Aliases for RNU4-2 Gene

Data sources for RNU4-2 Gene:

Subcategory (RNA class) for RNU4-2 Gene

snRNA

Aliases for RNU4-2 Gene

External Ids for RNU4-2 Gene

Previous HGNC Symbols for RNU4-2 Gene

  • RNU4C
  • RNU4-1B
  • RNU4B1

Previous GeneCards Identifiers for RNU4-2 Gene

  • GC12U900989
  • GC12M119219
  • GC12M120729
  • GC12M117737

Summaries for RNU4-2 Gene

GeneCards Summary for RNU4-2 Gene

RNU4-2 (RNA, U4 Small Nuclear 2) is an RNA Gene, and is affiliated with the snRNA class. Among its related pathways are mRNA Splicing - Major Pathway and RNA transport.

Rfam classification for RNU4-2 Gene

Additional gene information for RNU4-2 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 RNU4-2 Gene

Genomics for RNU4-2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RNU4-2 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
GH12J120290 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 250.7 -0.3 -255 3.5 ZSCAN16 ZBTB10 BCL11A SP1 CEBPA ZNF217 SIX5 CBX2 MNT IKZF1 SIRT4 RNU4-1 RNU4-2 GCN1 RPL31P52 RAB35 SRSF9 CABP1 ENSG00000256008 CIT
GH12J120289 Enhancer 0.2 ENCODE 250.7 +1.9 1850 0.2 SIRT4 RNU4-2 lnc-PXN-1 RF00017-1306 PXN RF00017-1304
GH12J120223 Promoter/Enhancer 2 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 12.3 +60.4 60397 15.9 TBP MXD4 FEZF1 CEBPA ZNF217 MNT DEK IKZF1 SMAD5 ETS1 PXN SIRT4 RPLP0 RNU4-1 RNU4-2 PXN-AS1 PLA2G1B GCN1 RAB35 MSI1
GH12J120244 Promoter/Enhancer 2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.8 +40.2 40186 14.1 BCL11A IKZF1 BHLHE40 ZIC2 CEBPB VEZF1 RUNX1 KLF7 ZEB2 GABPA PXN piR-38580-070 SIRT4 RNU4-1 RNU4-2 RNU6-1088P PLA2G1B BICDL1 RNF10 RAB35
GH12J120220 Enhancer 0.9 Ensembl ENCODE dbSUPER 11.8 +70.6 70633 2.5 ZIC2 SMAD4 GLIS1 ZMYM3 TFAP4 KDM1A HNRNPL BCOR HSALNG0094502 lnc-RPLP0-1 GCN1 PXN PXN-AS1 RNU4-1 RNU4-2 ENSG00000286067 RPLP0 RF00017-1304
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RNU4-2 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for RNU4-2 Gene

Latest Assembly
chr12:120,291,760-120,291,903
(GRCh38/hg38)
Size:
144 bases
Orientation:
Minus strand

Previous Assembly
chr12:120,729,566-120,729,706
(GRCh37/hg19 by Entrez Gene)
Size:
141 bases
Orientation:
Minus strand

chr12:120,729,566-120,729,706
(GRCh37/hg19 by Ensembl)
Size:
141 bases
Orientation:
Minus strand

Genomic View for RNU4-2 Gene

Genes around RNU4-2 on UCSC Golden Path with GeneCards custom track
RNU4-2 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
RNU4-2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNU4-2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU4-2 Gene

Proteins for RNU4-2 Gene

Post-translational modifications for RNU4-2 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU4-2 Gene

Domains & Families for RNU4-2 Gene

Gene Families for RNU4-2 Gene

genes like me logo Genes that share domains with RNU4-2: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for RNU4-2 Gene

Function for RNU4-2 Gene

Phenotypes From GWAS Catalog for RNU4-2 Gene

Gene Ontology (GO) - Molecular Function for RNU4-2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0017070 U6 snRNA binding IEA --
genes like me logo Genes that share ontologies with RNU4-2: view

