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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

RPP25 Gene

protein-coding   GIFtS: 51
GCID: GC15M075247

ribonuclease P/MRP 25kDa subunit

(Previous name: ribonuclease P 25kDa subunit )
 Explore 3 diseases affiliated with
RPP25 via our new
 Human Malady Compendium 
Biological research products
for RPP25
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Ribonuclease P/MRP 25kDa Subunit1 2
Ribonuclease P 25kDa Subunit1 2
RNase P Protein Subunit P252 3
FLJ203741
Ribonuclease P Protein Subunit P252
EC 3.1.26.53

External Ids:    HGNC: 303611   Entrez Gene: 549132   Ensembl: ENSG000001787187   UniProtKB: Q9BUL93   

Export aliases for RPP25 gene to outside databases

Previous GC identifers: GC15M072964 GC15M073034 GC15M052044


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: RPP25_HUMAN, Q9BUL9
Function: Component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their
5'-ends. Also a component of RNase MRP. This subunit binds to RNA




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000015.9  NC_018926.1  NT_010194.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the RPP25 gene promoter:
         Max1   Spz1   p53   AP-1   ATF-2   Nkx5-1   NF-kappaB   c-Jun   Pax-4a   NF-kappaB1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRPP25 promoter sequence
   Search SABiosciences Chromatin IP Primers for RPP25

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RPP25


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 15q24.2   Ensembl cytogenetic band:  15q24.2   HGNC cytogenetic band: 15q24.2

RPP25 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RPP25 gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15M075247:  view genomic region     (about GC identifiers)

Start:
75,246,757 bp from pter      End:
75,249,805 bp from pter
Size:
3,049 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: RPP25_HUMAN, Q9BUL9 (See protein sequence)
Recommended Name: Ribonuclease P protein subunit p25  
Size: 199 amino acids; 20632 Da
Subunit: Component of nuclear RNase P and RNase MRP ribonucleoproteins. RNase P consists of a RNA moiety and at least 8
protein subunits; POP1, RPP14, RPP20/POP7, RPP25, RPP29/POP4, RPP30, RPP38 and RPP40. Interacts with the P3 domain of
RNase MRP complex. RNase MRP consists of a RNA moiety and at least 9 protein subunits; POP1, RPP14, RPP20/POP7, RPP25,
RPP29/POP4, RPP30, RPP38, RPP40, POP5 and RPP21
Subcellular location: Nucleus
Secondary accessions: D3DW70 Q9NX88

Explore the universe of human proteins at neXtProt for RPP25: NX_Q9BUL9

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BUL9

  • RPP25 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_060263.2  
    ENSEMBL proteins: 
     ENSP00000317691   ENSP00000446246  

    Human Recombinant Protein Products: 
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    Uscn Proteins for RPP25

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005739mitochondrion IDA--
    GO:0005813centrosome IDA--


    RPP25 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    RPP25 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR002775 DNA/RNA-bd_Alba-like

    Graphical View of Domain Structure for InterPro Entry Q9BUL9

    ProtoNet protein and cluster: Q9BUL9

    1 Blocks protein family: IPB002775 Alba

    UniProtKB/Swiss-Prot: RPP25_HUMAN, Q9BUL9
    Similarity: Belongs to the histone-like Alba family


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: RPP25_HUMAN, Q9BUL9
    Function: Component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their
    5'-ends. Also a component of RNase MRP. This subunit binds to RNA
    Catalytic activity: Endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor

    Enzyme Number (IUBMB): EC 3.1.26.51

    miRNA
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    hsa-miR-550a hsa-miR-1266 hsa-miR-24 hsa-miR-488 hsa-miR-766
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    Inhib. RNA
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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003723RNA binding IEA--
    GO:0004526ribonuclease P activity IEA--
    GO:0005515protein binding IPI15096576


    RPP25 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for RPP25:
     Increased G1 DNA content 


