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Aliases for SNORD88C Gene

Subcategory (RNA class) for SNORD88C Gene

snoRNA

Quality Score for this RNA gene is

3

Aliases for SNORD88C Gene

  • Small Nucleolar RNA, C/D Box 88C 2 3 5
  • HBII-180C 3

External Ids for SNORD88C Gene

ORGUL Members for SNORD88C Gene

Previous GeneCards Identifiers for SNORD88C Gene

  • GC19U900586
  • GC19M056000
  • GC19M051305
  • GC19M047640

Summaries for SNORD88C Gene

GeneCards Summary for SNORD88C Gene

SNORD88C (Small Nucleolar RNA, C/D Box 88C) is an RNA Gene, and is affiliated with the snoRNA class.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNORD88C Gene

Genomics for SNORD88C Gene

Regulatory Elements for SNORD88C Gene

Enhancers for SNORD88C 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
GH19F050835 1.7 FANTOM5 Ensembl ENCODE 11.8 -33.8 -33826 1.7 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A FEZF1 YY1 ZNF766 ZNF143 ENSG00000268375 GPR32 SIGLEC21P LOC100133225 ENSG00000269021 ENSG00000268595 LINC01872 ENSG00000268889 NUP62 PTOV1-AS2
GH19F050720 1.5 FANTOM5 ENCODE 10.9 +79.1 79065 5.7 HDGF PKNOX1 CREB3L1 ARNT SIN3A ZNF2 ZNF766 FOS KLF13 ZNF263 CLEC11A C19orf48 GPR32 SNORD88A SNORD88B SNORD88C LINC01869 KLK1 KLK15 SPACA6P-AS
GH19F050357 1.5 FANTOM5 ENCODE 10.3 +443.9 443870 2.9 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B ZNF2 YY1 ZNF143 ZNF207 NAPSB POLD1 AKT1S1 PRR12 PIH1D1 KCNC3 NUP62 NR1H2 CTU1 FLT3LG
GH19F050555 1.5 FANTOM5 Ensembl ENCODE 10 +245.9 245880 2.0 HDGF ATF1 SIN3A ZNF48 ZNF2 ZNF121 GLIS2 ZNF143 ZNF207 SP3 ASPDH JOSD2 LINC01869 C19orf48 SNORD88C KLK4 C19orf81 SYT3 ACPT LRRC4B
GH19F050727 1.2 Ensembl ENCODE 10.9 +74.0 73954 1.3 HDGF TBP HDAC1 CBX3 ATF1 TBL1XR1 CREB3L1 DEAF1 ZBTB40 FOS GPR32 SNORD88A SNORD88B SNORD88C C19orf48 LINC01869 KLK1 KLK15 FUZ KLK8
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNORD88C on UCSC Golden Path with GeneCards custom track

Genomic Location for SNORD88C Gene

Chromosome:
19
Start:
50,802,325 bp from pter
End:
50,802,421 bp from pter
Size:
97 bases
Orientation:
Minus strand

Genomic View for SNORD88C Gene

Genes around SNORD88C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORD88C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORD88C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORD88C Gene

Proteins for SNORD88C Gene

Post-translational modifications for SNORD88C Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORD88C Gene

Domains & Families for SNORD88C Gene

Gene Families for SNORD88C Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORD88C: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORD88C Gene

Function for SNORD88C Gene

Animal Model 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 SNORD88C Gene

Localization for SNORD88C Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SNORD88C Gene

Pathways & Interactions for SNORD88C Gene

SuperPathways for SNORD88C Gene

No Data Available

Interacting Proteins for SNORD88C Gene

Gene Ontology (GO) - Biological Process for SNORD88C Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNORD88C Gene

Transcripts for SNORD88C Gene

mRNA/cDNA for SNORD88C Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SNORD88C Gene

No ASD Table

Relevant External Links for SNORD88C Gene

GeneLoc Exon Structure for
SNORD88C
ECgene alternative splicing isoforms for
SNORD88C

Expression for SNORD88C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNORD88C Gene

mRNA differential expression in normal tissues according to GTEx for SNORD88C Gene

This gene is overexpressed in Prostate (x11.2).

NURSA nuclear receptor signaling pathways regulating expression of SNORD88C Gene:

SNORD88C
genes like me logo Genes that share expression patterns with SNORD88C: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for SNORD88C Gene

Orthologs for SNORD88C Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNORD88C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNORD88 35
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SNORD88 35
  • 91 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNORD88 35
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm26247 35
  • 84 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNORD88 35
  • 84 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia SNORD88 35
  • 76 (a)
ManyToMany
chicken
(Gallus gallus)
Aves SNORD88 35
  • 54 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia SNORD88 35
  • 70 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii SNORD88 35
  • 59 (a)
OneToMany
Species where no ortholog for SNORD88C 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 SNORD88C Gene

ENSEMBL:
Gene Tree for SNORD88C (if available)
TreeFam:
Gene Tree for SNORD88C (if available)

Paralogs for SNORD88C Gene

No data available for Paralogs for SNORD88C Gene

Variants for SNORD88C Gene

Sequence variations from dbSNP and Humsavar for SNORD88C Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10401588 -- 50,802,030(+) ACCTC(A/G)GCCTC intron-variant, downstream-variant-500B
rs10853825 -- 50,803,691(+) ACTTG(C/T)GACAT intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs111547225 -- 50,804,243(+) TCTCC(C/T)CCAAC intron-variant, upstream-variant-2KB
rs111685773 -- 50,804,253(+) CCAAA(C/T)CGACA intron-variant, upstream-variant-2KB
rs112814242 -- 50,804,197(+) AAACA(C/G)TCGGA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SNORD88C Gene

Variant ID Type Subtype PubMed ID
nsv1140251 OTHER inversion 24896259
dgv203n21 CNV loss 19592680

Relevant External Links for SNORD88C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORD88C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNORD88C Gene

Disorders for SNORD88C Gene

Relevant External Links for SNORD88C

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNORD88C

No disorders were found for SNORD88C Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNORD88C Gene

Publications for SNORD88C Gene

  1. RNomics: an experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse. (PMID: 11387227) HA1ttenhofer A. … Brosius J. (EMBO J. 2001) 2 3 64
  2. Multiple myeloma-associated chromosomal translocation activates orphan snoRNA ACA11 to suppress oxidative stress. (PMID: 22751105) Chu L. … Tomasson M.H. (J. Clin. Invest. 2012) 3 64
  3. Eukaryotic snoRNAs: a paradigm for gene expression flexibility. (PMID: 19446021) Dieci G. … Montanini B. (Genomics 2009) 3 64

Products for SNORD88C Gene

Sources for SNORD88C Gene

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