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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SNORA38 Gene

RNA gene   GIFtS: 18
GCID: GC06P031590

small nucleolar RNA, H/ACA box 38
  Search for SNORA38
in
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for SNORA38    

Aliases
for SNORA38 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Subcategory (RNA class): snoRNA

Quality score for this RNA gene is 6

Aliases
Small Nucleolar RNA, H/ACA Box 381 2
ACA381 2

External Ids:    HGNC: 326311   Entrez Gene: 6778202   Ensembl: ENSG000002008167   
ORGUL members:    fRNAdb10:FR171084 FR171084 FR191722 FR275112 FR298271      
H-InvDB:HIT000383020_01 HIT000383020_02 HIT000383020_03    
NCBI:AL662847 AF129756 AL805934 CR354443 AL662801 see all 12    
NONCODE:u3339    
Rfam:RF00428    
RNAdb:SNO1512    

Export aliases for SNORA38 gene to outside databases

Previous GC identifers: GC06P031702 GC06P031703 GC06P031377


Summaries
for SNORA38 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
fRNAdb sequence ontology for SNORA38:
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.

View fRNAdb secondary structures for SNORA38

Genomic Views
for SNORA38 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000006.11  NC_018917.1  NT_007592.15  NT_113891.2  NT_167245.1  NT_167246.1  NT_167247.1  NT_167248.1  
NT_167249.1  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SNORA38 gene promoter:
         COUP-TF1   CREB   COUP-TF   deltaCREB   ATF-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SNORA38

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNORA38


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6p21.33   Ensembl cytogenetic band:  6p21.33   HGNC cytogenetic band: 6p21.33

SNORA38 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SNORA38 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P031590:  view genomic region     (about GC identifiers)

Start:
 31,590,856 bp from pter      End:
 31,590,987 bp from pter
Size:
 132 bases      Orientation:
 plus strand

6 alternative locations:
Chr6+,ALT_REF_LOCI_7 31,511,121-31,511,252      Chr6+,ALT_REF_LOCI_5 31,581,972-31,582,103      Chr6+,ALT_REF_LOCI_6 31,581,097-31,616,809     
Chr6+,ALT_REF_LOCI_3 31,584,072-31,584,203      Chr6+,ALT_REF_LOCI_4 31,553,396-31,553,527      Chr6+,ALT_REF_LOCI_2 31,578,266-31,617,585     
ORGUL member locations:
Legend (see complete legend)

  • FR0191722
  • FR0171084
31590855 31590921 31590987 chr6

Proteins
for SNORA38 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB: --

Protein Domains /
Families
for SNORA38 gene

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
   --

Function
for SNORA38 gene

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section
miRNA
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Inhib. RNA
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In Situ Assay
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Pathways & Interactions
for SNORA38 gene

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SNORA38

Drugs & Compounds
for SNORA38 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
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Browse Tocris compounds for SNORA38
Search CenterWatch for drugs/clinical trials and news about SNORA38 

Transcripts
for SNORA38 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section
 4 fRNAdb Secondary structures:


Unigene Cluster for SNORA38:

Small nucleolar RNA, H/ACA box 38
Hs.689700
Unigene Representative Sequence: AJ609474
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000363946(snoRNA)

miRNA
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Inhib. RNA
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Primer
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Additional cDNA sequence: 

AJ609474.1 NR_002971.1 

GeneLoc Exon Structure


Expression
for SNORA38 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

Expression evidence for SNORA38:H-invDB

SNORA38 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ATCAACCAAT

Microarray
RNAseq (Illumina Body Map)
(100×FPKM)½
SAGE (Serial Analysis of Gene Expression)
About this image
SOURCE GeneReport for Unigene cluster: Hs.689700
    SABiosciences Custom PCR Arrays for SNORA38
Primer
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In Situ
Assay Products: 
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Orthologs
for SNORA38 gene

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section
   --

ENSEMBL Gene Tree for SNORA38 (if available)
TreeFam Gene Tree for SNORA38 (if available) 

Paralogs
for SNORA38 gene

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for SNORA38 gene
ENSG000002010422  

SNORA38 for paralogs           About GeneDecksing



Genomic Variants
for SNORA38 gene

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
SABiosciences Cancer Mutation PCR Assays
Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SNORA38
DNA2.0 Custom Variant and Variant Library Synthesis for SNORA38

Disorders / Diseases
for SNORA38 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
SNORA38 for disorders           About MalaCards

SNORA38 for disorders           About GeneDecksing

OMIM gene information: 122550 143400 604519 608545 142580    

Export disorders for SNORA38 gene to outside databases

Publications
for SNORA38 gene

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed articles for SNORA38 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SNORA38)		    Utopia: connect your pdf to the dynamic
world of online information

  1. snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs. (PubMed id 16381836)1, 3 Lestrade L. and Weber M.J. (2006)
  2. Human box H/ACA pseudouridylation guide RNA machinery. (PubMed id 15199136)1, 3 Kiss A.M....Kiss T. (2004)
  3. Eukaryotic snoRNAs: a paradigm for gene expression fl exibility. (PubMed id 19446021)1 Dieci G....Montanini B. (2009)
  4. (PubMed id 8797828)10 
  5. (PubMed id 10736225)10 
  6. (PubMed id 15103394)10 
  7. (PubMed id 18089548)10 
  8. (PubMed id 15608158)10 
  9. (PubMed id 15608161)10 

External Searches for SNORA38 gene

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  
  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

Genome Databases showing SNORA38 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 677820 HGNC: 32631 Ensembl:ENSG00000200816 euGenes: HUgn677820 ECgene: SNORA38
H-InvDB: SNORA38

Other Databases showing SNORA38 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing SNORA38 gene

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for SNORA38 Pharmacogenomics, SNPs, Pathways

Intellectual Property
for SNORA38 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for SNORA38 gene:
Search GeneIP for patents involving SNORA38

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



Products
for SNORA38 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
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