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Ribosome biogenesis in eukaryotes
    Ribosome biogenesis in eukaryotes1.00
    2RNA transport
    RNA transport1.00

    Pathway sources
    See GeneCards unified pathways
    Show all pathways



    2         Kegg Pathways  (Kegg details for RPP25):
        Ribosome biogenesis in eukaryotes
    RNA transport


    RPP25 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for RPP25

    STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

    5/8 Interacting proteins for RPP25 (Q9BUL91, 3 ENSP000003176914) via UniProtKB, MINT, STRING, and/or I2D (see all 8)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    POP7O758171, 3, ENSP000003043534EBI-366570,EBI-366574 I2D: score=4 STRING: ENSP00000304353
    POP4O957071, 3, ENSP000002217704EBI-366570,EBI-366477 I2D: score=4 STRING: ENSP00000221770
    POP1Q995753, ENSP000003395294I2D: score=4 STRING: ENSP00000339529
    POP5Q969H63, ENSP000003500984I2D: score=3 STRING: ENSP00000350098
    RPP14O950593, ENSP000002959594I2D: score=2 STRING: ENSP00000295959
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008033tRNA processing IEA--


    RPP25 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for RPP25
    Search CenterWatch for drugs/clinical trials and news about RPP25 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for RPP25 gene: 
    NM_017793.2  

    Unigene Cluster for RPP25:

    Ribonuclease P/MRP 25kDa subunit
    Hs.8562  [show with all ESTs]
    Unigene Representative Sequence: NM_017793
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000322177(uc002azj.1) ENST00000499788

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    hsa-miR-550a hsa-miR-1266 hsa-miR-24 hsa-miR-488 hsa-miR-766
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    Inhib. RNA
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    Additional cDNA sequence: 

    BC002497.2 BC007270.1 

    6 DOTS entries:

    DT.100784701  DT.415545  DT.92444066  DT.121055790  DT.100765341  DT.95315606 

    24/232 AceView cDNA sequences (see all 232):

    CR600222 BF683559 BQ216270 AA191103 BQ957194 BP340210 CK818970 BQ434687 
    CR619276 CK818971 BQ025449 BC002497 BM747322 BM808502 BQ064707 AA084656 
    BF001955 BM842493 BM843568 CR623184 BM980849 BI257840 BQ221947 H21196 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    RPP25 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GACCTTAAGG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    RPP25 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    2 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    BrainBlood Brain BarrierEndothelial CellsBlood Brain Barrier, Endothelium
    EyeInner Nuclear LayerGABAergic Amacrine CellsAmacrine, Retina
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    PureStem™ progenitor F15 (Embryonic Progenitor Cell)

    See RPP25 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for RPP25

    SOURCE GeneReport for Unigene cluster: Hs.8562
        SABiosciences Custom PCR Arrays for RPP25
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RPP25

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for RPP25 gene from 6/17 species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rpp251 , 5 ribonuclease P 25 subunit (human)5
    ribonuclease P/MRP 25 subunit1
    86.26(n)1
    87.94(a)1
      9 (31.05 cM)5
    1026141  NM_133982.11  NP_598743.11 
     575041025 
    chicken
    (Gallus gallus)
    Aves RPP251 ribonuclease P/MRP 25kDa subunit 62.99(n)
    58.9(a)
      430848  XM_428398.3  XP_428398.3 
    lizard
    (Anolis carolinensis)
    Reptilia RPP256
    --
    50(a)
    1 ↔ 1
    GL343492.1(536077-536616)
    fruit fly
    (Drosophila melanogaster)
    Insecta CG94226
    --
    28(a)
    1 → many
    2R(2563333-2580376)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G760106
    AT1G202206
    (see all 3)
    Alba DNA/RNA-binding protein
    (see all 3)
    13(a)
    13(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    1(28528077-28530790)
    1(7004879-7007651)
    rice
    (Oryza sativa)
    Liliopsida --
    --
    (see all 5)
    protein of unknown function domain containing prot...
    protein of unknown function domain containing prot...
    (see all 5)
    20(a)
    18(a)
    (see all 5)
    many ↔ many
    many ↔ many
    (see all 5)
    4(21060590-21063518)
    9(21343051-21346171)


