene

fRNAdb Secondary structures for SNORA13 Gene

  • RF00396;SNORA13;DAAB010916238.1/100-4

mRNA/cDNA for SNORA13 Gene

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

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNORA13 Gene

No ASD Table

Relevant External Links for SNORA13 Gene

GeneLoc Exon Structure for
SNORA13
ECgene alternative splicing isoforms for
SNORA13

Expression for SNORA13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNORA13 Gene

NURSA nuclear receptor signaling pathways regulating expression of SNORA13 Gene:

SNORA13

SOURCE GeneReport for Unigene cluster for SNORA13 Gene:

Hs.689709
genes like me logo Genes that share expression patterns with SNORA13: 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 , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNORA13 Gene

Orthologs for SNORA13 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNORA13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNORA13 34
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm25636 34
  • 86 (a)
OneToMany
Gm23639 34
  • 83 (a)
OneToMany
Gm23362 34
  • 78 (a)
OneToMany
Gm26311 34
  • 74 (a)
OneToMany
cow
(Bos Taurus)
Mammalia SNORA13 34 34
  • 85 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia SNORA13 34
  • 74 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNORA13 34
  • 70 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SNORA13 34
  • 68 (a)
OneToOne
chicken
(Gallus gallus)
Aves SNORA13 34
  • 54 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SNORA13 34
  • 64 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii SNORA13 34
  • 49 (a)
OneToOne
Species where no ortholog for SNORA13 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 SNORA13 Gene

ENSEMBL:
Gene Tree for SNORA13 (if available)
TreeFam:
Gene Tree for SNORA13 (if available)

Paralogs for SNORA13 Gene

No data available for Paralogs for SNORA13 Gene

Variants for SNORA13 Gene

Sequence variations from dbSNP and Humsavar for SNORA13 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000799207 -- 112,161,012(+) T/A upstream_transcript_variant
rs1000830233 -- 112,161,157(+) T/A upstream_transcript_variant
rs1001803100 -- 112,161,792(+) T/G downstream_transcript_variant
rs1001835727 -- 112,162,020(+) G/T downstream_transcript_variant
rs1004478323 -- 112,161,346(+) T/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SNORA13 Gene

Variant ID Type Subtype PubMed ID
nsv599368 CNV gain 21841781
nsv599367 CNV gain 21841781
esv3606287 CNV gain 21293372
dgv1124e214 CNV loss 21293372

Additional Variant Information for SNORA13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORA13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNORA13 Gene

Disorders for SNORA13 Gene

Additional Disease Information for SNORA13

No disorders were found for SNORA13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNORA13 Gene

Publications for SNORA13 Gene

  1. snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs. (PMID: 16381836) Lestrade L … Weber MJ (Nucleic acids research 2006) 1 2 3 58
  2. Human box H/ACA pseudouridylation guide RNA machinery. (PMID: 15199136) Kiss AM … Kiss T (Molecular and cellular biology 2004) 1 2 3 58
  3. Pseudouridine distribution in mammalian 18 S ribosomal RNA. A major cluster in the central region of the molecule. (PMID: 3342024) Maden EH … Wakeman JA (The Biochemical journal 1988) 1 2 3 58
  4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A … Hentze MW (Cell 2012) 3 58
  5. Eukaryotic snoRNAs: a paradigm for gene expression flexibility. (PMID: 19446021) Dieci G … Montanini B (Genomics 2009) 3 58

Products for SNORA13 Gene

Sources for SNORA13 Gene

Content
Loading form....