CRISPR products for research

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RNU4-2 Gene

Localization for RNU4-2 Gene

Gene Ontology (GO) - Cellular Components for RNU4-2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005687 U4 snRNP IEA --
GO:0046540 U4/U6 x U5 tri-snRNP complex IEA --
genes like me logo Genes that share ontologies with RNU4-2: 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 RNU4-2 Gene

Pathways & Interactions for RNU4-2 Gene

PathCards logo

SuperPathways for RNU4-2 Gene

SuperPathway Contained pathways
1 RNA transport
2 mRNA Splicing - Major Pathway
genes like me logo Genes that share pathways with RNU4-2: view

Pathways by source for RNU4-2 Gene

2 KEGG pathways for RNU4-2 Gene

Gene Ontology (GO) - Biological Process for RNU4-2 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 RNU4-2: view

No data available for Interacting Proteins and SIGNOR curated interactions for RNU4-2 Gene

Drugs & Compounds for RNU4-2 Gene

No Compound Related Data Available

Transcripts for RNU4-2 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for RNU4-2 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS0000149178_9606 snRNA 141 3

RefSeq: NR_003137,

Ensembl: ENST00000365668 (view in UCSC) ,

Rfam: RF00015,

URS0000200C70_9606 snRNA 144 2

PDBe: 5O9Z_4,

ENA: V00592.1:1..145:ncRNA,

URS000000C8CD_9606 snRNA 144 1

ENA: M15957.1:271..414:ncRNA,

URS00004D7446_9606 snRNA 144 1

ENA: K00472.1:1..145:ncRNA,

URS00008FED2D_9606 snRNA 144 1

PDBe: 3JCR_M,

RNU4-2 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for RNU4-2 Gene

2 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for RNU4-2 Gene

No ASD Table

Relevant External Links for RNU4-2 Gene

GeneLoc Exon Structure for
RNU4-2

Expression for RNU4-2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RNU4-2 Gene

mRNA differential expression in normal tissues according to GTEx for RNU4-2 Gene

This gene is overexpressed in Whole Blood (x4.4).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RNU4-2

genes like me logo Genes that share expression patterns with RNU4-2: 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 , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for RNU4-2 Gene

Orthologs for RNU4-2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU4-2 Gene

Organism Taxonomy Gene Similarity Type Details
Oppossum
(Monodelphis domestica)
Mammalia U4 31
  • 100 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Gm24407 31
  • 100 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia U4 31
  • 100 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia U4 31
  • 99 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia U4 31
  • 98 (a)
OneToOne
Chimpanzee
(Pan troglodytes)
Mammalia U4 31
  • 87 (a)
ManyToMany
Chicken
(Gallus gallus)
Aves U4 31
  • 96 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia U4 31
  • 99 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii U4 31 31 31
  • 95 (a)
ManyToMany
Species where no ortholog for RNU4-2 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)
  • 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 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)

Evolution for RNU4-2 Gene

ENSEMBL:
Gene Tree for RNU4-2 (if available)
TreeFam:
Gene Tree for RNU4-2 (if available)

Paralogs for RNU4-2 Gene

No data available for Paralogs for RNU4-2 Gene

Variants for RNU4-2 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for RNU4-2 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for RNU4-2 Gene

Variant ID Type Subtype PubMed ID
nsv560435 CNV loss 21841781
nsv832530 CNV loss 17160897

Additional Variant Information for RNU4-2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU4-2

SNP Genotyping and Copy Number Assays for research

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 RNU4-2 Gene

Disorders for RNU4-2 Gene

Additional Disease Information for RNU4-2

No disorders were found for RNU4-2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNU4-2 Gene

Publications for RNU4-2 Gene

  1. Genes for human U4 small nuclear RNA. (PMID: 3582982) Bark C … Pettersson U (Gene 1986) 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
  3. Toward a complete human genome sequence. (PMID: 9847074) Sanger Center … Genome Sequencing Center (Genome research 1998) 3
  4. Primary and secondary structures of chicken, rat and man nuclear U4 RNAs. Homologies with U1 and U5 RNAs. (PMID: 6169000) Krol A … Jacob M (Nucleic acids research 1981) 3

Products for RNU4-2 Gene

Sources for RNU4-2 Gene