    ENSEMBL Gene Tree for RPP25 (if available)
    TreeFam Gene Tree for RPP25 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for RPP25 gene
    RPP25L2  
    1 SIMAP similar gene for RPP25 using alignment to 1 protein entry:     RPP25_HUMAN:
    RPP25L

    RPP25 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/47 NCBI SNPs in RPP25 are shown (see all 47    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs124407071,2
    C,H--75246945(+) CCCCAC/ACCCCC 1 -- ds50015Minor allele frequency- A:0.00NS EA NA 420
    rs1493390401,2
    --75247037(+) TATCAA/GGAGGC 1 -- ds50010--------
    rs1446921811,2
    --75247128(+) CTCCCA/CCTTTC 1 -- ds50010--------
    rs1889021391,2
    --75247129(+) TCCCCC/TTTTCC 1 -- ds50010--------
    rs340636701,2
    C,F,--75247156(+) TTTCTC/GAGAGA 1 -- ds500111Minor allele frequency- G:0.26NA EA CSA WA 728
    rs1485160211,2
    --75247183(+) AGATCC/TTACCC 1 -- ds50010--------
    rs1811847921,2
    C,--75247592(+) CAGGCA/GAGAGC 1 -- ut310--------
    rs1428640441,2
    --75247706(+) AGGAGA/GCCTGG 1 -- ut310--------
    rs115402661,2
    C--75247755(-) CACCCC/ATTTTC 1 -- ut311Minor allele frequency- A:0.00NA 2
    rs1401288981,2
    --75247857(+) GGCCCC/GCACAT 1 -- ut310--------

    HapMap Linkage Disequilibrium report for RPP25 (75246757 - 75249805 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for RPP25
         1 Inversion: 37170

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    RPP25 for disorders           About GeneDecksing

    3 diseases for RPP25:    About MalaCards
    cartilage-hair hypoplasia    autism spectrum disorder    malaria

    1 disease from the University of Copenhagen DISEASES database for RPP25:
    cartilage-hair hypoplasia

    Export disorders for RPP25 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for RPP25 gene, integrated from 9 sources (see all 16):
    (articles sorted by number of sources associating them with RPP25)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Purification and characterization of Rpp25, an RNA-binding protein subunit of human ribonuclease P. (PubMed id 12003489)1, 2, 3, 9 Guerrier-Takada C.... Altman S. (2002)
    2. Mutual interactions between subunits of the human RNase MRP ribonucleoprotein complex. (PubMed id 15096576)1, 2 Welting T.J.... Pruijn G.J. (2004)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    5. A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
    6. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    7. Genome-wide YFP fluorescence complementation screen id entifies new regulators for telomere signaling in human cells. (PubMed id 21044950)1 Lee O.H....Songyang Z. (2011)
    8. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    9. RPP25 is developmentally regulated in prefrontal cort ex and expressed at decreased levels in autism spectrum disorder. (PubMed id 20632321)1 Huang H.S....Akbarian S. (2010)
    10. Heterodimerization of the human RNase P/MRP subunits Rpp20 and Rpp25 is a prerequisite for interaction with the P3 arm of RNase MRP RNA. (PubMed id 20215441)1 Hands-Taylor K.L....Conte M.R. (2010)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 54913 HGNC: 30361 AceView: RPP25 Ensembl:ENSG00000178718 euGenes: HUgn54913
    ECgene: RPP25 Kegg: 54913 H-InvDB: RPP25

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for RPP25 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    Patent Information for RPP25 gene:
    Search GeneIP for patents involving RPP25

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