SNORD125 Gene (RNA Gene)

Small Nucleolar RNA, C/D Box 125

GC22M029337
GIFtS:
13
See more...

Aliases for SNORD125 Gene

Data sources for SNORD125 Gene:

Subcategory (RNA class) for SNORD125 Gene

snoRNA

Aliases for SNORD125 Gene

External Ids for SNORD125 Gene

Previous GeneCards Identifiers for SNORD125 Gene

  • GC22U900386
  • GC22M028059
  • GC22M029729
  • GC22M012693
  • GC22M029334
  • GC22M029335

Summaries for SNORD125 Gene

GeneCards Summary for SNORD125 Gene

SNORD125 (Small Nucleolar RNA, C/D Box 125) is an RNA Gene, and is affiliated with the snoRNA class.

Rfam classification for SNORD125 Gene

  • Small nucleolar RNA SNORD125

Additional gene information for SNORD125 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 SNORD125 Gene

Genomics for SNORD125 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for SNORD125 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
GH22J029334 Enhancer 0.6 Ensembl dbSUPER 250.7 -1.9 -1902 0.6 FOXA2 FOXA1 RAD21 NFIA FOXA3 ENSG00000280968 SNORD125 GAS2L1 HSALNG0134826 RASL10A L13304-023 AP1B1
GH22J029332 Enhancer 0.2 dbSUPER 250.7 +0.1 96 1 ENSG00000280968 SNORD125 GAS2L1 RHBDD3 AP1B1 lnc-AP1B1-2 RASL10A L13304-023
GH22J029381 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 12.1 -52.1 -52146 8.1 SP1 ZBTB10 MXD4 CEBPA NR2C1 MNT SMAD5 ETS1 ZFP64 ZNF217 AP1B1 RASL10A SNORD125 ZNRF3 GAS2L1 RHBDD3 ENSG00000285697 piR-35674-333 L13304-023
GH22J029363 Promoter/Enhancer 1.8 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 12.3 -35.0 -35043 10.6 IKZF1 ZIC2 SIN3A ZEB2 FOSL1 SPI1 MYC JUND MAX ZNF189 AP1B1 RASL10A EWSR1 GAS2L1 SF3A1 SNORD125 TBC1D10A ENSG00000272858 THOC5 NIPSNAP1
GH22J029375 Enhancer 0.9 ENCODE dbSUPER 12.2 -43.8 -43761 3.4 ZNF217 CUX1 RXRA CTBP1 SMARCE1 ZNF189 RAD51 DPF2 ATF4 NCOA3 RASL10A SNORD125 AP1B1 NIPSNAP1 RHBDD3 ENSG00000285697 piR-35674-333 L13304-023
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNORD125 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the SNORD125 gene promoter:
  • AML1a
  • AP-1
  • GR
  • GR-alpha
  • Pax-2
  • Pax-2a
  • USF-1
  • USF-1:USF-2
  • USF1
  • USF2

Genomic Locations for SNORD125 Gene

Latest Assembly
chr22:29,333,163-29,333,258
(GRCh38/hg38)
Size:
96 bases
Orientation:
Minus strand

Previous Assembly
chr22:29,729,152-29,729,247
(GRCh37/hg19 by Entrez Gene)
Size:
96 bases
Orientation:
Minus strand

chr22:29,729,152-29,729,247
(GRCh37/hg19 by Ensembl)
Size:
96 bases
Orientation:
Minus strand

Genomic View for SNORD125 Gene

Genes around SNORD125 on UCSC Golden Path with GeneCards custom track
SNORD125 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
SNORD125 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORD125 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SNORD125 Gene

Proteins for SNORD125 Gene

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  3. Assay products for research

Post-translational modifications for SNORD125 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORD125 Gene

Domains & Families for SNORD125 Gene

Gene Families for SNORD125 Gene

HGNC:
genes like me logo Genes that share domains with SNORD125: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SNORD125 Gene

