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Aliases for RNU4-48P Gene

Subcategory (RNA class) for RNU4-48P Gene

snRNA

Aliases for RNU4-48P Gene

  • RNA, U4 Small Nuclear 48, Pseudogene 2 3 5

External Ids for RNU4-48P Gene

ORGUL Members for RNU4-48P Gene

Previous GeneCards Identifiers for RNU4-48P Gene

  • GC02P128231

Summaries for RNU4-48P Gene

GeneCards Summary for RNU4-48P Gene

RNU4-48P (RNA, U4 Small Nuclear 48, Pseudogene) is a Pseudogene, and is affiliated with the snRNA class.

fRNAdb sequence ontologies for RNU4-48P Gene - the ORGUL cluster for this gene includes several descriptions:

  • U4_snRNA: U4 small nuclear RNA (U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to refold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6.

  • U4 spliceosomal RNA: U4 small nuclear RNA (U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to re-fold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6.

View fRNAdb secondary structures for RNU4-48P

Additional gene information for RNU4-48P 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 RNU4-48P Gene

Genomics for RNU4-48P Gene

GeneHancer (GH) Regulatory Elements for RNU4-48P Gene

Promoters and enhancers for RNU4-48P 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
GH02I127507 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 10.5 +37.5 37474 4.9 PKNOX1 SIN3A FEZF1 ZNF2 ATF7 FOS REST TSHZ1 MAFF SMARCA4 SFT2D3 ENSG00000236682 MYO7B RNU4-48P LIMS2 ERCC3 IWS1 ENSG00000231731 AMMECR1L MAP3K2
GH02I127437 Enhancer 0.9 ENCODE 10.7 -33.9 -33864 1.3 FOXA2 MLX ARID4B DMAP1 ZNF48 ETS1 YY1 SLC30A9 RXRA SP5 ERCC3 ENSG00000236682 MAP3K2 RNU4-48P BIN1 LIMS2 MIR4783 ENSG00000231731 LOC105373608 IWS1
GH02I127498 Enhancer 0.8 ENCODE dbSUPER 10.9 +26.4 26396 0.1 CEBPB ZNF384 DPF2 CEBPG FOXA1 IRF9 GATA3 CEBPA FOXP2 FOS MYO7B ENSG00000231731 RNU4-48P ERCC3 GC02M127501 IWS1
GH02I127365 Enhancer 0.8 Ensembl dbSUPER 10.8 -106.7 -106733 0.6 ZNF362 HCFC1 ZNF384 ZNF335 GLIS1 ZSCAN5C ZNF143 PRDM10 ZBTB17 THAP11 ENSG00000236682 MAP3K2 RNU4-48P LOC100506922 LOC105373606
GH02I127354 Enhancer 0.6 dbSUPER 10.8 -117.5 -117453 1.3 SOX5 SOX13 GATAD2A CTCF REST KLF4 GATA3 BCL6 ERCC3 MAP3K2 ENSG00000236682 RNU4-48P LOC105373606 LOC100506922
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNU4-48P on UCSC Golden Path with GeneCards custom track

Genomic Locations for RNU4-48P Gene

Genomic Locations for RNU4-48P Gene
chr2:127,472,234-127,472,415
(GRCh38/hg38)
Size:
182 bases
Orientation:
Plus strand
chr2:128,229,810-128,229,991
(GRCh37/hg19)

Genomic View for RNU4-48P Gene

Genes around RNU4-48P on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNU4-48P Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNU4-48P Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU4-48P Gene

ORGUL Member Location for RNU4-48P Gene

ORGUL Member Location for RNU4-48P gene

Proteins for RNU4-48P Gene

Post-translational modifications for RNU4-48P Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU4-48P Gene

Domains & Families for RNU4-48P Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RNU4-48P Gene

Function for RNU4-48P Gene

Animal Model Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RNU4-48P Gene

Localization for RNU4-48P 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 RNU4-48P Gene

Pathways & Interactions for RNU4-48P Gene

SuperPathways for RNU4-48P Gene

No Data Available

Interacting Proteins for RNU4-48P Gene

Gene Ontology (GO) - Biological Process for RNU4-48P Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RNU4-48P Gene

Drugs & Compounds for RNU4-48P Gene

No Compound Related Data Available

Transcripts for RNU4-48P Gene

fRNAdb Secondary structures for RNU4-48P Gene

  • RF00015;U4;AADD01022117.1/25867-26048

mRNA/cDNA for RNU4-48P Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for RNU4-48P Gene

No ASD Table

Relevant External Links for RNU4-48P Gene

GeneLoc Exon Structure for
RNU4-48P
ECgene alternative splicing isoforms for
RNU4-48P

Expression for RNU4-48P Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNU4-48P Gene

genes like me logo Genes that share expression patterns with RNU4-48P: 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 RNU4-48P Gene

Orthologs for RNU4-48P Gene

This gene was present in the common ancestor of mammals.

Orthologs for RNU4-48P Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia U4 34
  • 86 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia U4 34
  • 75 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia U4 34
  • 59 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm25806 34
  • 55 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia U4 34
  • 51 (a)
OneToOne
Species where no ortholog for RNU4-48P 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • 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 RNU4-48P Gene

ENSEMBL:
Gene Tree for RNU4-48P (if available)
TreeFam:
Gene Tree for RNU4-48P (if available)

Paralogs for RNU4-48P Gene

No data available for Paralogs for RNU4-48P Gene

Variants for RNU4-48P Gene

Additional Variant Information for RNU4-48P Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU4-48P

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations from dbSNP and Humsavar , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for RNU4-48P Gene

Disorders for RNU4-48P Gene

No disorders were found for RNU4-48P Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for RNU4-48P Gene

Publications for RNU4-48P Gene

  1. Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment. (PMID: 11163207) Vidovic I … Ficner R (Molecular cell 2000) 1
  2. A spliceosomal recycling factor that reanneals U4 and U6 small nuclear ribonucleoprotein particles. (PMID: 9452384) Raghunathan PL … Guthrie C (Science (New York, N.Y.) 1998) 1
  3. The uRNA database. (PMID: 9016512) Zwieb C (Nucleic acids research 1997) 1
  4. The spliceosomal snRNAs of Caenorhabditis elegans. (PMID: 2339054) Thomas J … Blumenthal T (Nucleic acids research 1990) 1

Products for RNU4-48P Gene

Sources for RNU4-48P Gene

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