Free for academic non-profit institutions. Other users need a Commercial license

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
  • C1orf204 3 4 5
  • Chromosome 1 Open Reading Frame 204 2 5
  • VSIG8 Overlapping Transcript 1 2 3
  • VSIG8-OT1 3
  • VSIG8 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. An important paralog of this gene is VSIG8.

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

Regulatory Elements for SNHG28 Gene

Enhancers for SNHG28 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
GH01G159908 2.1 FANTOM5 Ensembl ENCODE dbSUPER 48.1 -62.1 -62137 18.5 FEZF1 YBX1 YY1 ZNF143 ZNF263 SP3 TBX21 MEF2D ZNF610 GLIS1 SNHG28 ENSG00000272668 RPSAP18 ENSG00000228606 VSIG8 PIGM SLAMF8 CADM3 TAGLN2 FCRL6
GH01G159828 1.7 FANTOM5 Ensembl ENCODE dbSUPER 34.2 +25.8 25805 3.1 CTCF RB1 ARNT ZNF2 ZNF644 RAD21 ZNF143 SMC3 FOS ZNF600 SNHG28 SLAMF8 SLAMF9 GC01M159841
GH01G159881 1.8 FANTOM5 Ensembl ENCODE dbSUPER 31.7 -26.8 -26789 1.7 PKNOX1 SIN3A FOS DEK ZNF491 ZNF518A ZNF592 MAFF SMARCA4 GLIS1 ENSG00000272668 RPSAP18 SNHG28 ENSG00000228606 SLAMF8 PIGM CADM3 VSIG8 SLAMF9 TAGLN2
GH01G159936 2 FANTOM5 Ensembl ENCODE dbSUPER 18.6 -86.1 -86111 10.5 HDGF PKNOX1 CREB3L1 SIN3A FEZF1 ZNF2 ZBTB7B YY1 ZNF143 FOS ATP1A4 SNHG28 ENSG00000272668 KCNJ10 IGSF9 NHLH1 LINC01133 VSIG8 CFAP45 VANGL2
GH01G159888 1.9 FANTOM5 Ensembl ENCODE dbSUPER 16.3 -35.1 -35137 3.0 HDGF ATF1 SIN3A ZNF2 GLIS2 GATA2 ZNF207 ZNF143 FOS DEK ENSG00000272668 SLAMF8 SNHG28 FCRL6 VSIG8 ENSG00000212161 IGSF9 DUSP23 PIGM SLAMF9
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNHG28 on UCSC Golden Path with GeneCards custom track

Promoters for SNHG28 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000014460 547 1201 ATF1 SIN3A BRCA1 RARA GLIS2 ZNF366 RCOR1 EGR2 SP3 SMARCC1

Genomic Location for SNHG28 Gene

Chromosome:
1
Start:
159,834,474 bp from pter
End:
159,855,347 bp from pter
Size:
20,874 bases
Orientation:
Minus strand

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:
    Q5VU13-VSIG8_HUMAN
    Recommended name:
    V-set and immunoglobulin domain-containing protein 8
    Protein Accession:
    Q5VU13
    Secondary Accessions:
    • Q5VU14

    Protein attributes for SNHG28 Gene

    Size:
    414 amino acids
    Molecular mass:
    43891 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AK096506; Type=Erroneous termination; Positions=409; Note=Translated as Lys.; Evidence={ECO:0000305};

    Alternative splice isoforms for SNHG28 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SNHG28 Gene

Post-translational modifications for SNHG28 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

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

Protein Domains for SNHG28 Gene

Graphical View of Domain Structure for InterPro Entry

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

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

Function for SNHG28 Gene

Animal Model Products

Inhibitory RNA Products

Clone 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 SNHG28 Gene

Localization for SNHG28 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNHG28 Gene

Membrane; Single-pass type I membrane protein.

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

Gene Ontology (GO) - Cellular Components for SNHG28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SNHG28: view

Pathways & Interactions for SNHG28 Gene

SuperPathways for SNHG28 Gene

No Data Available

Interacting Proteins for SNHG28 Gene

Selected Interacting proteins: Q5VU13-VSIG8_HUMAN for SNHG28 Gene via IID

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 :

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

Evidence on tissue expression from TISSUES for SNHG28 Gene

  • Nervous system(4)
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 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

Paralogs for SNHG28 Gene

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

Variants for SNHG28 Gene

Sequence variations from dbSNP and Humsavar for SNHG28 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000063978 -- 159,835,694(+) GAGGA(A/C)CTCTG intron-variant, downstream-variant-500B, utr-variant-3-prime
rs1000290851 -- 159,853,901(+) CCGGA(G/T)GCCTG intron-variant, downstream-variant-500B, upstream-variant-2KB
rs1000330637 -- 159,838,333(+) CTAGC(A/G)CCTGT intron-variant
rs1000436525 -- 159,835,455(+) CCTCC(C/T)CCTTC intron-variant, downstream-variant-500B, utr-variant-3-prime
rs1000565422 -- 159,852,844(+) CTGTC(C/T)TCATC 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)

Relevant External Links 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

Relevant External Links for SNHG28

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNHG28

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 L.W. … Wilson R.K. (Nature 2005) 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3 64

Products for SNHG28 Gene

Sources for SNHG28 Gene

Content
Loading form....