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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 5
  • 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 SnoRNP-Associated 55-KDa Protein 3
  • U3 SnoRNP-Associated 55 KDa Protein 4
  • U355K 4

External Ids for RRP9 Gene

Previous HGNC 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. Among its related pathways are Gene Expression and rRNA processing. GO annotations related to this gene include poly(A) RNA binding and U3 snoRNA binding. An important paralog of this gene is TEP1.

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

Regulatory Elements for RRP9 Gene

Promoters for RRP9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around RRP9 on UCSC Golden Path with GeneCards custom track

Genomic Location for RRP9 Gene

Chromosome:
3
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

Genes around RRP9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RRP9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RRP9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence 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

  • Ubiquitination at Lys 129
  • Modification sites at PhosphoSitePlus

Other Protein References for RRP9 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for RRP9 Gene

Domains & Families for RRP9 Gene

Gene Families for RRP9 Gene

Suggested Antigen Peptide Sequences for RRP9 Gene

Graphical View of Domain Structure for InterPro Entry

O43818

UniProtKB/Swiss-Prot:

U3IP2_HUMAN :
  • The WD domains are required for nucleolar localization and U3 small nucleolar RNAs binding.
  • Belongs to the WD repeat RRP9 family.
  • Contains 7 WD repeats.
Domain:
  • The WD domains are required for nucleolar localization and U3 small nucleolar RNAs binding.
Family:
  • Belongs to the WD repeat RRP9 family.
Similarity:
  • Contains 7 WD repeats.
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:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with RRP9: view
genes like me logo Genes that share phenotypes with RRP9: view

Animal Model Products

miRNA for RRP9 Gene

miRTarBase miRNAs that target RRP9

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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:0032040 small-subunit processome IBA --
genes like me logo Genes that share ontologies with RRP9: view

Pathways & Interactions for RRP9 Gene

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

Gene Ontology (GO) - Biological Process for RRP9 Gene

None

No data available for SIGNOR curated interactions for RRP9 Gene

Drugs & Compounds for RRP9 Gene

No Compound Related Data Available

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

Protein differential expression in normal tissues from HIPED for RRP9 Gene

This gene is overexpressed in Urine (13.3), Peripheral blood mononuclear cells (9.8), and Lung (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with RRP9: view

Protein tissue co-expression partners for RRP9 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RRP9 Gene

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 (a)
OneToOne
RRP9 35
  • 99.51 (n)
  • 99.37 (a)
cow
(Bos Taurus)
Mammalia RRP9 36
  • 93 (a)
OneToOne
RRP9 35
  • 89.12 (n)
  • 93.05 (a)
dog
(Canis familiaris)
Mammalia RRP9 35
  • 89.19 (n)
  • 94.53 (a)
RRP9 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rrp9 36
  • 93 (a)
OneToOne
Rrp9 35
  • 87.65 (n)
  • 92.63 (a)
Rrp9 16
oppossum
(Monodelphis domestica)
Mammalia RRP9 36
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RRP9 36
  • 69 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rrp9 35
  • 86.88 (n)
  • 92.84 (a)
chicken
(Gallus gallus)
Aves RRP9 35
  • 71.99 (n)
  • 73.57 (a)
RRP9 36
  • 66 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RRP9 36
  • 71 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.8086 35
tropical clawed frog
(Silurana tropicalis)
Amphibia rrp9 35
  • 64.23 (n)
  • 67.64 (a)
Str.7914 35
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2843 35
zebrafish
(Danio rerio)
Actinopterygii Dr.6359 35
rrp9 35
  • 66.43 (n)
  • 69.16 (a)
rrp9 36
  • 63 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005320 35
  • 51.69 (n)
  • 40.37 (a)
fruit fly
(Drosophila melanogaster)
Insecta U3-55K 35
  • 54.58 (n)
  • 46.37 (a)
U3-55K 36
  • 41 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea T02H6.1 36
  • 29 (a)
OneToOne
T02H6.1 35
  • 48.77 (n)
  • 38.89 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AAR102C 35
  • 48.86 (n)
  • 37.89 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RRP9 35
  • 44.47 (n)
  • 34.99 (a)
RRP9 36
  • 26 (a)
OneToOne
RRP9 38
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0B11077g 35
  • 45.41 (n)
  • 39.11 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons YAO 35
  • 47.39 (n)
  • 40.87 (a)
rice
(Oryza sativa)
Liliopsida Os03g0625900 35
  • 47.91 (n)
  • 39.9 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU01367 35
  • 54.05 (n)
  • 40.84 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC2E1P5.05 35
  • 47.86 (n)
  • 42.82 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 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

Paralogs for RRP9 Gene

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

Variants for RRP9 Gene

Sequence variations from dbSNP and Humsavar for RRP9 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
VAR_035887 A breast cancer sample
VAR_035888 A breast cancer sample
rs323900 -- 51,938,239(-) CAAGG(G/T)GAGCC intron-variant
rs323901 -- 51,939,153(-) AAACA(C/T)GGTTA intron-variant
rs191237 -- 51,936,383(-) CATGG(G/T)GGGTG 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

Variation tolerance for RRP9 Gene

Residual Variation Intolerance Score: 55.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.28; 40.78% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RRP9 Gene

HapMap Linkage Disequilibrium report
RRP9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RRP9 Gene

Disorders for RRP9 Gene

Relevant External Links for RRP9

Genetic Association Database (GAD)
RRP9
Human Genome Epidemiology (HuGE) Navigator
RRP9
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RRP9

No disorders were found for RRP9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 67
  2. Mammalian and yeast U3 snoRNPs are matured in specific and related nuclear compartments. (PMID: 12032086) Verheggen C. … Bertrand E. (EMBO J. 2002) 2 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  5. Identifying biological pathways that underlie primordial short stature using network analysis. (PMID: 24711643) Hanson D. … Clayton P.E. (J. Mol. Endocrinol. 2014) 3

Products for RRP9 Gene

Sources for RRP9 Gene

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