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Aliases for RNU4-28P Gene

Subcategory (RNA class) for RNU4-28P Gene

snRNA

Aliases for RNU4-28P Gene

  • RNA, U4 Small Nuclear 28, Pseudogene 2 3 5

External Ids for RNU4-28P Gene

ORGUL Members for RNU4-28P Gene

Previous GeneCards Identifiers for RNU4-28P Gene

  • GC01P019839

Summaries for RNU4-28P Gene

GeneCards Summary for RNU4-28P Gene

RNU4-28P (RNA, U4 Small Nuclear 28, Pseudogene) is a Pseudogene, and is affiliated with the snRNA class.

fRNAdb sequence ontologies for RNU4-28P 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.

Additional gene information for RNU4-28P 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 RNU4-28P Gene

Genomics for RNU4-28P Gene

GeneHancer (GH) Regulatory Elements for RNU4-28P Gene

Promoters and enhancers for RNU4-28P 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
GH01J019508 Promoter/Enhancer 1.6 Ensembl ENCODE dbSUPER 600.7 -1.4 -1402 0.9 CBFA2T2 MLLT1 TRIM24 ZNF384 SMARCA4 MTA1 IKZF1 DPF2 ATF1 REST RNU4-28P NBL1 LOC105376819 MICOS10
GH01J019511 Promoter 0.7 Ensembl 600.7 +0.5 508 1 NR2C2 SMAD5 RNU4-28P LOC105376818 NBL1 CAPZB LOC105376819 MICOS10
GH01J019481 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 12.2 -25.7 -25655 7.1 SP1 CC2D1A ZFX CTCF ELF3 MNT ZNF148 NKRF POLR2A GTF2F1 MICOS10 CAPZB OTUD3 RNU4-28P EMC1 HTR6 NBL1 AKR7A3
GH01J019458 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE dbSUPER 11.4 -45.6 -45555 13 ELF3 CBFA2T2 ZNF148 MLLT1 GTF2F1 CDC5L TRIM24 SP7 RELA SP1 PIR41915 CAPZB RNU4-28P SLC66A1 AKR7A2 UBR4 PLA2G2E RN7SL277P
GH01J019445 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE dbSUPER 11 -59.9 -59947 10.6 ELF3 CEBPG RERE MAFK TFE3 SP7 SP1 PPARG SP5 CREM CAPZB NBL1 RNU4-28P HTR6 AKR7A2 PIR41915 RN7SL277P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RNU4-28P on UCSC Golden Path with GeneCards custom track

Genomic Locations for RNU4-28P Gene

Genomic Locations for RNU4-28P Gene
chr1:19,510,593-19,510,733
(GRCh38/hg38)
Size:
141 bases
Orientation:
Plus strand
chr1:19,837,087-19,837,227
(GRCh37/hg19)
Size:
141 bases
Orientation:
Plus strand

Genomic View for RNU4-28P Gene

Genes around RNU4-28P on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNU4-28P Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNU4-28P Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU4-28P Gene

ORGUL Member Location for RNU4-28P Gene

ORGUL Member Location for RNU4-28P gene

Proteins for RNU4-28P Gene

Post-translational modifications for RNU4-28P Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU4-28P Gene

Domains & Families for RNU4-28P 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 RNU4-28P Gene

Function for RNU4-28P Gene

Phenotypes From GWAS Catalog for RNU4-28P 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 RNU4-28P Gene

Localization for RNU4-28P 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 RNU4-28P Gene

Pathways & Interactions for RNU4-28P Gene

PathCards logo

SuperPathways for RNU4-28P Gene

No Data Available

Interacting Proteins for RNU4-28P Gene

Gene Ontology (GO) - Biological Process for RNU4-28P Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RNU4-28P Gene

Drugs & Compounds for RNU4-28P Gene

No Compound Related Data Available

Transcripts for RNU4-28P Gene

mRNA/cDNA for RNU4-28P Gene

(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for RNU4-28P Gene

No ASD Table

Relevant External Links for RNU4-28P Gene

GeneLoc Exon Structure for
RNU4-28P
ECgene alternative splicing isoforms for
RNU4-28P

Expression for RNU4-28P Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNU4-28P Gene

genes like me logo Genes that share expression patterns with RNU4-28P: 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 RNU4-28P Gene

Orthologs for RNU4-28P Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU4-28P Gene

Organism Taxonomy Gene Similarity Type Details
lizard
(Anolis carolinensis)
Reptilia U4 35
  • 63 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii U4 35
  • 67 (a)
ManyToMany
Species where no ortholog for RNU4-28P 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)
  • chimpanzee (Pan troglodytes)
  • 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)
  • 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)

Evolution for RNU4-28P Gene

ENSEMBL:
Gene Tree for RNU4-28P (if available)
TreeFam:
Gene Tree for RNU4-28P (if available)

Paralogs for RNU4-28P Gene

No data available for Paralogs for RNU4-28P Gene

Variants for RNU4-28P Gene

Additional Variant Information for RNU4-28P Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU4-28P

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 RNU4-28P Gene

Disorders for RNU4-28P Gene

No disorders were found for RNU4-28P Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for RNU4-28P Gene

Publications for RNU4-28P 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

No data available for External Links for RNU4-28P Gene

Products for RNU4-28P Gene

Sources for RNU4-28P Gene

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