Aliases for SNORA40 Gene

Subcategory (RNA class) for SNORA40 Gene

snoRNA

Number of RNA Genes sources:

4 / 17

Aliases for SNORA40 Gene

  • Small Nucleolar RNA, H/ACA Box 40 2 3 5
  • SNORA40 2 5 170
  • SNORA40A 2 3
  • ACA40 2 3
  • ACA40 SnoRNA 3
  • SNODB1203 177
  • SNODB79 177
  • RF00561 168

External Ids for SNORA40 Gene

Previous GeneCards Identifiers for SNORA40 Gene

  • GC11M093143
  • GC11M093152
  • GC11M093158
  • GC11M093164
  • GC11M093170
  • GC11M093180
  • GC11M093190
  • GC11M093200
  • GC11M093471
  • GC11M093478
  • GC11M089545
  • GC11M093486
  • GC11M093502
  • GC11M093510
  • GC11M093518
  • GC11M093528
  • GC11M093543
  • GC11M093567
  • GC11M093740
  • GC11M093752
  • GC11M093950
  • GC11M094036
  • GC11M094049
  • GC11M094227
  • GC11M093762
  • GC11M093773
  • GC11M093783
  • GC11M093794
  • GC11M093805
  • GC11M093814
  • GC11M093944
  • GC11M093930

Summaries for SNORA40 Gene

GeneCards Summary for SNORA40 Gene

SNORA40 (Small Nucleolar RNA, H/ACA Box 40) is an RNA Gene, and is affiliated with the snoRNA class. Diseases associated with SNORA40 include Multiple Sclerosis.

Rfam classification for SNORA40 Gene

  • Small nucleolar RNA SNORA40

Additional gene information for SNORA40 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for SNORA40 Gene

Genomics for SNORA40 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SNORA40 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
GH11J093783 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 11.3 -50.3 -50265 4.2 HNRNPL CREB1 GATAD2A ZNF629 ZNF512 LEF1 ZNF692 POLR2A BACH1 JUND MED17 TAF1D C11orf54 SNORA1 MRE11 ANKRD49 SNORA18 SNORA25 SNORA32 SNORA40
GH11J093654 Enhancer 0.8 Ensembl ENCODE 9.9 +80.9 80884 4.9 CTCF FOXA1 RAD21 TRIM22 SCRT2 EGR1 RUNX3 SMC3 RFX5 GATA3 C11orf54 CEP295 TAF1D SNORA1 SNORA25 SNORA32 SNORD6 MED17 SNORA18 SNORA8
GH11J093768 Enhancer 0.6 Ensembl 11.9 -34.3 -34265 1.8 SOX6 SOX13 NFE2 ZNF530 HDAC2 KDM1A ZEB2 SOX5 CBFA2T2 CBFA2T3 CEP295 SNORA40 SNORA1 SNORA18 SNORA25 SNORA32 SNORA8 SNORD5 SNORD6 MED17
GH11J093796 Promoter 0.6 EPDnew 10.6 -61.3 -61287 0.1 RFX1 NCOR1 ARID1B EMSY RF00015-012 SNODB1210 MED17 C11orf54 SNORA1 SNORA18 SNORA40 SNORA8 SNORD5 SNORD6
GH11J093688 Enhancer 0.4 Ensembl 11.1 +45.6 45636 1.6 SCRT2 SPI1 BATF EBF1 CEP295 C11orf54 SNORA1 SNORA25 SNORA32 SNORD6 ENSG00000199875 SCARNA9 TAF1D SNORA18
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNORA40 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the SNORA40 gene promoter:
  • aMEF-2
  • Evi-1
  • GR
  • GR-alpha
  • MEF-2
  • MEF-2A
  • RORalpha1
  • RSRFC4

Genomic Locations for SNORA40 Gene

Genomic Locations for SNORA40 Gene
chr11:93,735,110-93,735,236
(GRCh38/hg38)
Size:
127 bases
Orientation:
Minus strand
chr11:93,468,276-93,468,402
(GRCh37/hg19)
Size:
127 bases
Orientation:
Minus strand

