Aliases for RPP25 Gene

Aliases for RPP25 Gene

  • Ribonuclease P And MRP Subunit P25 2 3 5
  • RNase P Protein Subunit P25 2 3 4
  • Ribonuclease P Protein Subunit P25 3 4
  • Ribonuclease P/MRP 25kDa Subunit 2 3
  • Ribonuclease P/MRP Subunit P25 2 3
  • Ribonuclease P 25kDa Subunit 2 3
  • EC 3.1.26.5 4
  • FLJ20374 2
  • RPP25 5

External Ids for RPP25 Gene

Previous GeneCards Identifiers for RPP25 Gene

  • GC15M072964
  • GC15M073034
  • GC15M075247
  • GC15M052044

Summaries for RPP25 Gene

GeneCards Summary for RPP25 Gene

RPP25 (Ribonuclease P And MRP Subunit P25) is a Protein Coding gene. Diseases associated with RPP25 include Chromosome 15Q24 Deletion Syndrome and Diffuse Scleroderma. Among its related pathways are rRNA processing in the nucleus and cytosol and tRNA processing. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and ribonuclease P activity. An important paralog of this gene is RPP25L.

UniProtKB/Swiss-Prot Summary for RPP25 Gene

  • Component of ribonuclease P, a ribonucleoprotein complex that generates mature tRNA molecules by cleaving their 5'-ends (PubMed:12003489, PubMed:16723659, PubMed:30454648). Also a component of the MRP ribonuclease complex, which cleaves pre-rRNA sequences (PubMed:28115465).

Additional gene information for RPP25 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RPP25 Gene

Genomics for RPP25 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RPP25 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RPP25 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RPP25

Top Transcription factor binding sites by QIAGEN in the RPP25 gene promoter:
  • AP-1
  • ATF-2
  • c-Jun
  • Max1
  • NF-kappaB
  • NF-kappaB1
  • Nkx5-1
  • p53
  • Pax-4a
  • Spz1

Genomic Locations for RPP25 Gene

Genomic Locations for RPP25 Gene
chr15:74,954,418-74,956,772
(GRCh38/hg38)
Size:
2,355 bases
Orientation:
Minus strand
chr15:75,246,757-75,249,805
(GRCh37/hg19)
Size:
3,049 bases
Orientation:
Minus strand

Genomic View for RPP25 Gene

Genes around RPP25 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPP25 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPP25 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPP25 Gene

Proteins for RPP25 Gene

  • Protein details for RPP25 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BUL9-RPP25_HUMAN
    Recommended name:
    Ribonuclease P protein subunit p25
    Protein Accession:
    Q9BUL9
    Secondary Accessions:
    • D3DW70
    • Q9NX88

    Protein attributes for RPP25 Gene

    Size:
    199 amino acids
    Molecular mass:
    20632 Da
    Quaternary structure:
    • Component of nuclear RNase P and RNase MRP ribonucleoproteins (PubMed:12003489, PubMed:15096576, PubMed:16723659, PubMed:20215441, PubMed:28115465, PubMed:30454648). RNase P consists of a catalytic RNA moiety and 10 different protein chains; POP1, POP4, POP5, POP7, RPP14, RPP21, RPP25, RPP30, RPP38 and RPP40 (PubMed:12003489, PubMed:16723659, PubMed:20215441, PubMed:30454648). Within the RNase P complex, POP1, POP7 and RPP25 form the 'finger' subcomplex, POP5, RPP14, RPP40 and homodimeric RPP30 form the 'palm' subcomplex, and RPP21, POP4 and RPP38 form the 'wrist' subcomplex. All subunits of the RNase P complex interact with the catalytic RNA (PubMed:30454648). Several subunits of RNase P are also part of the RNase MRP complex. RNase MRP consists of a catalytic RNA moiety and about 8 protein subunits; POP1, POP7, RPP25, RPP30, RPP38, RPP40 and possibly also POP4 and POP5 (PubMed:15096576, PubMed:16723659, PubMed:28115465). POP7 forms a heterodimer with RPP25 that binds to the P3 stem loop of the catalytic RNA (PubMed:20215441, PubMed:29625199).

