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Aliases for SNHG28 Gene

Subcategory (RNA class) for SNHG28 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for SNHG28 Gene

  • Small Nucleolar RNA Host Gene 28 2 3 5
  • VSIG8 Overlapping Transcript 1 2 3
  • VSIG8-OT1 3 4
  • C1orf204 3 4
  • VSIG8 Overlapping Transcript Protein 4
  • Chromosome 1 Open Reading Frame 204 2
  • Small Nucleolar RNA Host Gene 2 4

External Ids for SNHG28 Gene

Previous HGNC Symbols for SNHG28 Gene

  • C1orf204

Summaries for SNHG28 Gene

GeneCards Summary for SNHG28 Gene

SNHG28 (Small Nucleolar RNA Host Gene 28) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for SNHG28 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNHG28 Gene

Genomics for SNHG28 Gene

GeneHancer (GH) Regulatory Elements for SNHG28 Gene

Promoters and enhancers for SNHG28 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
GH01I159853 Promoter/Enhancer 1.6 Ensembl ENCODE dbSUPER 550.8 +0.9 851 2.9 ATF1 SIN3A BRCA1 RARA ZNF335 GLIS2 ZNF366 RCOR1 EGR2 SMARCC1 SNHG28 ENSG00000272668 ENSG00000212161 GC01M159852 VSIG8
GH01I159856 Enhancer 0.5 dbSUPER 550.8 -1.4 -1396 0.8 ZFHX2 FOS ZIC2 EGR2 SNHG28 ENSG00000272668 VSIG8
GH01I160341 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 26.3 -487.7 -487693 3.3 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B NCSTN COPA SNHG28 RPSAP18 ENSG00000272668 USP21 DEDD B4GALT3 PPOX LOC100287049
GH01I159908 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 17.8 -62.1 -62136 18.5 CLOCK FEZF1 YBX1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 ZC3H11A TAGLN2 GC01M159886 GC01M159919 LOC100287049 NCSTN SLAMF8 RAD1P2 ENSG00000272668 SNHG28 VSIG8
GH01I159881 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 31.7 -26.8 -26788 1.7 PKNOX1 SMAD1 ATF7 FOS DEK ZNF491 ZNF518A ZNF592 MAFF SMARCA4 RPSAP18 ENSG00000272668 SNHG28 LOC100287049 SLAMF8 PIGM DCAF8 CADM3 CADM3-AS1 COPA
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNHG28 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SNHG28 Gene

Genomic Locations for SNHG28 Gene
chr1:159,834,474-159,855,347
(GRCh38/hg38)
Size:
20,874 bases
Orientation:
Minus strand
chr1:159,804,264-159,825,137
(GRCh37/hg19)

Genomic View for SNHG28 Gene

Genes around SNHG28 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNHG28 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNHG28 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNHG28 Gene

Proteins for SNHG28 Gene

  • Protein details for SNHG28 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0DPA3-SNH28_HUMAN
    Recommended name:
    Putative uncharacterized protein SNHG28
    Protein Accession:
    P0DPA3
    Secondary Accessions:
    • Q5VU13
    • Q5VU14

    Protein attributes for SNHG28 Gene

    Size:
    235 amino acids
    Molecular mass:
    25086 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SNHG28 Gene

Post-translational modifications for SNHG28 Gene

No Post-translational modifications

Other Protein References for SNHG28 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SNHG28 Gene

Domains & Families for SNHG28 Gene

Gene Families for SNHG28 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SNHG28 Gene

ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNHG28: view

No data available for Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNHG28 Gene

Function for SNHG28 Gene

Phenotypes From GWAS Catalog for SNHG28 Gene

Gene Ontology (GO) - Molecular Function for SNHG28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22681889
genes like me logo Genes that share ontologies with SNHG28: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SNHG28 Gene

Localization for SNHG28 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 SNHG28 gene
Compartment Confidence
mitochondrion 3
nucleus 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for SNHG28 Gene

Pathways & Interactions for SNHG28 Gene

SuperPathways for SNHG28 Gene

No Data Available

Interacting Proteins for SNHG28 Gene

Gene Ontology (GO) - Biological Process for SNHG28 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNHG28 Gene

Drugs & Compounds for SNHG28 Gene

No Compound Related Data Available

Transcripts for SNHG28 Gene

mRNA/cDNA for SNHG28 Gene

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

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNHG28 Gene

No ASD Table

Relevant External Links for SNHG28 Gene

GeneLoc Exon Structure for
SNHG28
ECgene alternative splicing isoforms for
SNHG28

Expression for SNHG28 Gene

NURSA nuclear receptor signaling pathways regulating expression of SNHG28 Gene:

SNHG28
No Expression Related Data Available

Primer Products

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 SNHG28 Gene

Orthologs for SNHG28 Gene

Evolution for SNHG28 Gene

ENSEMBL:
Gene Tree for SNHG28 (if available)
TreeFam:
Gene Tree for SNHG28 (if available)

No data available for Orthologs for SNHG28 Gene

Paralogs for SNHG28 Gene

No data available for Paralogs for SNHG28 Gene

Variants for SNHG28 Gene

Sequence variations from dbSNP and Humsavar for SNHG28 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000063978 -- 159,835,694(-) A/C 3_prime_UTR_variant
rs1000290851 -- 159,853,901(-) T/G intron_variant
rs1000330637 -- 159,838,333(-) A/G intron_variant
rs1000436525 -- 159,835,455(-) C/T 3_prime_UTR_variant
rs1000565422 -- 159,852,844(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SNHG28 Gene

Variant ID Type Subtype PubMed ID
esv3587702 CNV loss 21293372
esv3587703 CNV gain 21293372
nsv1005195 CNV gain 25217958

Variation tolerance for SNHG28 Gene

Gene Damage Index Score: 2.28; 40.79% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SNHG28 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNHG28

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNHG28 Gene

Disorders for SNHG28 Gene

No disorders were found for SNHG28 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNHG28 Gene

Publications for SNHG28 Gene

  1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Oligoclonal band status in Scandinavian multiple sclerosis patients is associated with specific genetic risk alleles. (PMID: 23472185) Mero IL … Harbo HF (PloS one 2013) 3 58
  4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. (PMID: 22681889) Baltz AG … Landthaler M (Molecular cell 2012) 3 58
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 58

Products for SNHG28 Gene

Sources for SNHG28 Gene

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