Genomic View for SNORA40 Gene

Genes around SNORA40 on UCSC Golden Path with GeneCards custom track
SNORA40 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
SNORA40 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORA40 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORA40 Gene

Proteins for SNORA40 Gene

Post-translational modifications for SNORA40 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORA40 Gene

Domains & Families for SNORA40 Gene

Gene Families for SNORA40 Gene

genes like me logo Genes that share domains with SNORA40: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SNORA40 Gene

Function for SNORA40 Gene

Phenotypes From GWAS Catalog for SNORA40 Gene

Animal Model Products

CRISPR 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 SNORA40 Gene

Localization for SNORA40 Gene

Gene Ontology (GO) - Cellular Components for SNORA40 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus IEA --
genes like me logo Genes that share ontologies with SNORA40: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Subcellular locations from the Human Protein Atlas (HPA) for SNORA40 Gene

Pathways & Interactions for SNORA40 Gene

PathCards logo

SuperPathways for SNORA40 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SNORA40 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing IEA --
genes like me logo Genes that share ontologies with SNORA40: view

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for SNORA40 Gene

Drugs & Compounds for SNORA40 Gene

No Compound Related Data Available

Transcripts for SNORA40 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SNORA40 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00002587B6_9606 snoRNA 127 5

HGNC: 32633,

RefSeq: NR_002973,

snoDB: SNODB79,

snOPY: Homo_sapiens300752,

ENA: AJ609445.1:1..127:ncRNA,

URS0000717536_9606 snoRNA 126 3

Ensembl: ENST00000388090 (view in UCSC) ,

Rfam: RF00561,

snoDB: SNODB1203,

SNORA40 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for SNORA40 Gene

1 NCBI additional mRNA sequence :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNORA40 Gene

No ASD Table

Relevant External Links for SNORA40 Gene

GeneLoc Exon Structure for
SNORA40

Expression for SNORA40 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNORA40 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SNORA40

SOURCE GeneReport for Unigene cluster for SNORA40 Gene:

Hs.732267
genes like me logo Genes that share expression patterns with SNORA40: 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 SNORA40 Gene

Orthologs for SNORA40 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNORA40 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SNORA40 31
  • 99 (a)
ManyToMany
Oppossum
(Monodelphis domestica)
Mammalia SNORA40 31
  • 78 (a)
OneToMany
Mouse
(Mus musculus)
Mammalia Gm25183 31
  • 76 (a)
ManyToMany
Platypus
(Ornithorhynchus anatinus)
Mammalia SNORA40 31
  • 73 (a)
OneToMany
Chicken
(Gallus gallus)
Aves SNORA40 31
  • 65 (a)
OneToMany
Species where no ortholog for SNORA40 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Cow (Bos Taurus)
  • Dog (Canis familiaris)
  • 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 Vase (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 SNORA40 Gene

ENSEMBL:
Gene Tree for SNORA40 (if available)
TreeFam:
Gene Tree for SNORA40 (if available)

Paralogs for SNORA40 Gene

No data available for Paralogs for SNORA40 Gene

Variants for SNORA40 Gene

Additional dbSNP identifiers (rs#s) for SNORA40 Gene

Structural Variations from Database of Genomic Variants (DGV) for SNORA40 Gene

Variant ID Type Subtype PubMed ID
esv3627294 CNV gain 21293372
nsv832232 CNV gain 17160897
nsv983054 CNV duplication 23825009

Additional Variant Information for SNORA40 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORA40

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for SNORA40 Gene

Disorders for SNORA40 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SNORA40 Gene - From: LncRNADisease

Disorder Aliases PubMed IDs
multiple sclerosis
  • multiple sclerosis, susceptibility to
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SNORA40

genes like me logo Genes that share disorders with SNORA40: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNORA40 Gene

Publications for SNORA40 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) 2 3
  2. Human box H/ACA pseudouridylation guide RNA machinery. (PMID: 15199136) Kiss AM … Kiss T (Molecular and cellular biology 2004) 2 3
  3. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3
  4. Eukaryotic snoRNAs: a paradigm for gene expression flexibility. (PMID: 19446021) Dieci G … Montanini B (Genomics 2009) 3

Products for SNORA40 Gene

Sources for SNORA40 Gene