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Aliases for RRP9 Gene

Aliases for RRP9 Gene

  • Ribosomal RNA Processing 9, Small Subunit (SSU) Processome Component, Homolog (Yeast) 2 3
  • U3 Small Nucleolar Ribonucleoprotein-Associated 55 KDa Protein 3 4
  • RNA, U3 Small Nucleolar Interacting Protein 2 2 3
  • RRP9 Homolog 3 4
  • RNU3IP2 3 4
  • U3-55K 3 4
  • RRP9, Small Subunit (SSU) Processome Component, Homolog 3
  • U3 Small Nucleolar RNA-Interacting Protein 2 3
  • U3 SnoRNP-Associated 55-KDa Protein 3
  • U3 SnoRNP-Associated 55 KDa Protein 4
  • U355K 4

External Ids for RRP9 Gene

Previous Symbols for RRP9 Gene

  • RNU3IP2

Summaries for RRP9 Gene

Entrez Gene Summary for RRP9 Gene

  • This gene encodes a member of the WD-repeat protein family. The encoded protein is a component of the nucleolar small nuclear ribonucleoprotein particle (snoRNP) and is essential for 18s rRNA processing during ribosome synthesis. It contains seven WD domains required for nucleolar localization and specific interaction with the U3 small nucleolar RNA (U3 snoRNA). [provided by RefSeq, Oct 2012]

GeneCards Summary for RRP9 Gene

RRP9 (Ribosomal RNA Processing 9, Small Subunit (SSU) Processome Component, Homolog (Yeast)) is a Protein Coding gene. GO annotations related to this gene include RNA binding.

UniProtKB/Swiss-Prot for RRP9 Gene

  • Component of a nucleolar small nuclear ribonucleoprotein particle (snoRNP) thought to participate in the processing and modification of pre-ribosomal RNA

Gene Wiki entry for RRP9 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RRP9 Gene

Genomics for RRP9 Gene

Genomic Location for RRP9 Gene

Start:
51,933,426 bp from pter
End:
51,941,941 bp from pter
Size:
8,516 bases
Orientation:
Minus strand

Genomic View for RRP9 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RRP9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RRP9 Gene

Regulatory Elements for RRP9 Gene

Proteins for RRP9 Gene

  • Protein details for RRP9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43818-U3IP2_HUMAN
    Recommended name:
    U3 small nucleolar RNA-interacting protein 2
    Protein Accession:
    O43818
    Secondary Accessions:
    • B2R996
    • Q8IZ30

    Protein attributes for RRP9 Gene

    Size:
    475 amino acids
    Molecular mass:
    51841 Da
    Quaternary structure:
    • Interacts specifically with the U3 small nucleolar RNA (U3 snoRNA). Binds a sub-fragment of the U3 snoRNA surrounding the B/C motif (3UBC). This association with the U3BC RNA is dependent on the binding of a protein called 15.5K to the box B/C motif. The association of the protein with the U3BC RNA was found to be also dependent on a conserved RNA structure that flanks the box B/C motif.

    Three dimensional structures from OCA and Proteopedia for RRP9 Gene

neXtProt entry for RRP9 Gene

Proteomics data for RRP9 Gene at MOPED

Post-translational modifications for RRP9 Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys129

Other Protein References for RRP9 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RRP9 Gene

Domains for RRP9 Gene

Gene Families for RRP9 Gene

HGNC:
  • WDR :WD repeat domain containing

UniProtKB/Swiss-Prot:

U3IP2_HUMAN
Domain:
  • The WD domains are required for nucleolar localization and U3 small nucleolar RNAs binding:
    • O43818
Family:
  • Belongs to the WD repeat RRP9 family.:
    • O43818
Similarity:
  • Contains 7 WD repeats.:
    • O43818
genes like me logo Genes that share domains with RRP9: view

Function for RRP9 Gene

Molecular function for RRP9 Gene

UniProtKB/Swiss-Prot Function: Component of a nucleolar small nuclear ribonucleoprotein particle (snoRNP) thought to participate in the processing and modification of pre-ribosomal RNA

Gene Ontology (GO) - Molecular Function for RRP9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
GO:0030515 snoRNA binding IBA --
GO:0034511 contributes_to U3 snoRNA binding IDA 9418896
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with RRP9: view

Phenotypes for RRP9 Gene

GenomeRNAi human phenotypes for RRP9:
genes like me logo Genes that share phenotypes with RRP9: view

miRNA for RRP9 Gene

miRTarBase miRNAs that target RRP9

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for RRP9 Gene

Localization for RRP9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RRP9 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RRP9 Gene COMPARTMENTS Subcellular localization image for RRP9 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for RRP9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005730 nucleolus IDA 9418896
GO:0005732 small nucleolar ribonucleoprotein complex --
GO:0030532 small nuclear ribonucleoprotein complex --
GO:0031428 box C/D snoRNP complex IDA 9418896
genes like me logo Genes that share ontologies with RRP9: view

Pathways for RRP9 Gene

SuperPathways for RRP9 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RRP9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing IEA --
genes like me logo Genes that share ontologies with RRP9: view

No data available for Pathways by source for RRP9 Gene

Transcripts for RRP9 Gene

mRNA/cDNA for RRP9 Gene

(1) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(143) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for RRP9 Gene

