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Aliases for RNU5A-1 Gene

Subcategory (RNA class) for RNU5A-1 Gene

snRNA

Quality Score for this RNA gene is

3

Aliases for RNU5A-1 Gene

  • RNA, U5A Small Nuclear 1 2 3 5
  • RNA, U5C Small Nuclear 2 3
  • RNA, U5A Small Nuclear 2
  • RNU5A 3
  • RNU5C 3
  • RNU5 3
  • U5B1 3
  • U5A 3

External Ids for RNU5A-1 Gene

ORGUL Members for RNU5A-1 Gene

Previous HGNC Symbols for RNU5A-1 Gene

  • RNU5C
  • RNU5A

Previous GeneCards Identifiers for RNU5A-1 Gene

  • GC15P065590
  • GC15P065675
  • GC15P065763

Summaries for RNU5A-1 Gene

GeneCards Summary for RNU5A-1 Gene

RNU5A-1 (RNA, U5A Small Nuclear 1) is an RNA Gene, and is affiliated with the snRNA class. Diseases associated with RNU5A-1 include Poikiloderma With Neutropenia.

Additional gene information for RNU5A-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 RNU5A-1 Gene

Genomics for RNU5A-1 Gene

GeneHancer (GH) Regulatory Elements for RNU5A-1 Gene

Promoters and enhancers for RNU5A-1 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
GH15I065295 Promoter/Enhancer 2 FANTOM5 Ensembl ENCODE dbSUPER 550.8 +1.3 1316 4.1 MLX DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ZNF548 SP3 GC15P068518 RNU5A-1 PARP16 INTS14 ZNF609 TRIP4 ENSG00000264937 ENSG00000259635 PDCD7 CSNK1G1
GH15I065183 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 12.3 -111.3 -111289 3 FOXA2 ARID4B SIN3A DMAP1 ZBTB7B YY1 POLR2B ZNF766 CBX5 ZNF207 GC15P069458 GC15P069459 GC15P069460 GC15P069461 GC15P069464 GC15P069465 GC15P069466 PIR37257 GC15P069462 CLPX
GH15I065189 Enhancer 0.7 ENCODE 12.2 -106.7 -106733 0.2 CTCF USF1 SAP130 RAD21 CC2D1A MTA3 ZBTB48 ARID2 PATZ1 SMC3 CILP SNORA24B RNU5A-1 PARP16 RNU6-686P RNU5B-1 IGDCC3 GC15P069458 GC15P069459 GC15P069460
GH15I065257 Enhancer 0.6 ENCODE 11.8 -37.3 -37301 3.5 MEIS2 PKNOX1 ZNF362 ZNF189 CEBPB CEBPG FEZF1 ZIC2 CEBPA BCL6B PARP16 IGDCC3 RNU6-686P CILP SNORA24B RNU5A-1 CLPX RNU5B-1 MIR1272
GH15I065254 Enhancer 0.5 ENCODE 11.8 -41.4 -41355 1.3 RFX1 ZNF398 BMI1 PRDM1 PARP16 RNU6-686P CILP SNORA24B RNU5A-1 CLPX RNU5B-1 IGDCC3 MIR1272
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNU5A-1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for RNU5A-1 Gene

Genomic Locations for RNU5A-1 Gene
chr15:65,296,051-65,296,167
(GRCh38/hg38)
Size:
117 bases
Orientation:
Plus strand
chr15:65,588,389-65,588,505
(GRCh37/hg19)

Genomic View for RNU5A-1 Gene

Genes around RNU5A-1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNU5A-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 RNU5A-1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU5A-1 Gene

Proteins for RNU5A-1 Gene

Post-translational modifications for RNU5A-1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU5A-1 Gene

Domains & Families for RNU5A-1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RNU5A-1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RNU5A-1 Gene

Function for RNU5A-1 Gene

Phenotypes for RNU5A-1 Gene

GenomeRNAi human phenotypes for RNU5A-1:
genes like me logo Genes that share phenotypes with RNU5A-1: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RNU5A-1 Gene

