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Aliases for RNU4-1 Gene

Subcategory (RNA class) for RNU4-1 Gene

snRNA

Quality Score for this RNA gene is

3

Aliases for RNU4-1 Gene

  • RNA, U4 Small Nuclear 1 2 3 5
  • RNA, U4B2 Small Nuclear 2 3
  • RNA, U4A Small Nuclear 2 3
  • RNU4B2 3
  • RNU4A 3
  • U4BL 3
  • U4 3

External Ids for RNU4-1 Gene

ORGUL Members for RNU4-1 Gene

Previous HGNC Symbols for RNU4-1 Gene

  • RNU4B2
  • RNU4A

Previous GeneCards Identifiers for RNU4-1 Gene

  • GC12U900787
  • GC12M119218
  • GC12M120730
  • GC12M117739

Summaries for RNU4-1 Gene

GeneCards Summary for RNU4-1 Gene

RNU4-1 (RNA, U4 Small Nuclear 1) is an RNA Gene, and is affiliated with the snRNA class. Among its related pathways are Spliceosomal Splicing Cycle.

Additional gene information for RNU4-1 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 RNU4-1 Gene

Genomics for RNU4-1 Gene

Regulatory Elements for RNU4-1 Gene

Enhancers for RNU4-1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12H120223 2.1 FANTOM5 Ensembl ENCODE dbSUPER 12.3 +61.7 61653 16 HDGF PKNOX1 FOXA2 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 PXN SIRT4 RPLP0 RNU4-1 RNU4-2 PXN-AS1 PLA2G1B GCN1 RAB35 MSI1
GH12H120239 2 FANTOM5 Ensembl ENCODE dbSUPER 11.8 +43.7 43707 19 PKNOX1 ARNT ZNF2 ZNF766 FOS REST ZNF592 MEF2D SMARCA4 GLIS1 SIRT4 RNU4-1 RNU4-2 RNU6-1088P PLA2G1B P2RX4 PXN BICDL1 RNF10 RAB35
GH12H120220 0.8 ENCODE dbSUPER 11.8 +72.5 72455 1 GLIS1 ARID4B KDM1A ZIC2 PXN GCN1 RNU4-1 RNU4-2 ENSG00000275936 GC12M120218
GH12H120222 0.7 ENCODE dbSUPER 11.8 +71.0 71025 0 BCOR ZMYM3 KDM1A PXN RNU4-2 RNU4-1 GCN1 ENSG00000275936 GC12M120218
GH12H120214 0.5 dbSUPER 10.9 +77.4 77418 1 GLIS2 POLR2A GLIS1 ZSCAN4 PXN RNU4-1 RNU4-2 SIRT4 ENSG00000111780 RPL31P52 TRIAP1 COQ5 GC12M120218 GC12P120211
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RNU4-1 on UCSC Golden Path with GeneCards custom track

Promoters for RNU4-1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000058293 837 2401 MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC ZC3H11A PPARGC1A

Genomic Location for RNU4-1 Gene

Chromosome:
12
Start:
120,293,094 bp from pter
End:
120,293,237 bp from pter
Size:
144 bases
Orientation:
Minus strand

Genomic View for RNU4-1 Gene

Genes around RNU4-1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNU4-1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNU4-1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU4-1 Gene

Proteins for RNU4-1 Gene

Post-translational modifications for RNU4-1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU4-1 Gene

Domains & Families for RNU4-1 Gene

Gene Families for RNU4-1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RNU4-1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RNU4-1 Gene

Function for RNU4-1 Gene

Animal Model Products

CRISPR Products

Clone Products

  • Applied Biological Materials Clones for RNU4-1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 RNU4-1 Gene

Localization for RNU4-1 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 RNU4-1 Gene

Pathways & Interactions for RNU4-1 Gene

SuperPathways for RNU4-1 Gene

SuperPathway Contained pathways
1 Spliceosomal Splicing Cycle
genes like me logo Genes that share pathways with RNU4-1: view