    Three dimensional structures from OCA and Proteopedia for RPP25 Gene

neXtProt entry for RPP25 Gene

Post-translational modifications for RPP25 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RPP25 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RPP25 Gene

Domains & Families for RPP25 Gene

Gene Families for RPP25 Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for RPP25 Gene

InterPro:
Blocks:
  • Alba, DNA/RNA-binding protein
ProtoNet:

Suggested Antigen Peptide Sequences for RPP25 Gene

GenScript: Design optimal peptide antigens:
  • Ribonuclease P protein subunit p25 (RPP25_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9BUL9

UniProtKB/Swiss-Prot:

RPP25_HUMAN :
  • Belongs to the histone-like Alba family.
Family:
  • Belongs to the histone-like Alba family.
genes like me logo Genes that share domains with RPP25: view

Function for RPP25 Gene

Molecular function for RPP25 Gene

UniProtKB/Swiss-Prot Function:
Component of ribonuclease P, a ribonucleoprotein complex that generates mature tRNA molecules by cleaving their 5'-ends (PubMed:12003489, PubMed:16723659, PubMed:30454648). Also a component of the MRP ribonuclease complex, which cleaves pre-rRNA sequences (PubMed:28115465).
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=Endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor.; EC=3.1.26.5; Evidence={ECO:0000269|PubMed:12003489, ECO:0000269|PubMed:30454648};.

Enzyme Numbers (IUBMB) for RPP25 Gene

Phenotypes From GWAS Catalog for RPP25 Gene

Gene Ontology (GO) - Molecular Function for RPP25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,IBA 21873635
GO:0004526 contributes_to ribonuclease P activity IEA,IDA 16723659
GO:0005515 protein binding IPI 15096576
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with RPP25: view
genes like me logo Genes that share phenotypes with RPP25: view

Animal Model Products

CRISPR Products

miRNA for RPP25 Gene

miRTarBase miRNAs that target RPP25

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RPP25

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPP25 Gene

Localization for RPP25 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPP25 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RPP25 gene
Compartment Confidence
nucleus 5
cytoskeleton 4
cytosol 2
extracellular 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Centriolar satellite (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RPP25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000172 ribonuclease MRP complex IDA 16723659
GO:0005634 nucleus IEA,IBA 21873635
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IEA --
GO:0030681 multimeric ribonuclease P complex IDA 16723659
genes like me logo Genes that share ontologies with RPP25: view

Pathways & Interactions for RPP25 Gene

genes like me logo Genes that share pathways with RPP25: view

Gene Ontology (GO) - Biological Process for RPP25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001682 tRNA 5'-leader removal TAS --
GO:0006364 rRNA processing IEA --
GO:0008033 tRNA processing IEA --
GO:0090501 RNA phosphodiester bond hydrolysis IEA --
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic IEA --
genes like me logo Genes that share ontologies with RPP25: view

No data available for SIGNOR curated interactions for RPP25 Gene

Drugs & Compounds for RPP25 Gene

No Compound Related Data Available

Transcripts for RPP25 Gene

mRNA/cDNA for RPP25 Gene

1 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RPP25

Alternative Splicing Database (ASD) splice patterns (SP) for RPP25 Gene

No ASD Table

Relevant External Links for RPP25 Gene

GeneLoc Exon Structure for
RPP25

Expression for RPP25 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RPP25 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RPP25 Gene

This gene is overexpressed in Breast (28.7), Lung (20.3), and Pancreas (12.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RPP25 Gene



Protein tissue co-expression partners for RPP25 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RPP25

SOURCE GeneReport for Unigene cluster for RPP25 Gene:

Hs.8562

Evidence on tissue expression from TISSUES for RPP25 Gene

  • Nervous system(4.7)
  • Skin(4.7)
  • Lung(2.6)
  • Eye(2.3)
genes like me logo Genes that share expression patterns with RPP25: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RPP25 Gene

Orthologs for RPP25 Gene

This gene was present in the common ancestor of animals.