Ribosomal RNA processing 9, small subunit (SSU) processome component, homolog (yeast):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RRP9 Gene

No ASD Table

Relevant External Links for RRP9 Gene

GeneLoc Exon Structure for
RRP9
ECgene alternative splicing isoforms for
RRP9

Expression for RRP9 Gene

mRNA expression in normal human tissues for RRP9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RRP9 Gene

SOURCE GeneReport for Unigene cluster for RRP9 Gene Hs.153768

genes like me logo Genes that share expressions with RRP9: view

Orthologs for RRP9 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RRP9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RRP9 36
  • 99.51 (n)
  • 99.37 (a)
RRP9 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RRP9 36
  • 89.12 (n)
  • 93.05 (a)
RRP9 37
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RRP9 36
  • 89.19 (n)
  • 94.53 (a)
RRP9 37
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rrp9 36
  • 87.65 (n)
  • 92.63 (a)
Rrp9 16
Rrp9 37
  • 93 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RRP9 37
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RRP9 37
  • 69 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rrp9 36
  • 86.88 (n)
  • 92.84 (a)
chicken
(Gallus gallus)
Aves RRP9 36
  • 71.99 (n)
  • 73.57 (a)
RRP9 37
  • 66 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RRP9 37
  • 71 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.8086 36
tropical clawed frog
(Silurana tropicalis)
Amphibia rrp9 36
  • 64.23 (n)
  • 67.64 (a)
Str.7914 36
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2843 36
zebrafish
(Danio rerio)
Actinopterygii Dr.6359 36
rrp9 36
  • 66.43 (n)
  • 69.16 (a)
rrp9 37
  • 63 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005320 36
  • 51.69 (n)
  • 40.37 (a)
fruit fly
(Drosophila melanogaster)
Insecta U3-55K 36
  • 54.58 (n)
  • 46.37 (a)
U3-55K 37
  • 41 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea T02H6.1 36
  • 48.77 (n)
  • 38.89 (a)
T02H6.1 37
  • 29 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AAR102C 36
  • 48.86 (n)
  • 37.89 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RRP9 36
  • 44.47 (n)
  • 34.99 (a)
RRP9 37
  • 26 (a)
OneToOne
RRP9 39
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0B11077g 36
  • 45.41 (n)
  • 39.11 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons YAO 36
  • 47.39 (n)
  • 40.87 (a)
rice
(Oryza sativa)
Liliopsida Os03g0625900 36
  • 47.91 (n)
  • 39.9 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU01367 36
  • 54.05 (n)
  • 40.84 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC2E1P5.05 36
  • 47.86 (n)
  • 42.82 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 52 (a)
OneToOne
Species with no ortholog for RRP9:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RRP9 Gene

ENSEMBL:
Gene Tree for RRP9 (if available)
TreeFam:
Gene Tree for RRP9 (if available)

Paralogs for RRP9 Gene

No data available for Paralogs for RRP9 Gene

Variants for RRP9 Gene

Sequence variations from dbSNP and Humsavar for RRP9 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs191237 -- 51,936,383(-) CATGG(G/T)GGGTG intron-variant
rs323886 -- 51,933,423(-) CTTGT(C/G/T)TCTTG downstream-variant-500B
rs323887 -- 51,934,413(-) CTGGA(A/G)TTAGC intron-variant
rs323888 -- 51,935,509(-) CCCCT(A/G)TCCCC intron-variant
rs323889 -- 51,936,150(-) CCTGG(A/G)GTAGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RRP9 Gene

Variant ID Type Subtype PubMed ID
nsv520211 CNV Gain 19592680
nsv508922 CNV Insertion 20534489

Relevant External Links for RRP9 Gene

HapMap Linkage Disequilibrium report
RRP9

Disorders for RRP9 Gene

Relevant External Links for RRP9

Genetic Association Database (GAD)
RRP9
Human Genome Epidemiology (HuGE) Navigator
RRP9
genes like me logo Genes that share disorders with RRP9: view

No data available for UniProtKB/Swiss-Prot for RRP9 Gene

Publications for RRP9 Gene

  1. cDNA cloning and characterization of the human U3 small nucleolar ribonucleoprotein complex-associated 55-kilodalton protein. (PMID: 9418896) Pluk H. … van Venrooij W.J. (Mol. Cell. Biol. 1998) 2 3 4
  2. Interaction of the U3-55k protein with U3 snoRNA is mediated by the box B/C motif of U3 and the WD repeats of U3-55k. (PMID: 10982864) Lukowiak A.A. … Terns M.P. (Nucleic Acids Res. 2000) 3 4
  3. Mammalian and yeast U3 snoRNPs are matured in specific and related nuclear compartments. (PMID: 12032086) Verheggen C. … Bertrand E. (EMBO J. 2002) 2 3
  4. The hU3-55K protein requires 15.5K binding to the box B/C motif as well as flanking RNA elements for its association with the U3 small nucleolar RNA in Vitro. (PMID: 12381732) Granneman S. … Watkins N.J. (J. Biol. Chem. 2002) 3 4
  5. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A. … Diaz J.-J. (Mol. Biol. Cell 2002) 3 4

Products for RRP9 Gene

Sources for RRP9 Gene

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