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

Aliases for SNORA80D Gene

Subcategory (RNA class) for SNORA80D Gene

snoRNA

Quality Score for this RNA gene is

5

Aliases for SNORA80D Gene

  • Small Nucleolar RNA, H/ACA Box 80D 2 3 5

External Ids for SNORA80D Gene

Previous GeneCards Identifiers for SNORA80D Gene

  • GC00U936759
  • GC07U904623

Summaries for SNORA80D Gene

GeneCards Summary for SNORA80D Gene

SNORA80D (Small Nucleolar RNA, H/ACA Box 80D) is an RNA Gene, and is affiliated with the snoRNA class.

fRNAdb sequence ontologies for SNORA80D 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.

  • Small nucleolar RNA SNORA42/SNORA80 family: The members of this family belong to the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. Human ACA42 (SNORA42) was cloned from HeLa cells by immunoprecipitation with anti-GAR1 antibody [1]. Its is predicted to guide the pseudouridylation of residues U109 and U572 of 18S rRNA [3]. ACA42 shares the same host gene with ACA26, ACA46, ACA50 [1]. This family also includes mammalian snoRNA ACA67 (SNORA80) which was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. ACA67 is proposed to guide the pseudouridylation of the same 18S rRNA residues as ACA42 [3].

  • Small nucleolar RNA SNORA42/SNORA80 family: The members of this family belong to the H/ACA class of snoRNAs that guide the sites of modification of uridines to pseudouridines [1]. Human ACA42 (SNORA42) was cloned from HeLa cells by immunoprecipitation with anti-GAR1 antibody [1]. Its is predicted to guide the pseudouridylation of residues U109 and U572 of 18S rRNA [3]. ACA42 shares the same host gene with ACA26, ACA46, ACA50 [1]. This family also includes mammalian snoRNA ACA67 (SNORA80) which was identified by computational screening and its expression in mouse experimentally verified by Northern blot and primer extension analysis [2]. ACA67 is proposed to guide the pseudouridylation of the same 18S rRNA residues as ACA42 [3].

View fRNAdb secondary structures for SNORA80D

Additional gene information for SNORA80D 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 SNORA80D Gene

Genomics for SNORA80D Gene

Regulatory Elements for SNORA80D Gene

Enhancers for SNORA80D 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
GH07H006202 0.4 ENCODE 11.1 +185.4 185448 0.2 ZBTB33 SNORA80D GC07M006206 GC07M006175
GH07H006338 0.4 ENCODE 11 +322.2 322248 1.4 COPS2 RAC1 DAGLB EIF2AK1 SNORA80D FAM220A GC07P006327
GH07H006198 0.2 ENCODE 11.1 +182.2 182161 0.9 SNORA80D EIF2AK1 GC07M006206 GC07M006175
GH07H006014 1.2 Ensembl ENCODE 0.7 -0.5 -484 3.1 PKNOX1 ZNF766 ELK1 ATF7 RUNX3 CAVIN1 JUNB ZNF592 MEF2D ATF4 EIF2AK1 ZNF12 RBAK PMS2 C7orf26 TNRC18 ZNF316 USP42 PMS2CL ENSG00000198580
GH07H006007 1.2 ENCODE 0.4 -6.3 -6251 6.3 PKNOX1 FOXA2 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ANKRD61 USP42 RNF216 C7orf26 EIF2AK1 PMS2 ZNF316 ZNF12 PMS2CL TNRC18
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNORA80D on UCSC Golden Path with GeneCards custom track

Genomic Locations for SNORA80D Gene

Genomic Locations for SNORA80D Gene
chr7:6,016,877-6,017,011
(GRCh38/hg38)
Size:
135 bases
Orientation:
Plus strand
chr7:6,056,508-6,056,642
(GRCh37/hg19)

Genomic View for SNORA80D Gene

Genes around SNORA80D on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORA80D Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORA80D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

ORGUL Member Location for SNORA80D Gene

ORGUL Member Location for SNORA80D gene

No data available for RefSeq DNA sequence for SNORA80D Gene

Proteins for SNORA80D Gene

Post-translational modifications for SNORA80D Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORA80D Gene

Domains & Families for SNORA80D Gene

Gene Families for SNORA80D Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORA80D: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORA80D Gene

Function for SNORA80D Gene

Animal Model Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SNORA80D Gene

Localization for SNORA80D 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 SNORA80D Gene

Pathways & Interactions for SNORA80D Gene

SuperPathways for SNORA80D Gene

No Data Available

Interacting Proteins for SNORA80D Gene

Gene Ontology (GO) - Biological Process for SNORA80D Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNORA80D Gene

Drugs & Compounds for SNORA80D Gene

No Compound Related Data Available

Transcripts for SNORA80D Gene

fRNAdb Secondary structures for SNORA80D Gene

  • RF00406;SNORA42;ADDF014847913.1/346-253
  • RF00406;SNORA42;AEKP01199961.1/111-1

mRNA/cDNA for SNORA80D Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SNORA80D Gene

No ASD Table

Relevant External Links for SNORA80D Gene

GeneLoc Exon Structure for
SNORA80D
ECgene alternative splicing isoforms for
SNORA80D

Expression for SNORA80D Gene

No Expression Related Data Available

No data available for mRNA expression in normal human tissues , 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 SNORA80D Gene

Orthologs for SNORA80D Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNORA80D Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNORA42 34
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm26205 34
  • 83 (a)
ManyToMany
Gm23317 34
  • 56 (a)
ManyToMany
Gm24937 34
  • 54 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia SNORA42 34
  • 81 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNORA42 34 34 34
  • 71 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia SNORA42 34
  • 66 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia SNORA42 34
  • 65 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia SNORA42 34
  • 68 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii SNORA42 34
  • 57 (a)
OneToMany
Species where no ortholog for SNORA80D 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)
  • 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 SNORA80D Gene

ENSEMBL:
Gene Tree for SNORA80D (if available)
TreeFam:
Gene Tree for SNORA80D (if available)

Paralogs for SNORA80D Gene

No data available for Paralogs for SNORA80D Gene

Variants for SNORA80D Gene

Relevant External Links for SNORA80D Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORA80D

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations from dbSNP and Humsavar , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for SNORA80D Gene

Disorders for SNORA80D Gene

Relevant External Links for SNORA80D

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNORA80D

No disorders were found for SNORA80D Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNORA80D Gene

Publications for SNORA80D Gene

  1. An updated human snoRNAome. (PMID: 27174936) Jorjani H … Gruber AR (Nucleic acids research 2016) 2 3 60
  2. A computational screen for mammalian pseudouridylation guide H/ACA RNAs. (PMID: 16373490) Schattner P … Lowe TM (RNA (New York, N.Y.) 2006) 1
  3. Human box H/ACA pseudouridylation guide RNA machinery. (PMID: 15199136) Kiss AM … Kiss T (Molecular and cellular biology 2004) 1

Products for SNORA80D Gene

Sources for SNORA80D Gene

Content
Loading form....