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RNU4-2 Gene(RNA Gene)

RNA, U4 Small Nuclear 2

GCID:
GC12M120291
GIFtS:
15
Genes Participants
UDN Logo

Aliases for RNU4-2 Gene

Subcategory (RNA class) for RNU4-2 Gene

snRNA

Quality Score for this RNA gene is

3

Aliases for RNU4-2 Gene

  • RNA, U4 Small Nuclear 2 2 3 5
  • RNA, U4 Small Nuclear 1B 2 3
  • RNA, U4B1 Small Nuclear 2 3
  • RNA, U4C Small Nuclear 2 3
  • RNU4-1B 3
  • RNU4B1 3
  • RNU4C 3
  • U4A 3
  • U4b 3
  • U4c 3

External Ids for RNU4-2 Gene

ORGUL Members 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.

Additional gene information for RNU4-2 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RNU4-2 Gene

Genomics for RNU4-2 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for RNU4-2 Gene

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
GH12I120290 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 550.8 -0.3 -327 3.4 CLOCK MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SIRT4 GC12M120292 GC12M120294 RNU4-1 RNU4-2 GCN1 RAB35 PXN SRSF9 RPLP0
GH12I120289 Enhancer 0.2 ENCODE 550.8 +1.9 1850 0.2 GC12M120292 RNU4-2 NME2P1
GH12I120223 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 12.3 +60.3 60318 16 CLOCK MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF213 ZNF143 ZNF263 SP3 PXN SIRT4 RPLP0 RNU4-1 RNU4-2 PXN-AS1 PLA2G1B GCN1 RAB35 MSI1
GH12I120239 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.8 +42.4 42373 19.3 PKNOX1 SMAD1 FOXA2 ARNT ZNF2 ZNF766 E2F8 FOS REST ZNF592 PXN SIRT4 RNU4-2 RNU4-1 RNU6-1088P PLA2G1B P2RX4 BICDL1 RNF10 RAB35
GH12I120222 Enhancer 0.6 ENCODE dbSUPER 11.8 +69.7 69690 0.2 BCOR ZMYM3 KDM1A PXN RNU4-2 RNU4-1 GCN1 ENSG00000275936 GC12M120218
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNU4-2 on UCSC Golden Path with GeneCards custom track

Genomic Locations for RNU4-2 Gene

Genomic Locations for RNU4-2 Gene
chr12:120,291,763-120,291,903
(GRCh38/hg38)
Size:
141 bases
Orientation:
Minus strand
chr12:120,729,566-120,729,706
(GRCh37/hg19)

Genomic View for RNU4-2 Gene

Genes around RNU4-2 on UCSC Golden Path with GeneCards custom track

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 Structure • Gene Density

RefSeq DNA sequence for RNU4-2 Gene

Proteins for RNU4-2 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

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

HGNC:

Graphical View of Domain Structure for InterPro Entry

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

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

Function for RNU4-2 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Animal Model Products

Clone 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 RNU4-2 Gene

Localization for RNU4-2 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 RNU4-2 Gene

Pathways & Interactions for RNU4-2 Gene

SuperPathways for RNU4-2 Gene

PathCards logo More details on SuperPathways for RNU4-2
No Data Available

Interacting Proteins for RNU4-2 Gene

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

None

No data available for Pathways by source and SIGNOR curated interactions for RNU4-2 Gene

Drugs & Compounds for RNU4-2 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for RNU4-2 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for RNU4-2 Gene

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

Clone Products

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
ECgene alternative splicing isoforms for
RNU4-2

Expression for RNU4-2 Gene

Products:

  1. Primer
  2. Gene Expression Assay

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

mRNA expression in normal human tissues for RNU4-2 Gene
mRNA expression by GTEx 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).
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
dog
(Canis familiaris)
 Mammalia U4 34
  • 100 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia U4 34
  • 100 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Gm24407 34
  • 100 (a)
 OneToOne
cow
(Bos Taurus)
 Mammalia U4 34
  • 99 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia U4 34
  • 98 (a)
 OneToOne
chimpanzee
(Pan troglodytes)
 Mammalia U4 34
  • 87 (a)
 ManyToMany
chicken
(Gallus gallus)
 Aves U4 34
  • 96 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia U4 34
  • 99 (a)
 OneToOne
zebrafish
(Danio rerio)
 Actinopterygii U4 34 34 34
  • 94 (a)
 ManyToMany
Species where no ortholog for RNU4-2 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)
  • 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)

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

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for RNU4-2 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000114305 -- 120,291,906(-) A/G upstream_transcript_variant
rs1000724669 -- 120,292,398(-) C/T upstream_transcript_variant
rs1000829757 -- 120,293,080(-) ACTGCAAGAAAATTCAGTCTCCGTAGAGACTG/ACTG upstream_transcript_variant
rs1000842294 -- 120,291,681(-) A/G downstream_transcript_variant
rs1001338487 -- 120,291,655(-) A/C/G/T downstream_transcript_variant

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for RNU4-2 Gene

Disorders for RNU4-2 Gene

Additional Disease Information for RNU4-2

ATLAS of Genetics and Cytogenetics in Oncology and Haematology

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 58
  2. Toward a complete human genome sequence. (PMID: 9847074) Sanger Center … Genome Sequencing Center (Genome research 1998) 3 58
  3. 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 58
  4. 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 RNU4-2 Gene

Sources for RNU4-2 Gene

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