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SNORA5C Gene(RNA Gene)

Small Nucleolar RNA, H/ACA Box 5C

GCID:
GC07M045130
GIFtS:
18
Genes Participants
UDN Logo

Aliases for SNORA5C Gene

Subcategory (RNA class) for SNORA5C Gene

snoRNA

Quality Score for this RNA gene is

7

Aliases for SNORA5C Gene

  • Small Nucleolar RNA, H/ACA Box 5C 2 3 5
  • HBI-80 3
  • ACA5c 3

External Ids for SNORA5C Gene

ORGUL Members for SNORA5C Gene

Previous GeneCards Identifiers for SNORA5C Gene

  • GC07M045111
  • GC07M045144
  • GC07M045028
  • GC07M045108
  • GC07M045115
  • GC07M045122
  • GC07M045126

Summaries for SNORA5C Gene

Entrez Gene Summary for SNORA5C Gene

  • Small nucleolar RNAs (snoRNAs) are small noncoding RNAs involved in RNA processing. Box H/ACA snoRNAs, such as SNORA5C, direct the conversion of uridine to pseudouridine at specific residues of ribosomal RNAs or small nuclear RNAs (snRNAs) (Gu et al., 2005).[supplied by OMIM, Mar 2008]

GeneCards Summary for SNORA5C Gene

SNORA5C (Small Nucleolar RNA, H/ACA Box 5C) is an RNA Gene, and is affiliated with the snoRNA class.

fRNAdb sequence ontologies for SNORA5C 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.

  • ncRNA: An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product.

  • Small nucleolar RNA SNORA5: ACA5 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1].

  • Small nucleolar RNA SNORA5: ACA5 is a member of the H/ACA class of snoRNA that guide the sites of modification of uridines to pseudouridines [1].

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for SNORA5C Gene

Genomics for SNORA5C Gene

Products:

  1. Regulatory Element

Regulatory Elements for SNORA5C Gene

Enhancers for SNORA5C 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
GH07F044613 1.6 FANTOM5 Ensembl ENCODE 16 +484.7 484651 13.0 HDGF ATF1 WRNIP1 FEZF1 DMAP1 GTF3C2 ZNF121 FOS JUNB MIER3 PURB DDX56 ZMIZ2 SNORA5C ENSG00000228434 SNORA5B SNORA5A ENSG00000228596 TBRG4 MYO1G
GH07F044733 1.4 FANTOM5 Ensembl ENCODE 16 +369.6 369568 4.1 KLF17 SIN3A RAD21 RFX5 GTF3C2 ZNF121 SCRT2 FOS CREM EGR2 PURB SNORA5C DDX56 ENSG00000228434 SNORA5B SNORA5A MYO1G TBRG4 POLR2J4 ZMIZ2
GH07F044754 1.4 Ensembl ENCODE 12.1 +349.0 349033 4.0 HDGF PKNOX1 MLX CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ENSG00000228596 ELK1P1 SNORA5C SNORA5B DDX56 SNHG15 GC07M044752 PIR36062
GH07F044184 1.1 Ensembl ENCODE 14.2 +920.0 920006 1.8 YBX3 KLF17 SIN3A GLI4 RFX5 GLIS2 ZNF366 SCRT2 RCOR1 FOS ENSG00000228680 ENSG00000228596 RPL18AP10 SNORA5B SNORA5C ENSG00000228434 SPDYE1 TBRG4 DDX56 YKT6
GH07F044795 1.2 ENCODE 12.1 +307.6 307601 4.1 HDGF PKNOX1 CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 ZMIZ2 H2AFV ENSG00000228596 ELK1P1 SEPT7P2 SNORA5C LINC01952 SNORA5B DDX56 SNHG15
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNORA5C on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the SNORA5C gene promoter:

Genomic Location for SNORA5C Gene

Chromosome:
7
Start:
45,104,906 bp from pter
End:
45,105,042 bp from pter
Size:
137 bases
Orientation:
Minus strand

Genomic View for SNORA5C Gene

Genes around SNORA5C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORA5C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORA5C Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SNORA5C Gene

ORGUL Member Location for SNORA5C Gene

ORGUL Member Location for SNORA5C gene

Proteins for SNORA5C Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for SNORA5C Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORA5C Gene

Domains & Families for SNORA5C Gene

Gene Families for SNORA5C Gene

HGNC:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORA5C: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORA5C Gene

Function for SNORA5C Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Animal Model Products

