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Aliases for RNU5D-1 Gene

Subcategory (RNA class) for RNU5D-1 Gene

snRNA

Quality Score for this RNA gene is

3

Aliases for RNU5D-1 Gene

  • RNA, U5D Small Nuclear 1 2 3 5
  • RNA, U5D Small Nuclear 2
  • RNU5D 3
  • U5DL 3
  • U5DS 3

External Ids for RNU5D-1 Gene

ORGUL Members for RNU5D-1 Gene

Previous HGNC Symbols for RNU5D-1 Gene

  • RNU5D

Previous GeneCards Identifiers for RNU5D-1 Gene

  • GC01M045198

Summaries for RNU5D-1 Gene

GeneCards Summary for RNU5D-1 Gene

RNU5D-1 (RNA, U5D Small Nuclear 1) is an RNA Gene, and is affiliated with the snRNA class.

Additional gene information for RNU5D-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 RNU5D-1 Gene

Genomics for RNU5D-1 Gene

GeneHancer (GH) Regulatory Elements for RNU5D-1 Gene

Promoters and enhancers for RNU5D-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
GH01I044729 Promoter/Enhancer 1.8 Ensembl ENCODE dbSUPER 550.8 -0.2 -204 2.8 CLOCK FEZF1 YBX1 IRF4 YY1 E2F8 ZNF143 SP3 NFYC MEF2D GC01M044732 RNU5D-1 GPBP1L1 TOE1 RPL7AP16 RPS8 HECTD3 RPS15AP10 NASP TMEM69
GH01I044730 Enhancer 1 FANTOM5 ENCODE 550.8 +1.7 1696 0.3 ELF3 HDGF ARNT YBX1 ZNF2 RAD21 RFX5 ZNF366 ZNF143 BCLAF1 RNU5D-1 GC01M044732 RNF220 LOC105378690
GH01I044706 Enhancer 1.3 Ensembl ENCODE dbSUPER 11.6 +23.8 23759 2.4 ELF3 PKNOX1 FOXA2 RB1 ARID4B RAD21 RARA ZNF335 ZNF121 E2F8 TMEM53 C1orf228 RNU5D-1 KIF2C RNF220 GC01P044699 GC01M044722 RNU5F-1 LOC105378690
GH01I044830 Enhancer 0.8 dbSUPER 11.1 -99.9 -99927 1.4 CTCF KLF1 NFRKB ZNF384 ZIC2 RAD21 RELA ZNF335 TCF12 POLR2A TCTEX1D4 BTBD19 PLK3 RPS8 BEST4 RNU5D-1 KIF2C EIF2B3 PPIAP35 UROD
GH01I044834 Enhancer 0.6 Ensembl 11.1 -103.1 -103131 0.2 HDAC1 L3MBTL2 IKZF1 NBN MNT DPF2 ZFX ZKSCAN1 BTBD19 TCTEX1D4 PLK3 UROD BEST4 RNU5D-1 KIF2C PPIAP35 EIF2B3 PTCH2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNU5D-1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for RNU5D-1 Gene

Genomic Locations for RNU5D-1 Gene
chr1:44,731,055-44,731,170
(GRCh38/hg38)
Size:
116 bases
Orientation:
Minus strand
chr1:45,196,727-45,196,842
(GRCh37/hg19)

Genomic View for RNU5D-1 Gene

Genes around RNU5D-1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNU5D-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 RNU5D-1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU5D-1 Gene

Proteins for RNU5D-1 Gene

Post-translational modifications for RNU5D-1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU5D-1 Gene

Domains & Families for RNU5D-1 Gene

Gene Families for RNU5D-1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RNU5D-1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RNU5D-1 Gene

Function for RNU5D-1 Gene

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 RNU5D-1 Gene

Localization for RNU5D-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 RNU5D-1 Gene

Pathways & Interactions for RNU5D-1 Gene

SuperPathways for RNU5D-1 Gene

No Data Available

Interacting Proteins for RNU5D-1 Gene

Gene Ontology (GO) - Biological Process for RNU5D-1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RNU5D-1 Gene

Drugs & Compounds for RNU5D-1 Gene

No Compound Related Data Available

Transcripts for RNU5D-1 Gene

mRNA/cDNA for RNU5D-1 Gene

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

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RNU5D-1 Gene

No ASD Table

Relevant External Links for RNU5D-1 Gene

GeneLoc Exon Structure for
RNU5D-1
ECgene alternative splicing isoforms for
RNU5D-1

Expression for RNU5D-1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNU5D-1 Gene

genes like me logo Genes that share expression patterns with RNU5D-1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , 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 RNU5D-1 Gene

Orthologs for RNU5D-1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU5D-1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia U5 34
  • 93 (a)
OneToOne
cow
(Bos Taurus)
Mammalia U5 34
  • 83 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia U5 34
  • 83 (a)
OneToMany
dog
(Canis familiaris)
Mammalia U5 34
  • 82 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm24871 34
  • 82 (a)
ManyToMany
Gm25099 34
  • 82 (a)
ManyToMany
Gm23287 34
  • 80 (a)
ManyToMany
Gm23143 34
  • 79 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia U5 34
  • 82 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia U5 34
  • 84 (a)
ManyToMany
Species where no ortholog for RNU5D-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 RNU5D-1 Gene

ENSEMBL:
Gene Tree for RNU5D-1 (if available)
TreeFam:
Gene Tree for RNU5D-1 (if available)

Paralogs for RNU5D-1 Gene

No data available for Paralogs for RNU5D-1 Gene

Variants for RNU5D-1 Gene

Sequence variations from dbSNP and Humsavar for RNU5D-1 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1001199608 -- 44,731,372(-) T/A/C upstream_transcript_variant
rs1001432281 -- 44,730,770(-) G/A downstream_transcript_variant
rs1001445202 -- 44,731,330(-) A/C upstream_transcript_variant
rs1001634713 -- 44,730,671(-) C/G downstream_transcript_variant
rs1002676765 -- 44,732,323(-) T/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for RNU5D-1 Gene

Variant ID Type Subtype PubMed ID
nsv998871 CNV loss 25217958

Additional Variant Information for RNU5D-1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU5D-1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for RNU5D-1 Gene

Disorders for RNU5D-1 Gene

Additional Disease Information for RNU5D-1

No disorders were found for RNU5D-1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNU5D-1 Gene

Publications for RNU5D-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

Products for RNU5D-1 Gene

Sources for RNU5D-1 Gene

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