Pathways by source for RNU4-1 Gene

1 Qiagen pathway for RNU4-1 Gene

Interacting Proteins for RNU4-1 Gene

Gene Ontology (GO) - Biological Process for RNU4-1 Gene

None

No data available for SIGNOR curated interactions for RNU4-1 Gene

Drugs & Compounds for RNU4-1 Gene

No Compound Related Data Available

Transcripts for RNU4-1 Gene

mRNA/cDNA for RNU4-1 Gene

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

CRISPR Products

Clone Products

  • Applied Biological Materials Clones for RNU4-1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for RNU4-1 Gene

No ASD Table

Relevant External Links for RNU4-1 Gene

GeneLoc Exon Structure for
RNU4-1
ECgene alternative splicing isoforms for
RNU4-1

Expression for RNU4-1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNU4-1 Gene

mRNA differential expression in normal tissues according to GTEx for RNU4-1 Gene

This gene is overexpressed in Testis (x6.2), Whole Blood (x4.8), and Pancreas (x4.1).
genes like me logo Genes that share expression patterns with RNU4-1: 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 RNU4-1 Gene

Orthologs for RNU4-1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU4-1 Gene

Organism Taxonomy Gene Similarity Type Details
mouse
(Mus musculus)
Mammalia Gm24265 34
  • 99 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia U4 34
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia U4 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia U4 34
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia U4 34
  • 97 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii U4 34 34 34
  • 94 (a)
ManyToMany
Species where no ortholog for RNU4-1 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)
  • oppossum (Monodelphis domestica)
  • 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 RNU4-1 Gene

ENSEMBL:
Gene Tree for RNU4-1 (if available)
TreeFam:
Gene Tree for RNU4-1 (if available)

Paralogs for RNU4-1 Gene

No data available for Paralogs for RNU4-1 Gene

Variants for RNU4-1 Gene

Sequence variations from dbSNP and Humsavar for RNU4-1 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1001645897 -- 120,294,373(+) ATCAA(C/T)CTCCG intron-variant, upstream-variant-2KB
rs1001907162 -- 120,294,459(+) ACCAT(A/G/T)TTGGT intron-variant, upstream-variant-2KB
rs1002276069 -- 120,294,087(+) CAACC(A/T)CTGCC intron-variant, upstream-variant-2KB
rs1002728504 -- 120,293,063(+) AAAAA(-/T)AAGCC intron-variant, downstream-variant-500B, upstream-variant-2KB, utr-variant-5-prime
rs1002950798 -- 120,293,121(+) AAATT(A/C/G)CCAGT intron-variant, nc-transcript-variant, upstream-variant-2KB, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for RNU4-1 Gene

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

Relevant External Links for RNU4-1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU4-1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for RNU4-1 Gene

Disorders for RNU4-1 Gene

Relevant External Links for RNU4-1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RNU4-1

No disorders were found for RNU4-1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNU4-1 Gene

Publications for RNU4-1 Gene

  1. Genes for human U4 small nuclear RNA. (PMID: 3582982) Bark C … Pettersson U (Gene 1986) 2 3 60
  2. BS69/ZMYND11 reads and connects histone H3.3 lysine 36 trimethylation-decorated chromatin to regulated pre-mRNA processing. (PMID: 25263594) Guo R … Shi Y (Molecular cell 2014) 3 60
  3. Inhibition of U4 snRNA in human cells causes the stable retention of polyadenylated pre-mRNA in the nucleus. (PMID: 24796696) Hett A … West S (PloS one 2014) 3 60
  4. Implication of the SMN complex in the biogenesis and steady state level of the signal recognition particle. (PMID: 23221635) Piazzon N … Massenet S (Nucleic acids research 2013) 3 60
  5. The multifunctional human p100 protein 'hooks' methylated ligands. (PMID: 17632523) Shaw N … Rao Z (Nature structural & molecular biology 2007) 3 60

Products for RNU4-1 Gene

Sources for RNU4-1 Gene

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