Function for SNORD125 Gene

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  1. Animal Models for research
  2. CRISPR products for research
  3. miRNA products for research
  4. Inhibitory RNAs for research
  5. Clone products for research
  6. Cell Lines for research

Phenotypes From GWAS Catalog for SNORD125 Gene

CRISPR products for research

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 SNORD125 Gene

Localization for SNORD125 Gene

Gene Ontology (GO) - Cellular Components for SNORD125 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus IEA --
genes like me logo Genes that share ontologies with SNORD125: 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 SNORD125 Gene

Pathways & Interactions for SNORD125 Gene

PathCards logo

SuperPathways for SNORD125 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SNORD125 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing IEA --
genes like me logo Genes that share ontologies with SNORD125: view

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for SNORD125 Gene

Drugs & Compounds for SNORD125 Gene

Products:

  1. Drug products for research
No Compound Related Data Available

Transcripts for SNORD125 Gene

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  2. miRNA products for research
  3. Inhibitory RNAs for research
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Non-coding RNA (ncRNA) Transcripts from RNAcentral for SNORD125 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000068C891_9606 snoRNA 96 4

RefSeq: NR_003686,

Ensembl: ENST00000459538 (view in UCSC) ,

Rfam: RF01200,

snoDB: SNODB660,

SNORD125 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

CRISPR products for research

Alternative Splicing Database (ASD) splice patterns (SP) for SNORD125 Gene

No ASD Table

Relevant External Links for SNORD125 Gene

GeneLoc Exon Structure for
SNORD125

No data available for mRNA/cDNA for SNORD125 Gene

Expression for SNORD125 Gene

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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNORD125 Gene

mRNA expression in normal human tissues for SNORD125 Gene
mRNA expression by GTEx for SNORD125 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SNORD125

genes like me logo Genes that share expression patterns with SNORD125: 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 SNORD125 Gene

Orthologs for SNORD125 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNORD125 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia SNORD125 31
  • 100 (a)
 OneToOne
Dog
(Canis familiaris)
 Mammalia SNORD125 31
  • 85 (a)
 OneToOne
Cow
(Bos Taurus)
 Mammalia SNORD125 31 31
  • 82 (a)
 OneToMany
Mouse
(Mus musculus)
 Mammalia Gm24958 31
  • 80 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves SNORD125 31
  • 63 (a)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia SNORD125 31
  • 66 (a)
 OneToOne
Species where no ortholog for SNORD125 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)
  • 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)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • 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 SNORD125 Gene

ENSEMBL:
Gene Tree for SNORD125 (if available)
TreeFam:
Gene Tree for SNORD125 (if available)

Paralogs for SNORD125 Gene

No data available for Paralogs for SNORD125 Gene

Variants for SNORD125 Gene

Products:

  1. SNP Genotyping and Copy Number Assays for research

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SNORD125 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SNORD125 Gene

Variant ID Type Subtype PubMed ID
nsv834171 CNV loss 17160897

Additional Variant Information for SNORD125 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORD125

SNP Genotyping and Copy Number Assays for research

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 SNORD125 Gene

Disorders for SNORD125 Gene

Additional Disease Information for SNORD125

Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SNORD125 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNORD125 Gene

Publications for SNORD125 Gene

  1. Genome-wide association study identifies multiple susceptibility loci for pancreatic cancer. (PMID: 25086665) Wolpin BM … Amundadottir LT (Nature genetics 2014) 3
  2. Eukaryotic snoRNAs: a paradigm for gene expression flexibility. (PMID: 19446021) Dieci G … Montanini B (Genomics 2009) 3
  3. snoSeeker: an advanced computational package for screening of guide and orphan snoRNA genes in the human genome. (PMID: 16990247) Yang JH … Qu LH (Nucleic acids research 2006) 3

ExternalLinks

View latest publications for SNORD125 gene in Mastermind

Products for SNORD125 Gene

Sources for SNORD125 Gene