Aliases for RNU5F-1 Gene

Subcategory (RNA class) for RNU5F-1 Gene

snRNA

Number of RNA Genes sources:

1 / 17

Aliases for RNU5F-1 Gene

  • RNA, U5F Small Nuclear 1 2 3 5
  • RNU5F-1 2 5
  • RNA, U5F Small Nuclear 2
  • RF00020 168
  • RNU5F 3
  • U5F 3

External Ids for RNU5F-1 Gene

Previous HGNC Symbols for RNU5F-1 Gene

  • RNU5F

Previous GeneCards Identifiers for RNU5F-1 Gene

  • GC22M030308
  • GC01M045190

Summaries for RNU5F-1 Gene

GeneCards Summary for RNU5F-1 Gene

RNU5F-1 (RNA, U5F Small Nuclear 1) is an RNA Gene, and is affiliated with the snRNA class.

Rfam classification for RNU5F-1 Gene

Additional gene information for RNU5F-1 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for RNU5F-1 Gene

Genomics for RNU5F-1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RNU5F-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
GH01J044720 Promoter/Enhancer 1.6 Ensembl ENCODE dbSUPER 600.7 +0.3 309 2.4 ARHGAP35 SP1 GATAD2A HNRNPL PRDM10 ZNF629 TFE3 RFX1 SIX5 LEF1 RNU5F-1 TOE1 MUTYH GPBP1L1 RPL7AP16 RPS8 DMAP1 HECTD3 RPS15AP10 NASP
GH01J044723 Promoter/Enhancer 1.3 Ensembl ENCODE dbSUPER 600.7 -1.9 -1899 1.6 SP1 PRDM1 ZNF143 ZNF24 IKZF2 POLR2A SCRT2 EED ELK1 DPF2 LOC105378690 RNU5F-1 SNORD38B RPS15AP11 BTBD19 KIF2C ARMH1
GH01J044671 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 11.6 +46.9 46865 6.5 CEBPG SP1 CREB1 GATAD2A CTCF PRDM10 ZNF629 REST TFE3 ZNF512 ARMH1 TMEM53 lnc-BEST4-2 MUTYH TOE1 ARTN RNU5F-1 NASP BTBD19 RPS8
GH01J044628 Promoter/Enhancer 1.9 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.6 +90.4 90423 6.6 ARHGAP35 HNRNPL PRDM10 ZNF629 TFE3 ZNF512 RFX1 ZNF692 POLR2A BACH1 lnc-TMEM53-2 piR-53648 TOE1 DMAP1 ARMH1 KDM4A MUTYH CCDC17 ARTN RNU5F-1
GH01J044681 Enhancer 1.1 Ensembl ENCODE 11.9 +37.8 37801 5.4 SP1 GATAD2A ATF7 REST TFE3 SOX13 NFKBIZ KDM1A RCOR2 RELA RNU5F-1 ARMH1 BTBD19 KIF2C
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RNU5F-1 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for RNU5F-1 Gene

Genomic Locations for RNU5F-1 Gene
chr1:44,721,786-44,721,902
(GRCh38/hg38)
Size:
117 bases
Orientation:
Minus strand
chr1:45,187,458-45,187,574
(GRCh37/hg19)
Size:
117 bases
Orientation:
Minus strand

Genomic View for RNU5F-1 Gene

Genes around RNU5F-1 on UCSC Golden Path with GeneCards custom track
RNU5F-1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
RNU5F-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 RNU5F-1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU5F-1 Gene

Proteins for RNU5F-1 Gene

Post-translational modifications for RNU5F-1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU5F-1 Gene

Domains & Families for RNU5F-1 Gene

Gene Families for RNU5F-1 Gene

genes like me logo Genes that share domains with RNU5F-1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for RNU5F-1 Gene

Function for RNU5F-1 Gene

Phenotypes From GWAS Catalog for RNU5F-1 Gene

Phenotypes for RNU5F-1 Gene

genes like me logo Genes that share phenotypes with RNU5F-1: view

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RNU5F-1 Gene

Localization for RNU5F-1 Gene

Gene Ontology (GO) - Cellular Components for RNU5F-1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005682 U5 snRNP IEA --
GO:0046540 U4/U6 x U5 tri-snRNP complex IEA --
genes like me logo Genes that share ontologies with RNU5F-1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Subcellular locations from the Human Protein Atlas (HPA) for RNU5F-1 Gene

Pathways & Interactions for RNU5F-1 Gene

PathCards logo

SuperPathways for RNU5F-1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RNU5F-1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000244 spliceosomal tri-snRNP complex assembly IEA --
GO:0000353 formation of quadruple SL/U4/U5/U6 snRNP IEA --
genes like me logo Genes that share ontologies with RNU5F-1: view

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for RNU5F-1 Gene

Drugs & Compounds for RNU5F-1 Gene

No Compound Related Data Available

Transcripts for RNU5F-1 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for RNU5F-1 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000067B2B1_9606 snRNA 117 2

Ensembl: ENST00000362507 (view in UCSC) ,

Rfam: RF00020,

URS0000759ECB_9606 snRNA 116 2

HGNC: 10216,

RefSeq: NR_002753,

RNU5F-1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for RNU5F-1 Gene

1 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for RNU5F-1 Gene

No ASD Table

Relevant External Links for RNU5F-1 Gene

GeneLoc Exon Structure for
RNU5F-1

Expression for RNU5F-1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RNU5F-1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RNU5F-1

genes like me logo Genes that share expression patterns with RNU5F-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 RNU5F-1 Gene

Orthologs for RNU5F-1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU5F-1 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia U5 31
  • 87 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia U5 31
  • 71 (a)
ManyToMany
Lizard
(Anolis carolinensis)
Reptilia U5 31
  • 71 (a)
OneToMany
Species where no ortholog for RNU5F-1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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)
  • 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 Vase (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 RNU5F-1 Gene

ENSEMBL:
Gene Tree for RNU5F-1 (if available)
TreeFam:
Gene Tree for RNU5F-1 (if available)

Paralogs for RNU5F-1 Gene

No data available for Paralogs for RNU5F-1 Gene

Variants for RNU5F-1 Gene

Additional dbSNP identifiers (rs#s) for RNU5F-1 Gene

Structural Variations from Database of Genomic Variants (DGV) for RNU5F-1 Gene

Variant ID Type Subtype PubMed ID
esv3585889 CNV loss 21293372

Additional Variant Information for RNU5F-1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU5F-1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for RNU5F-1 Gene

Disorders for RNU5F-1 Gene

Additional Disease Information for RNU5F-1

No disorders were found for RNU5F-1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNU5F-1 Gene

Publications for RNU5F-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
  2. RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination. (PMID: 29117863) Choudhury NR … Michlewski G (BMC biology 2017) 3

Products for RNU5F-1 Gene

Sources for RNU5F-1 Gene