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Aliases for RNU5E-1 Gene

Subcategory (RNA class) for RNU5E-1 Gene

snRNA

Quality Score for this RNA gene is

5

Aliases for RNU5E-1 Gene

  • RNA, U5E Small Nuclear 1 2 3 5
  • RNA, U5E Small Nuclear 2
  • RNU5E 3
  • U5E 3

External Ids for RNU5E-1 Gene

ORGUL Members for RNU5E-1 Gene

Previous HGNC Symbols for RNU5E-1 Gene

  • RNU5E

Previous GeneCards Identifiers for RNU5E-1 Gene

  • GC01P011970

Summaries for RNU5E-1 Gene

GeneCards Summary for RNU5E-1 Gene

RNU5E-1 (RNA, U5E Small Nuclear 1) is an RNA Gene, and is affiliated with the snRNA class.

fRNAdb sequence ontologies for RNU5E-1 Gene - the ORGUL cluster for this gene includes several descriptions:

  • U5_snRNA: U5 RNA is a component of both types of known spliceosome. The precise function of this molecule is unknown, though it is known that the 5' loop is required for splice site selection and p220 binding, and that both the 3' stem-loop and the Sm site are important for Sm protein binding and cap methylation.

  • U5 spliceosomal RNA: U5 RNA is a component of both types of known spliceosome. The precise function of this molecule is unknown, though it is known that the 5' loop is required for splice site selection and p220 binding, and that both the 3' stem-loop and the Sm site are important for Sm protein binding and cap methylation.

View fRNAdb secondary structures for RNU5E-1

Additional gene information for RNU5E-1 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for RNU5E-1 Gene

Genomics for RNU5E-1 Gene

GeneHancer (GH) Regulatory Elements for RNU5E-1 Gene

Promoters and enhancers for RNU5E-1 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
GH01I011907 Promoter/Enhancer 2.2 FANTOM5 Ensembl ENCODE dbSUPER 550.8 +0.6 645 3.1 MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 RNU5E-1 RNU5E-4P TARDBP UBIAD1 ENSG00000226849 CLCN6 VPS13D SNORA59A MFN2 EXOSC10
GH01I011978 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.2 +74.6 74580 8.6 CLOCK MLX ZFP64 DMAP1 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC MFN2 ENSG00000226849 EXOSC10 MIIP TNFRSF1B PLOD1 CLCN6 TARDBP KIAA2013 RNU5E-1
GH01I011879 Enhancer 1.8 VISTA FANTOM5 Ensembl ENCODE dbSUPER 12.3 -26.1 -26142 4.1 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A POLR2B ZNF766 SP5 REST PLOD1 KIAA2013 NPPB RNU5E-1 RNU5E-4P NPPA-AS1 LOC102724659 C1orf167 LOC390997 ENSG00000226849
GH01I011989 Enhancer 1.2 FANTOM5 ENCODE dbSUPER 11.2 +82.4 82357 2.2 FOXA2 TAF1 SAP130 MAX ETS1 YY1 TEAD3 HNF4G NR2F6 HOMEZ MFN2 MIIP PLOD1 KIAA2013 RNU5E-1 RNU5E-4P NPPB NPPA ENSG00000270914
GH01I011872 Enhancer 0.6 dbSUPER 12.2 -34.2 -34165 3.7 CTCF RFX1 NR2F1 ZNF384 PRDM10 NR2F6 FOS RARA RNU5E-1 RNU5E-4P NPPA-AS1 MFN2 PLOD1 KIAA2013 LOC102724659 C1orf167 MTHFR LOC390997
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNU5E-1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for RNU5E-1 Gene

Genomic Locations for RNU5E-1 Gene
chr1:11,908,152-11,908,272
(GRCh38/hg38)
Size:
121 bases
Orientation:
Plus strand
chr1:11,968,209-11,968,329
(GRCh37/hg19)

Genomic View for RNU5E-1 Gene

Genes around RNU5E-1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNU5E-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 RNU5E-1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU5E-1 Gene

