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Aliases for RNU6-643P Gene

Subcategory (RNA class) for RNU6-643P Gene

snRNA

Aliases for RNU6-643P Gene

  • RNA, U6 Small Nuclear 643, Pseudogene 2 3 5

External Ids for RNU6-643P Gene

ORGUL Members for RNU6-643P Gene

Previous GeneCards Identifiers for RNU6-643P Gene

  • GC06M041272
  • GC00U936019

Summaries for RNU6-643P Gene

GeneCards Summary for RNU6-643P Gene

RNU6-643P (RNA, U6 Small Nuclear 643, Pseudogene) is a Pseudogene, and is affiliated with the snRNA class.

fRNAdb sequence ontologies for RNU6-643P Gene - the ORGUL cluster for this gene includes several descriptions:

  • U6_snRNA: U6 snRNA is a component of the spliceosome which is involved in splicing pre-mRNA. The putative secondary structure consensus base pairing is confined to a short 5' stem loop, but U6 snRNA is thought to form extensive base-pair interactions with U4 snRNA.

  • U6 spliceosomal RNA: U6 snRNA is a component of the spliceosome which is involved in splicing pre-mRNA. The putative secondary structure consensus base pairing is confined to a short 5' stem loop, but U6 snRNA is thought to form extensive base-pair interactions with U4 snRNA [2]. This model hits a large number of sequences in vertebrate genomes, which appear to be U6 derived pseudogenes or repeats. This family has a high significance threshold to minimise this problem, but many annotated pseudogenes remain.

View fRNAdb secondary structures for RNU6-643P

Additional gene information for RNU6-643P Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for RNU6-643P Gene

Genomics for RNU6-643P Gene

GeneHancer (GH) Regulatory Elements for RNU6-643P Gene

Promoters and enhancers for RNU6-643P 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
GH06I041302 Enhancer 1 Ensembl ENCODE dbSUPER 550.8 -0.4 -364 0.7 PKNOX1 TRIM22 EBF1 ATF2 IKZF1 ZNF143 NBN MLLT1 IKZF2 SPI1 RNU6-643P GC06M041308
GH06I041298 Enhancer 1 Ensembl ENCODE dbSUPER 0.8 +3.3 3298 1.6 HDGF SRF SMAD1 TRIM22 JUNB ELF1 ATF2 TARDBP NBN ATF7 NCR2 TREM1 RNU6-643P
GH06I041306 Enhancer 0.6 ENCODE 0.8 -3.9 -3886 0.2 CTCF ZNF654 ZNF362 TRIM22 ZNF384 REST RAD21 RARA ZFHX2 SMC3 GC06M041308 RNU6-643P
GH06I041288 Enhancer 0.8 ENCODE dbSUPER 0.4 +14.3 14314 0.2 JUNB EBF1 DPF2 BATF ATF2 NBN ATF7 IKZF2 TREM1 RNU6-643P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNU6-643P on UCSC Golden Path with GeneCards custom track

Genomic Locations for RNU6-643P Gene

Genomic Locations for RNU6-643P Gene
chr6:41,302,466-41,302,572
(GRCh38/hg38)
Size:
107 bases
Orientation:
Minus strand

Genomic View for RNU6-643P Gene

Genes around RNU6-643P on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNU6-643P Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNU6-643P Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNU6-643P Gene

ORGUL Member Location for RNU6-643P Gene

ORGUL Member Location for RNU6-643P gene

Proteins for RNU6-643P Gene

Post-translational modifications for RNU6-643P Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNU6-643P Gene

Domains & Families for RNU6-643P Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RNU6-643P Gene

Function for RNU6-643P Gene

Animal Model 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 RNU6-643P Gene

Localization for RNU6-643P 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 RNU6-643P Gene

Pathways & Interactions for RNU6-643P Gene

SuperPathways for RNU6-643P Gene

No Data Available

Interacting Proteins for RNU6-643P Gene

Gene Ontology (GO) - Biological Process for RNU6-643P Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RNU6-643P Gene

Drugs & Compounds for RNU6-643P Gene

No Compound Related Data Available

Transcripts for RNU6-643P Gene

fRNAdb Secondary structures for RNU6-643P Gene

  • RF00026;U6;AL672212.2/13560-13454

mRNA/cDNA for RNU6-643P Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for RNU6-643P Gene

No ASD Table

Relevant External Links for RNU6-643P Gene

GeneLoc Exon Structure for
RNU6-643P
ECgene alternative splicing isoforms for
RNU6-643P

Expression for RNU6-643P Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNU6-643P Gene

genes like me logo Genes that share expression patterns with RNU6-643P: 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 RNU6-643P Gene

Orthologs for RNU6-643P Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNU6-643P Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia U6 34
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia U6 34
  • 83 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Gm24378 34
  • 80 (a)
OneToOne
cow
(Bos Taurus)
Mammalia U6 34
  • 79 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia U6 34
  • 78 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia U6 34
  • 78 (a)
ManyToMany
Species where no ortholog for RNU6-643P 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 RNU6-643P Gene

ENSEMBL:
Gene Tree for RNU6-643P (if available)
TreeFam:
Gene Tree for RNU6-643P (if available)

Paralogs for RNU6-643P Gene

No data available for Paralogs for RNU6-643P Gene

Variants for RNU6-643P Gene

Additional Variant Information for RNU6-643P Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNU6-643P

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations from dbSNP and Humsavar , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for RNU6-643P Gene

Disorders for RNU6-643P Gene

No disorders were found for RNU6-643P Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for RNU6-643P Gene

Publications for RNU6-643P Gene

  1. The uRNA database. (PMID: 9016512) Zwieb C (Nucleic acids research 1997) 1
  2. Spliceosomal small nuclear RNAs of Tetrahymena thermophila and some possible snRNA-snRNA base-pairing interactions. (PMID: 1960724) Orum H … Engberg J (Journal of molecular biology 1991) 1
  3. The spliceosomal snRNAs of Caenorhabditis elegans. (PMID: 2339054) Thomas J … Blumenthal T (Nucleic acids research 1990) 1

Products for RNU6-643P Gene

Sources for RNU6-643P Gene

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