Localization for RNU5A-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 RNU5A-1 Gene

Pathways & Interactions for RNU5A-1 Gene

SuperPathways for RNU5A-1 Gene

No Data Available

Interacting Proteins for RNU5A-1 Gene

Gene Ontology (GO) - Biological Process for RNU5A-1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RNU5A-1 Gene

Drugs & Compounds for RNU5A-1 Gene

No Compound Related Data Available

Transcripts for RNU5A-1 Gene

mRNA/cDNA for RNU5A-1 Gene

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

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RNU5A-1 Gene

No ASD Table

Relevant External Links for RNU5A-1 Gene

GeneLoc Exon Structure for
RNU5A-1
ECgene alternative splicing isoforms for
RNU5A-1

Expression for RNU5A-1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNU5A-1 Gene

mRNA differential expression in normal tissues according to GTEx for RNU5A-1 Gene

This gene is overexpressed in Testis (x5.0).
genes like me logo Genes that share expression patterns with RNU5A-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 RNU5A-1 Gene

Orthologs for RNU5A-1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU5A-1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia U5 34
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm25313 34
  • 97 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia U5 34
  • 91 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia U5 34
  • 91 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia U5 34
  • 90 (a)
OneToOne
cow
(Bos Taurus)
Mammalia U5 34
  • 88 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia U5 34
  • 85 (a)
ManyToMany
Species where no ortholog for RNU5A-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)
  • 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)
  • zebrafish (Danio rerio)

Evolution for RNU5A-1 Gene

ENSEMBL:
Gene Tree for RNU5A-1 (if available)
TreeFam:
Gene Tree for RNU5A-1 (if available)

Paralogs for RNU5A-1 Gene

No data available for Paralogs for RNU5A-1 Gene

Variants for RNU5A-1 Gene

Sequence variations from dbSNP and Humsavar for RNU5A-1 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000692596 -- 65,296,043(+) T/C/G upstream_transcript_variant
rs1000911680 -- 65,295,963(+) C/G upstream_transcript_variant
rs1002026849 -- 65,296,394(+) AGA/A downstream_transcript_variant
rs1002461263 -- 65,296,325(+) A/G downstream_transcript_variant
rs1003554049 -- 65,294,936(+) T/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for RNU5A-1 Gene

Variant ID Type Subtype PubMed ID
nsv457182 CNV loss 19166990
nsv457183 CNV loss 19166990
nsv569705 CNV loss 21841781
nsv569706 CNV loss 21841781

Additional Variant Information for RNU5A-1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU5A-1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for RNU5A-1 Gene

Disorders for RNU5A-1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for RNU5A-1 Gene - From: GeneCards

Disorder Aliases PubMed IDs
poikiloderma with neutropenia
  • pn
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for RNU5A-1

genes like me logo Genes that share disorders with RNU5A-1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RNU5A-1 Gene

Publications for RNU5A-1 Gene

  1. Three novel functional variants of human U5 small nuclear RNA. (PMID: 1310151) Sontheimer EJ … Steitz JA (Molecular and cellular biology 1992) 2 3 58
  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 58
  3. Multiple myeloma-associated chromosomal translocation activates orphan snoRNA ACA11 to suppress oxidative stress. (PMID: 22751105) Chu L … Tomasson MH (The Journal of clinical investigation 2012) 3 58
  4. Mpn1, mutated in poikiloderma with neutropenia protein 1, is a conserved 3'-to-5' RNA exonuclease processing U6 small nuclear RNA. (PMID: 23022480) Shchepachev V … Azzalin CM (Cell reports 2012) 3 58
  5. The multifunctional human p100 protein 'hooks' methylated ligands. (PMID: 17632523) Shaw N … Rao Z (Nature structural & molecular biology 2007) 3 58

Products for RNU5A-1 Gene

Sources for RNU5A-1 Gene

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