Free for academic non-profit institutions. Other users need a Commercial license

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.

No data available for Entrez Gene 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
GH12F120223 1.2 FANTOM5 Ensembl ENCODE 12.3 +51.2 51245 36.8 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF263 PXN SIRT4 RPLP0 RNU4-2 RNU4-1 PXN-AS1 RNU6-1088P NME2P1 PLA2G1B GCN1
GH12F120222 0.6 ENCODE 11.8 +71.0 71025 0.2 BCOR ZMYM3 KDM1A PXN RNU4-2 RNU4-1 GCN1 ENSG00000275936 GC12M120218
GH12F120220 0.6 ENCODE 11.8 +72.5 72455 1.2 ELF3 ZNF263 ZNF316 GLIS1 ARID4B ZSCAN29 NFE2 ZIC2 PXN GCN1 RNU4-1 RNU4-2 ENSG00000275936 GC12M120218
GH12F120290 0.2 ENCODE 0.8 +1.0 1008 3.4 CREB3L1 MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC TBX21 GCN1 NME2P1 MIR4700 RAB35 SRSF9 RPL31P52 SIRT4 C12orf43 PRKAB1 RPL29P24
GH12F120301 0.2 ENCODE 0.4 -9.3 -9325 1.8 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 SLC30A9 GCN1 SIRT4 RPL31P52 MIR4700 PXN PLA2G1B NME2P1 MSI1 RPS27P25 RNU4-1
- Elite enhancer/Elite enhancer-gene association Download Table
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
ENSR00001404795 837 2801 CREB3L1 MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC TBX21

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

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 RNU4-1 Gene

Localization for RNU4-1 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS 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

Transcripts for RNU4-1 Gene

mRNA/cDNA for RNU4-1 Gene

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

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 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 and mRNA Expression by UniProt/SwissProt 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 35
  • 99 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia U4 35
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia U4 35
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia U4 35
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia U4 35
  • 97 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii U4 35 35 35
  • 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
rs10535497 -- 120,293,853(+) TACTT(-/TA)TATAT intron-variant, upstream-variant-2KB
rs112036612 -- 120,292,939(+) CTAAA(A/G)CAGGT downstream-variant-500B, upstream-variant-2KB, utr-variant-5-prime
rs112334960 -- 120,293,429(+) TGTTG(A/C)TATGA intron-variant, upstream-variant-2KB
rs11341052 -- 120,293,087(+) TGCAA(A/G)AAAAT intron-variant, downstream-variant-500B, upstream-variant-2KB, utr-variant-5-prime
rs113684685 -- 120,293,151(+) GTCAC(A/G)GCGGG 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

No disorders were found for RNU4-1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links 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 64
  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. (Mol. Cell 2014) 3 64
  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 64
  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 Res. 2013) 3 64
  5. Composition and three-dimensional EM structure of double affinity- purified, human prespliceosomal A complexes. (PMID: 17332742) Behzadnia N. … Luehrmann R. (EMBO J. 2007) 3 64

Products for RNU4-1 Gene

Sources for RNU4-1 Gene

Content
Loading form....