Aliases for SNORD28 Gene

Data sources for SNORD28 Gene:

Subcategory (RNA class) for SNORD28 Gene

snoRNA

Aliases for SNORD28 Gene

External Ids for SNORD28 Gene

Previous HGNC Symbols for SNORD28 Gene

  • RNU28

Previous GeneCards Identifiers for SNORD28 Gene

  • GC11M062397
  • GC11M062405
  • GC11M062415
  • GC11M062424
  • GC11M062627
  • GC11M062632
  • GC11M058954
  • GC11M062639
  • GC11M062647
  • GC11M062652
  • GC11M062657
  • GC11M062669
  • GC11M062858
  • GC11M062867
  • GC11M062974
  • GC11M062999
  • GC11M063026
  • GC11M063091
  • GC11M062875
  • GC11M062885
  • GC11M062893
  • GC11M062901
  • GC11M062907
  • GC11M062915
  • GC11M062923
  • GC11M062946
  • GC11M063453

Summaries for SNORD28 Gene

GeneCards Summary for SNORD28 Gene

SNORD28 (Small Nucleolar RNA, C/D Box 28) is an RNA Gene, and is affiliated with the snoRNA class. Diseases associated with SNORD28 include Microcephalic Osteodysplastic Primordial Dwarfism, Type I.

Rfam classification for SNORD28 Gene

  • Small nucleolar RNA SNORD28

Additional gene information for SNORD28 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 SNORD28 Gene

Genomics for SNORD28 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SNORD28 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
GH11J062878 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 11.8 -27.2 -27249 6.1 CHD2 TBP ZBTB10 SP1 MXD4 CEBPA MNT DEK IKZF1 SMAD5 SLC3A2 HSALNG0084674 lnc-CHRM1-1 SNHG1 CSKMT NXF1 TAF6L GANAB TTC9C MTA2
GH11J062830 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 11.3 +22.2 22243 4.6 SP1 NR2C1 MNT DEK SMAD5 MBD2 ZNF217 POLR2A BRCA1 BHLHE40 LOC105369332 STX5 TEX54 SNHG1 NXF1 CSKMT MTA2 TTC9C TAF6L GNG3
GH11J062712 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE dbSUPER 10.3 +140.6 140610 3.8 RXRA FOXA2 ZBTB33 RBM22 ZNF316 FOSL1 JUND HNF4A FOXA1 NFE2 HSALNG0084643 piR-45619 HNRNPUL2 TTC9C UBXN1 LBHD1 LRRN4CL POLR2G GANAB UQCC3
GH11J062887 Enhancer 1.1 ENCODE dbSUPER 10.9 -35.1 -35064 4 CEBPA DEK IKZF1 POLR2A NONO NFATC3 NBN SMAD4 SAP130 TRIM25 BSCL2 SNHG1 GANAB TAF6L NXF1 INTS5 CSKMT TUT1 EML3 LOC105369332
GH11J062694 Enhancer 0.8 Ensembl ENCODE 10.3 +159.8 159830 1.1 MNT CTCF BHLHE40 SIN3A REST TRIM22 SMC3 RAD21 MYNN NFE2 BSCL2 TTC9C LBHD1 CSKMT ENSG00000255432 SNORA57 INTS5 GANAB UQCC3 EML3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNORD28 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the SNORD28 gene promoter:
  • AP-1
  • ATF-2
  • c-Jun
  • SREBP-1b
  • SREBP-1c

Genomic Locations for SNORD28 Gene

Latest Assembly
chr11:62,854,621-62,854,695
(GRCh38/hg38)
Size:
75 bases
Orientation:
Minus strand

Previous Assembly
chr11:62,622,093-62,622,167
(GRCh37/hg19 by Entrez Gene)
Size:
75 bases
Orientation:
Minus strand

Genomic View for SNORD28 Gene

Genes around SNORD28 on UCSC Golden Path with GeneCards custom track
SNORD28 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
SNORD28 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORD28 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORD28 Gene

Proteins for SNORD28 Gene

Post-translational modifications for SNORD28 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORD28 Gene

Domains & Families for SNORD28 Gene

Gene Families for SNORD28 Gene

genes like me logo Genes that share domains with SNORD28: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SNORD28 Gene

Function for SNORD28 Gene

Phenotypes From GWAS Catalog for SNORD28 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 SNORD28 Gene

Localization for SNORD28 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SNORD28 gene
Compartment Confidence
cytoskeleton 1
nucleus 1

Gene Ontology (GO) - Cellular Components for SNORD28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus IEA --
genes like me logo Genes that share ontologies with SNORD28: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for SNORD28 Gene

Pathways & Interactions for SNORD28 Gene

PathCards logo

SuperPathways for SNORD28 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SNORD28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing IEA --
genes like me logo Genes that share ontologies with SNORD28: view

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for SNORD28 Gene

Drugs & Compounds for SNORD28 Gene

No Compound Related Data Available

Transcripts for SNORD28 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for SNORD28 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000015A7CF_9606 snoRNA 75 6

RefSeq: NR_002562,

Ensembl: ENST00000384706 (view in UCSC) ,

Rfam: RF00085,

snoDB: SNODB55,

snOPY: Homo_sapiens300166,

ENA: U40580.1:1686..1760:ncRNA,

URS0001BC498B_9606 snoRNA 75 1

Rfam: RF00085,

SNORD28 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Alternative Splicing Database (ASD) splice patterns (SP) for SNORD28 Gene

No ASD Table

Relevant External Links for SNORD28 Gene

GeneLoc Exon Structure for
SNORD28

No data available for mRNA/cDNA for SNORD28 Gene

Expression for SNORD28 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SNORD28

No Expression Related Data Available

No data available for mRNA expression in normal human tissues , 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 SNORD28 Gene

Orthologs for SNORD28 Gene

Evolution for SNORD28 Gene

ENSEMBL:
Gene Tree for SNORD28 (if available)
TreeFam:
Gene Tree for SNORD28 (if available)

No data available for Orthologs for SNORD28 Gene

Paralogs for SNORD28 Gene

No data available for Paralogs for SNORD28 Gene

Variants for SNORD28 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SNORD28 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 SNORD28 Gene

Variant ID Type Subtype PubMed ID
nsv1159903 CNV duplication 26073780
nsv508636 CNV deletion 20534489
nsv509416 CNV insertion 20534489

Additional Variant Information for SNORD28 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORD28

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 SNORD28 Gene

Disorders for SNORD28 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SNORD28 Gene - From: COP

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SNORD28

genes like me logo Genes that share disorders with SNORD28: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNORD28 Gene

Publications for SNORD28 Gene

  1. A mammalian gene with introns instead of exons generating stable RNA products. (PMID: 8559254) Tycowski KT … Steitz JA (Nature 1996) 2 3
  2. TNIP2 is a Hub Protein in the NF-κB Network with Both Protein and RNA Mediated Interactions. (PMID: 27609421) Banks CA … Washburn MP (Molecular & cellular proteomics : MCP 2016) 3
  3. Eukaryotic snoRNAs: a paradigm for gene expression flexibility. (PMID: 19446021) Dieci G … Montanini B (Genomics 2009) 3
  4. The U22 host gene (UHG): chromosomal localization of UHG and distribution of U22 small nucleolar RNA. (PMID: 9387929) Frey MR … Matera AG (Histochemistry and cell biology 1997) 3

Products for SNORD28 Gene

Sources for SNORD28 Gene