Clone Products

Flow Cytometry 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 SNORA5C Gene

Localization for SNORA5C Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SNORA5C Gene

Pathways & Interactions for SNORA5C Gene

SuperPathways for SNORA5C Gene

PathCards logo More details on SuperPathways for SNORA5C
No Data Available

Interacting Proteins for SNORA5C Gene

Gene Ontology (GO) - Biological Process for SNORA5C Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNORA5C Gene

Drugs & Compounds for SNORA5C Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SNORA5C Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for SNORA5C Gene

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

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNORA5C Gene

No ASD Table

Relevant External Links for SNORA5C Gene

GeneLoc Exon Structure for
SNORA5C
ECgene alternative splicing isoforms for
SNORA5C

Expression for SNORA5C Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNORA5C Gene

mRNA expression in normal human tissues for SNORA5C Gene
mRNA expression by GTEx for SNORA5C Gene

NURSA nuclear receptor signaling pathways regulating expression of SNORA5C Gene:

SNORA5C

SOURCE GeneReport for Unigene cluster for SNORA5C Gene:

Hs.692718
genes like me logo Genes that share expression patterns with SNORA5C: 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 and mRNA Expression by UniProt/SwissProt for SNORA5C Gene

Orthologs for SNORA5C Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNORA5C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia SNORA5 35
  • 99 (a)
 OneToOne
cow
(Bos Taurus)
 Mammalia SNORA5 35
  • 87 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia SNORA5 35
  • 87 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Snora5c 35
  • 78 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia SNORA5 35 35
  • 69 (a)
 ManyToMany
platypus
(Ornithorhynchus anatinus)
 Mammalia SNORA5 35
  • 66 (a)
 OneToMany
chicken
(Gallus gallus)
 Aves SNORA5 35
  • 64 (a)
 ManyToMany
lizard
(Anolis carolinensis)
 Reptilia SNORA5 35
  • 62 (a)
 ManyToMany
zebrafish
(Danio rerio)
 Actinopterygii SNORA5 35 35 35 35
  • 56 (a)
 ManyToMany
Species where no ortholog for SNORA5C 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)
  • 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 SNORA5C Gene

ENSEMBL:
Gene Tree for SNORA5C (if available)
TreeFam:
Gene Tree for SNORA5C (if available)

Paralogs for SNORA5C Gene

No data available for Paralogs for SNORA5C Gene

Variants for SNORA5C Gene

Sequence variations from dbSNP and Humsavar for SNORA5C Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs112916426 -- 45,105,522(+) TCTTC(A/C/T)ATTTC downstream-variant-500B, upstream-variant-2KB, reference, synonymous-codon, missense
rs113885365 -- 45,106,376(+) CAGCT(C/G/T)CAAGT intron-variant, upstream-variant-2KB
rs11541070 -- 45,104,606(-) CATCT(C/T)CTACC intron-variant, downstream-variant-500B, upstream-variant-2KB, reference, missense
rs137899623 -- 45,105,600(+) AGGGT(A/G)GCACA downstream-variant-500B, upstream-variant-2KB, reference, synonymous-codon
rs139255897 -- 45,105,733(+) GCAGC(C/T)TCGAG downstream-variant-500B, upstream-variant-2KB, reference, missense

Relevant External Links for SNORA5C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORA5C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for SNORA5C Gene

Disorders for SNORA5C Gene

Relevant External Links for SNORA5C

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNORA5C

No disorders were found for SNORA5C Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNORA5C Gene

Publications for SNORA5C Gene

  1. snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs. (PMID: 16381836) Lestrade L. … Weber M.J. (Nucleic Acids Res. 2006) 1 2 3 64
  2. Human box H/ACA pseudouridylation guide RNA machinery. (PMID: 15199136) Kiss A.M. … Kiss T. (Mol. Cell. Biol. 2004) 1 2 3 64
  3. A novel experimental approach for systematic identification of box H/ACA snoRNAs from eukaryotes. (PMID: 16361266) Gu A.D. … Qu L.H. (Nucleic Acids Res. 2005) 1 3 64
  4. Eukaryotic snoRNAs: a paradigm for gene expression flexibility. (PMID: 19446021) Dieci G. … Montanini B. (Genomics 2009) 3 64
  5. The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts. (PMID: 18089548) . … Gojobori T. (Nucleic Acids Res. 2008) 1

Products for SNORA5C Gene

Sources for SNORA5C Gene

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