ORGUL Member Location for RNU5E-1 Gene

ORGUL Member Location for RNU5E-1 gene

Proteins for RNU5E-1 Gene

Post-translational modifications for RNU5E-1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU5E-1 Gene

Domains & Families for RNU5E-1 Gene

Gene Families for RNU5E-1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RNU5E-1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RNU5E-1 Gene

Function for RNU5E-1 Gene

Phenotypes From GWAS Catalog for RNU5E-1 Gene

Animal Model 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 RNU5E-1 Gene

Localization for RNU5E-1 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for RNU5E-1 Gene

Pathways & Interactions for RNU5E-1 Gene

SuperPathways for RNU5E-1 Gene

No Data Available

Interacting Proteins for RNU5E-1 Gene

Gene Ontology (GO) - Biological Process for RNU5E-1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RNU5E-1 Gene

Drugs & Compounds for RNU5E-1 Gene

No Compound Related Data Available

Transcripts for RNU5E-1 Gene

fRNAdb Secondary structures for RNU5E-1 Gene

  • RF00020;U5;AEKP01163184.1/2624-2743

mRNA/cDNA for RNU5E-1 Gene

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

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RNU5E-1 Gene

No ASD Table

Relevant External Links for RNU5E-1 Gene

GeneLoc Exon Structure for
RNU5E-1
ECgene alternative splicing isoforms for
RNU5E-1

Expression for RNU5E-1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNU5E-1 Gene

genes like me logo Genes that share expression patterns with RNU5E-1: view

No data available for 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 RNU5E-1 Gene

Orthologs for RNU5E-1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU5E-1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia U5 34
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm24871 34
  • 91 (a)
ManyToMany
Gm25099 34
  • 89 (a)
ManyToMany
Gm23287 34
  • 88 (a)
ManyToMany
Gm23143 34
  • 87 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia U5 34
  • 90 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia U5 34
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia U5 34
  • 88 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia U5 34
  • 87 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia U5 34
  • 81 (a)
ManyToMany
Species where no ortholog for RNU5E-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)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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 RNU5E-1 Gene

ENSEMBL:
Gene Tree for RNU5E-1 (if available)
TreeFam:
Gene Tree for RNU5E-1 (if available)

Paralogs for RNU5E-1 Gene

No data available for Paralogs for RNU5E-1 Gene

Variants for RNU5E-1 Gene

Sequence variations from dbSNP and Humsavar for RNU5E-1 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000708583 -- 11,906,307(+) G/A upstream_transcript_variant
rs1000983372 -- 11,908,391(+) T/C downstream_transcript_variant
rs1003881665 -- 11,908,311(+) T/C downstream_transcript_variant
rs1004042951 -- 11,906,528(+) C/G upstream_transcript_variant
rs1004844177 -- 11,908,489(+) A/G downstream_transcript_variant

Additional Variant Information for RNU5E-1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU5E-1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for RNU5E-1 Gene

Disorders for RNU5E-1 Gene

Additional Disease Information for RNU5E-1

No disorders were found for RNU5E-1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNU5E-1 Gene

Publications for RNU5E-1 Gene

  1. Three novel functional variants of human U5 small nuclear RNA. (PMID: 1310151) Sontheimer EJ … Steitz JA (Molecular and cellular biology 1992) 2 3 58
  2. The uRNA database. (PMID: 9016512) Zwieb C (Nucleic acids research 1997) 1
  3. Domain analysis of human U5 RNA. Cap trimethylation, protein binding, and spliceosome assembly. (PMID: 8702566) Hinz M … Bindereif A (The Journal of biological chemistry 1996) 1
  4. The spliceosomal snRNAs of Caenorhabditis elegans. (PMID: 2339054) Thomas J … Blumenthal T (Nucleic acids research 1990) 1

Products for RNU5E-1 Gene

Sources for RNU5E-1 Gene

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