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

Aliases for SNORA80B Gene

Subcategory (RNA class) for SNORA80B Gene

snoRNA

Quality Score for this RNA gene is

5

Aliases for SNORA80B Gene

  • Small Nucleolar RNA, H/ACA Box 80B 2 3 5
  • ACA67B 3

External Ids for SNORA80B Gene

Previous GeneCards Identifiers for SNORA80B Gene

  • GC00U922697
  • GC02M010586

Summaries for SNORA80B Gene

GeneCards Summary for SNORA80B Gene

SNORA80B (Small Nucleolar RNA, H/ACA Box 80B) is an RNA Gene, and is affiliated with the snoRNA class.

fRNAdb sequence ontologies for SNORA80B 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].

View fRNAdb secondary structures for SNORA80B

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for SNORA80B Gene

Genomics for SNORA80B Gene

Regulatory Elements for SNORA80B Gene

Enhancers for SNORA80B 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
GH02G010403 2 FANTOM5 Ensembl ENCODE dbSUPER 11.5 +38.8 38825 8.3 HDGF PKNOX1 CREB3L1 ARNT ARID4B SIN3A YBX1 DMAP1 ZNF2 YY1 HPCAL1 LOC101929691 SNORA80B PIR41580
GH02G010399 1.8 FANTOM5 Ensembl ENCODE dbSUPER 11.5 +45.4 45400 3.6 FOXA2 MLX ARID4B DMAP1 ZNF48 GATA2 FOS SP5 MIER2 PPARG HPCAL1 LOC101929691 SNORA80B KLF11 PIR41580
GH02G010327 1.9 FANTOM5 Ensembl ENCODE dbSUPER 10.3 +116.1 116140 6.1 HDGF ATF1 PKNOX1 CREB3L1 ARNT ZFP64 SIN3A DMAP1 TCF12 ZNF121 HPCAL1 LOC101929691 SNORA80B TAF1B PIR41580
GH02G010119 1.8 FANTOM5 ENCODE dbSUPER 10.8 +324.4 324415 6.1 CREB3L1 ZFP64 DMAP1 YY1 ZNF143 ZNF263 SP3 NFYC MEF2D ZNF610 RRM2 ENSG00000233502 CYS1 SNORA80B HPCAL1 LOC101929691 TAF1B ODC1 C2orf48
GH02G010412 1.4 Ensembl ENCODE dbSUPER 12 +32.5 32496 3.9 ATF1 CBX3 NFIB ARNT RAD21 CHAMP1 YY1 ETS1 CBX5 ZNF143 HPCAL1 SNORA80B PIR41580 GC02M010446
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNORA80B on UCSC Golden Path with GeneCards custom track

Promoters for SNORA80B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000112787 -1351 2401 HDGF FOXA2 MLX ARNT CREB3L1 ZFP64 ARID4B SIN3A DMAP1 ZNF2

Genomic Location for SNORA80B Gene

Chromosome:
2
Start:
10,446,714 bp from pter
End:
10,446,849 bp from pter
Size:
136 bases
Orientation:
Minus strand

Genomic View for SNORA80B Gene

Genes around SNORA80B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORA80B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORA80B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORA80B Gene

ORGUL Member Location for SNORA80B Gene

ORGUL Member Location for SNORA80B gene

Proteins for SNORA80B Gene

Post-translational modifications for SNORA80B Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORA80B Gene

Domains & Families for SNORA80B Gene

Gene Families for SNORA80B Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORA80B: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORA80B Gene

Function for SNORA80B 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 SNORA80B Gene

Localization for SNORA80B Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SNORA80B Gene

Pathways & Interactions for SNORA80B Gene

SuperPathways for SNORA80B Gene

No Data Available

Interacting Proteins for SNORA80B Gene

Gene Ontology (GO) - Biological Process for SNORA80B Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNORA80B Gene

Drugs & Compounds for SNORA80B Gene

No Compound Related Data Available

Transcripts for SNORA80B Gene

fRNAdb Secondary structures for SNORA80B Gene

  • RF00406;SNORA42;DAAB011010585.1/827-925

mRNA/cDNA for SNORA80B Gene

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

Unigene Clusters for SNORA80B Gene

Small nucleolar RNA, H/ACA box 80B:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SNORA80B Gene

No ASD Table

Relevant External Links for SNORA80B Gene

GeneLoc Exon Structure for
SNORA80B
ECgene alternative splicing isoforms for
SNORA80B

Expression for SNORA80B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNORA80B Gene

NURSA nuclear receptor signaling pathways regulating expression of SNORA80B Gene:

SNORA80B

SOURCE GeneReport for Unigene cluster for SNORA80B Gene:

Hs.730525
genes like me logo Genes that share expression patterns with SNORA80B: 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 SNORA80B Gene

Orthologs for SNORA80B Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNORA80B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNORA42 35
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNORA42 35
  • 92 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SNORA42 35
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm26394 35
  • 78 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia SNORA42 35 35
  • 77 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia SNORA42 35
  • 68 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia SNORA42 35
  • 69 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii SNORA42 35
  • 59 (a)
OneToMany
Species where no ortholog for SNORA80B 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 SNORA80B Gene

ENSEMBL:
Gene Tree for SNORA80B (if available)
TreeFam:
Gene Tree for SNORA80B (if available)

Paralogs for SNORA80B Gene

No data available for Paralogs for SNORA80B Gene

Variants for SNORA80B Gene

Sequence variations from dbSNP and Humsavar for SNORA80B Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs2302615 other 10,448,012(+) GTCTC(C/T)GCAGG intron-variant, upstream-variant-2KB
rs1000101367 -- 10,447,155(+) CTGTA(C/T)CTTTT intron-variant, upstream-variant-2KB
rs1000614261 -- 10,446,692(+) TCTGC(C/G)AGGTA intron-variant, downstream-variant-500B
rs1000665289 -- 10,446,949(+) AACAA(C/T)GCTAG intron-variant, upstream-variant-2KB
rs1001108181 -- 10,448,171(+) GACGC(C/T)GGAGC upstream-variant-2KB, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for SNORA80B Gene

Variant ID Type Subtype PubMed ID
nsv1007185 CNV gain 25217958
nsv580963 CNV gain 21841781

Relevant External Links for SNORA80B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORA80B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNORA80B Gene

Disorders for SNORA80B Gene

Relevant External Links for SNORA80B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNORA80B

No disorders were found for SNORA80B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNORA80B Gene

Publications for SNORA80B Gene

  1. Eukaryotic snoRNAs: a paradigm for gene expression flexibility. (PMID: 19446021) Dieci G. … Montanini B. (Genomics 2009) 3 64
  2. A computational screen for mammalian pseudouridylation guide H/ACA RNAs. (PMID: 16373490) Schattner P. … Lowe T.M. (RNA 2006) 1
  3. Human box H/ACA pseudouridylation guide RNA machinery. (PMID: 15199136) Kiss A.M. … Kiss T. (Mol. Cell. Biol. 2004) 1

Products for SNORA80B Gene

Sources for SNORA80B Gene

Content
Loading form....