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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SNORD43 Gene

RNA gene   GIFtS: 15
GCID: GC22M039726

small nucleolar RNA, C/D box 43

(Previous names: RNA, U43 small nuclear )
(Previous symbol: RNU43)
  Search for SNORD43
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Aliases
for SNORD43 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Subcategory (RNA class): snoRNA

Quality score for this RNA gene is 4

Aliases
Small Nucleolar RNA, C/D Box 431 2
RNU431 2 5
U431 2
RNA, U43 Small Nuclear1

External Ids:    HGNC: 101821   Entrez Gene: 268072   Ensembl: ENSG000002637647   OMIM: 6110685   
ORGUL members:    fRNAdb10:FR175833 FR356686 FR219739      
Rfam:RF00221    

Export aliases for SNORD43 gene to outside databases

Previous GC identifers: GC22M038045 GC22M039708 GC22M039716 GC22M039718 GC22M039720 GC22M039722


Summaries
for SNORD43 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for SNORD43:
Intronic regions of ribosomal protein genes can harbor noncoding small nucleolar RNAs (snoRNAs), like SNORD43, which
are generated during pre-mRNA processing. snoRNAs form part of the small nucleolar ribonucleoprotein particles
(snoRNPs) involved in pre-rRNA processing and modification. snoRNAs of the box C/D class, like SNORD43, function in
2-prime-O-ribose methylation of rRNAs (Duga et al., 2000 (PubMed 10684968)).(supplied by OMIM, Mar 2008)



fRNAdb sequence ontology for SNORD43:
Small nucleolar RNA SNORD43 - U43 is a C/D box small nucleolar RNA that is encoded in intron 1 of the ribosomal protein L3 gene in human and cow [2]. Three other snoRNAs ( U82, U83a and U83b) are also encoded in the same host gene but from different introns [2]. The rice homologue is expressed from a cluster also containing snoR16 [1]. The Arabidopsis homologue is annotated as snoR41 in the sequence databases. U43 is hypothesised to guide methylation of 2'-O-ribose residues on 18S ribosomal RNA [1].

Genomic Views
for SNORD43 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
 Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SNORD43 gene promoter:
         ER-alpha   STAT1   AML1a   Bach2   STAT1beta   CUTL1   STAT1alpha   STAT2   ATF6   
         Other transcription factors

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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNORD43


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 22q13   Ensembl cytogenetic band:  22q13.1   HGNC cytogenetic band: 22q13.1

SNORD43 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SNORD43 gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22M039726:  view genomic region     (about GC identifiers)

Start:
 39,715,055 bp from pter      End:
 39,715,118 bp from pter
Size:
 64 bases      Orientation:
 minus strand

Proteins
for SNORD43 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB: --

Protein Domains /
Families
for SNORD43 gene

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
   --

Function
for SNORD43 gene

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section
miRNA
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Inhib. RNA
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In Situ Assay
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Pathways & Interactions
for SNORD43 gene

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SNORD43

Drugs & Compounds
for SNORD43 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
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Search CenterWatch for drugs/clinical trials and news about SNORD43 

Transcripts
for SNORD43 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000583861(snoRNA)

miRNA
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Inhib. RNA
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Primer
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GeneLoc Exon Structure


Expression
for SNORD43 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

Expression evidence for SNORD43:none

See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --
    SABiosciences Custom PCR Arrays for SNORD43

Primer
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In Situ
Assay Products: 
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Orthologs
for SNORD43 gene

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section
This gene was present in the common ancestor of human and mouse.

Orthologs for SNORD43 gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification		 Gene Description Human
Similarity		 Orthology
Type		 Details
mouse
(Mus musculus)		 Mammalia Snord435 small nucleolar RNA, C/D box 43   --   15 (37.85 cM) 80082859 


ENSEMBL Gene Tree for SNORD43 (if available)
TreeFam Gene Tree for SNORD43 (if available) 

Paralogs
for SNORD43 gene

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for SNORD43 gene
ENSG000002122772  

SNORD43 for paralogs           About GeneDecksing



Genomic Variants
for SNORD43 gene

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
SABiosciences Cancer Mutation PCR Assays
Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SNORD43
DNA2.0 Custom Variant and Variant Library Synthesis for SNORD43

Disorders / Diseases
for SNORD43 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
SNORD43 for disorders           About MalaCards

SNORD43 for disorders           About GeneDecksing

OMIM gene information: 611068    OMIM disorders: --


Export disorders for SNORD43 gene to outside databases

Publications
for SNORD43 gene

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed articles for SNORD43 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SNORD43)		    Utopia: connect your pdf to the dynamic
world of online information

  1. Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs. (PubMed id 8674114)1, 3 Kiss-Laszlo Z....Kiss T. (1996)
  2. Eukaryotic snoRNAs: a paradigm for gene expression fl exibility. (PubMed id 19446021)1 Dieci G....Montanini B. (2009)
  3. The intron-containing L3 ribosomal protein gene (RPL3): sequence analysis and identification of U43 and of two novel intronic small nucleolar RNAs. (PubMed id 10684968)1 Duga S....Simonic T. (2000)

External Searches for SNORD43 gene

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  
  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

Genome Databases showing SNORD43 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 26807 HGNC: 10182 Ensembl:ENSG00000263764 euGenes: HUgn26807 ECgene: SNORD43
H-InvDB: SNORD43

Other Databases showing SNORD43 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing SNORD43 gene

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for SNORD43 Pharmacogenomics, SNPs, Pathways

Intellectual Property
for SNORD43 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for SNORD43 gene:
Search GeneIP for patents involving SNORD43

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



Products
for SNORD43 gene

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About This Section

 
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