Orthologs for RPP25 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia RPP25 30 31
  • 98.66 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia RPP25 30 31
  • 89.61 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia RPP25 30
  • 87.86 (n)
Rat
(Rattus norvegicus)
Mammalia Rpp25 30
  • 87.44 (n)
Mouse
(Mus musculus)
Mammalia Rpp25 30 17 31
  • 86.26 (n)
OneToOne
Chicken
(Gallus gallus)
Aves RPP25 30 31
  • 65.95 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia RPP25 31
  • 49 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia rpp25 30
  • 55.71 (n)
Zebrafish
(Danio rerio)
Actinopterygii LOC101885168 30
  • 63.1 (n)
rpp25l 31
  • 33 (a)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta CG9422 31
  • 31 (a)
OneToMany
Species where no ortholog for RPP25 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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)
  • 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)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (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)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for RPP25 Gene

ENSEMBL:
Gene Tree for RPP25 (if available)
TreeFam:
Gene Tree for RPP25 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RPP25: view image

Paralogs for RPP25 Gene

Paralogs for RPP25 Gene

(1) SIMAP similar genes for RPP25 Gene using alignment to 1 proteins:

  • RPP25_HUMAN
genes like me logo Genes that share paralogs with RPP25: view

Variants for RPP25 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RPP25 Gene

SNP ID Clinical significance and condition Chr 15 pos Variation AA Info Type
719992 Benign: not provided 74,956,224(-) G/T SYNONYMOUS_VARIANT
769887 Benign: not provided 74,956,218(-) C/T SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for RPP25 Gene

Structural Variations from Database of Genomic Variants (DGV) for RPP25 Gene

Variant ID Type Subtype PubMed ID
nsv1121512 CNV deletion 24896259
nsv1612 CNV deletion 18451855
nsv569993 CNV gain 21841781

Variation tolerance for RPP25 Gene

Residual Variation Intolerance Score: 44.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.40; 8.84% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RPP25 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPP25

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPP25 Gene

Disorders for RPP25 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RPP25 Gene - From: DISEASES

Disorder Aliases PubMed IDs
chromosome 15q24 deletion syndrome
  • 15q24 microdeletion syndrome
diffuse scleroderma
  • diffuse systemic sclerosis
- elite association - COSMIC cancer census association via MalaCards
Search RPP25 in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with RPP25: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RPP25 Gene

Publications for RPP25 Gene

  1. Purification and characterization of Rpp25, an RNA-binding protein subunit of human ribonuclease P. (PMID: 12003489) Guerrier-Takada C … Altman S (RNA (New York, N.Y.) 2002) 2 3 4 23
  2. Cryo-EM Structure of the Human Ribonuclease P Holoenzyme. (PMID: 30454648) Wu J … Lei M (Cell 2018) 3 4
  3. Crystal Structure of Human Rpp20/Rpp25 Reveals Quaternary Level Adaptation of the Alba Scaffold as Structural Basis for Single-stranded RNA Binding. (PMID: 29625199) Chan CW … Mondragón A (Journal of molecular biology 2018) 3 4
  4. Heterodimerization of the human RNase P/MRP subunits Rpp20 and Rpp25 is a prerequisite for interaction with the P3 arm of RNase MRP RNA. (PMID: 20215441) Hands-Taylor KL … Conte MR (Nucleic acids research 2010) 3 4
  5. Differential association of protein subunits with the human RNase MRP and RNase P complexes. (PMID: 16723659) Welting TJ … Pruijn GJ (RNA (New York, N.Y.) 2006) 3 4

Products for RPP25 Gene

Sources for RPP25 Gene