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Aliases for SNORD3B-1 Gene

Subcategory (RNA class) for SNORD3B-1 Gene

lncRNA

Quality Score for this RNA gene is

3

Aliases for SNORD3B-1 Gene

  • Small Nucleolar RNA, C/D Box 3B-1 2 3 5
  • RNA, U3A1 Small Nucleolar, RNA, U3A1 Small Nucleolar 2 3
  • RNU3A1 3
  • U3b1 3
  • U3b2 3
  • U3A 3

External Ids for SNORD3B-1 Gene

ORGUL Members for SNORD3B-1 Gene

Previous HGNC Symbols for SNORD3B-1 Gene

  • RNU3A1

Previous GeneCards Identifiers for SNORD3B-1 Gene

  • GC17M018909
  • GC17U900934
  • GC17P018907
  • GC17P018965

Summaries for SNORD3B-1 Gene

GeneCards Summary for SNORD3B-1 Gene

SNORD3B-1 (Small Nucleolar RNA, C/D Box 3B-1) is an RNA Gene, and is affiliated with the lncRNA class. Among its related pathways are Ribosome biogenesis in eukaryotes and RNA transport.

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 SNORD3B-1 Gene

Genomics for SNORD3B-1 Gene

Regulatory Elements for SNORD3B-1 Gene

Enhancers for SNORD3B-1 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
GH17F019010 1 Ensembl ENCODE 5.1 -50.6 -50625 1.7 HDGF PKNOX1 KLF17 ARID4B GLI4 THRB RAD21 RARA RCOR1 EGR2 ENSG00000262319 SNORD3B-1 EPN2 FAM83G ENSG00000231625 GC17M018984
GH17F019506 1 Ensembl ENCODE 4.3 +445.9 445925 2.6 ARID4B SIN3A ZNF2 YY1 SLC30A9 ZNF143 ZNF207 FOS KLF13 DEK TVP23B ENSG00000264885 ENSG00000264932 ENSG00000262202 UPF3AP2 FAM106A SLC47A1 LOC102724624 ENSG00000235979 SNORD3B-1
GH17F019062 0.2 ENCODE 0.8 +0.3 321 0.2 PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF48 YY1 ZNF207 NFYC MXD4 SNORD3B-1 SNORD3B-2
GH17F019063 0.9 ENCODE 0.8 +1.8 1819 0.6 PKNOX1 SIN3A FEZF1 GLI4 ZNF2 ETS1 ZNF121 GLIS2 KLF7 SP3 ENSG00000262202 FLII SNORD3B-1 SNORD3B-2
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SNORD3B-1 on UCSC Golden Path with GeneCards custom track

Promoters for SNORD3B-1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001342349 1088 4001 PKNOX1 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ZNF207 SP3

Genomic Location for SNORD3B-1 Gene

Chromosome:
17
Start:
19,061,912 bp from pter
End:
19,062,669 bp from pter
Size:
758 bases
Orientation:
Plus strand

Genomic View for SNORD3B-1 Gene

Genes around SNORD3B-1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNORD3B-1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNORD3B-1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNORD3B-1 Gene

Proteins for SNORD3B-1 Gene

Post-translational modifications for SNORD3B-1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SNORD3B-1 Gene

Domains & Families for SNORD3B-1 Gene

Gene Families for SNORD3B-1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNORD3B-1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SNORD3B-1 Gene

Function for SNORD3B-1 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 SNORD3B-1 Gene

Localization for SNORD3B-1 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SNORD3B-1 Gene COMPARTMENTS Subcellular localization image for SNORD3B-1 gene
Compartment Confidence
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for SNORD3B-1 Gene

Pathways & Interactions for SNORD3B-1 Gene

genes like me logo Genes that share pathways with SNORD3B-1: view

Pathways by source for SNORD3B-1 Gene

2 KEGG pathways for SNORD3B-1 Gene

Interacting Proteins for SNORD3B-1 Gene

Gene Ontology (GO) - Biological Process for SNORD3B-1 Gene

None

No data available for SIGNOR curated interactions for SNORD3B-1 Gene

Transcripts for SNORD3B-1 Gene

mRNA/cDNA for SNORD3B-1 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for SNORD3B-1 Gene

No ASD Table

Relevant External Links for SNORD3B-1 Gene

GeneLoc Exon Structure for
SNORD3B-1
ECgene alternative splicing isoforms for
SNORD3B-1

Expression for SNORD3B-1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNORD3B-1 Gene

mRNA differential expression in normal tissues according to GTEx for SNORD3B-1 Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (x9.5) and Testis (x9.0).
genes like me logo Genes that share expression patterns with SNORD3B-1: 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 SNORD3B-1 Gene

Orthologs for SNORD3B-1 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for SNORD3B-1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia U3 35 35
  • 93 (a)
ManyToMany
Species where no ortholog for SNORD3B-1 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • zebrafish (Danio rerio)

Evolution for SNORD3B-1 Gene

ENSEMBL:
Gene Tree for SNORD3B-1 (if available)
TreeFam:
Gene Tree for SNORD3B-1 (if available)

Paralogs for SNORD3B-1 Gene

No data available for Paralogs for SNORD3B-1 Gene

Variants for SNORD3B-1 Gene

Sequence variations from dbSNP and Humsavar for SNORD3B-1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs116988810 -- 19,062,264(+) GTTTT(C/T)CTCGG downstream-variant-500B
rs146211648 -- 19,062,286(+) AATTT(G/T)AGTCT downstream-variant-500B
rs199632249 -- 19,062,052(+) GGCTG(C/G/T)AACTG nc-transcript-variant
rs199909118 -- 19,062,075(+) GATGA(C/G/T)CGTTC nc-transcript-variant
rs200016693 -- 19,061,909(+) AGGCC(A/G/T)TTAAG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SNORD3B-1 Gene

Variant ID Type Subtype PubMed ID
dgv1701e59 CNV duplication 20981092
dgv3116n100 CNV gain 25217958
dgv895e212 CNV loss 25503493
esv25927 CNV gain+loss 19812545
esv2758678 CNV gain+loss 17122850
esv33572 CNV gain 17666407
esv3431325 CNV duplication 20981092
esv3892975 CNV loss 25118596
esv3892976 CNV loss 25118596
nsv1061317 CNV gain 25217958
nsv428336 CNV gain+loss 18775914
nsv511054 OTHER complex 20534489
nsv574554 CNV loss 21841781
nsv7291 OTHER inversion 18451855
nsv833391 CNV loss 17160897
nsv9504 CNV gain+loss 18304495
nsv962450 CNV duplication 23825009
nsv978384 CNV duplication 23825009

Relevant External Links for SNORD3B-1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNORD3B-1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SNORD3B-1 Gene

Disorders for SNORD3B-1 Gene

No disorders were found for SNORD3B-1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for SNORD3B-1 Gene

Publications for SNORD3B-1 Gene

  1. Human genes encoding U3 snRNA associate with coiled bodies in interphase cells and are clustered on chromosome 17p11.2 in a complex inverted repeat structure. (PMID: 9365252) Gao L. … Matera A.G. (Nucleic Acids Res. 1997) 2 3 64
  2. U3, U8 and U13 comprise a new class of mammalian snRNPs localized in the cell nucleolus. (PMID: 2531075) Tyc K. … Steitz J.A. (EMBO J. 1989) 3 64

Products for SNORD3B-1 Gene

Sources for SNORD3B-1 Gene

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