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

RPP38 Gene

protein-coding   GIFtS: 54
GCID: GC10P015140

ribonuclease P/MRP 38kDa subunit

 Explore 2 diseases affiliated with
RPP38 via our new
 Human Malady Compendium 
Biological research products
for RPP38
    

(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 38kDa Subunit1 2
RNaseP Protein P382 3
Ribonuclease P Protein Subunit P382
EC 3.1.26.53

External Ids:    HGNC: 303291   Entrez Gene: 105572   Ensembl: ENSG000001524647   OMIM: 6061165   UniProtKB: P783453   

Export aliases for RPP38 gene to outside databases

Previous GC identifers: GC10P015121 GC10P015289 GC10P015143 GC10P015179 GC10P015050


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

UniProtKB/Swiss-Prot: RPP38_HUMAN, P78345
Function: Component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their
5'-ends. RPP38 may associate transiently with RNase P RNA as a factor involved in the transport of H1 RNA to the
putative site of its assembly in the cell, the nucleolus

Gene Wiki entry for RPP38


(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_000010.10  NC_018921.1  NT_008705.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the RPP38 gene promoter:
         p53   Pax-6   ATF-2   CUTL1   NF-kappaB   Evi-1   CRE-BP1   Egr-2   NRF-2   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRPP38 promoter sequence
   Search SABiosciences Chromatin IP Primers for RPP38

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RPP38


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

Entrez Gene cytogenetic band: 10p13   Ensembl cytogenetic band:  10p13   HGNC cytogenetic band: 10p13

RPP38 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RPP38 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10P015140:  view genomic region     (about GC identifiers)

Start:
15,139,179 bp from pter      End:
15,148,129 bp from pter
Size:
8,951 bases      Orientation:
plus 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: RPP38_HUMAN, P78345 (See protein sequence)
Recommended Name: Ribonuclease P protein subunit p38  
Size: 283 amino acids; 31834 Da
Subunit: RNase P consists of a RNA moiety and at least 8 protein subunits; POP1, RPP14, RPP20/POP7, RPP25, RPP29/POP4,
RPP30, RPP38 and RPP40. RPP38 is probably a dimer
Subcellular location: Nucleus, nucleolus (Potential)
Miscellaneous: Autoantibodies against RPP38 are found in sera from scleroderma patients
Secondary accessions: B3KPY0 D3DRT8 Q53F71 Q8NHS8

Explore the universe of human proteins at neXtProt for RPP38: NX_P78345

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P78345

  • RPP38 Protein expression data from MOPED and PaxDb:    About this image 
    RPP38 Protein Expression
    REFSEQ proteins (4 alternative transcripts): 
    NP_001091059.1  NP_001252530.1  NP_006405.2  NP_892117.1  

    ENSEMBL proteins: 
     ENSP00000367445   ENSP00000367443   ENSP00000367444   ENSP00000367439   ENSP00000402635  

    Human Recombinant Protein Products for RPP38: 
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    Uscn Proteins for RPP38

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus TAS9630247
    GO:0005655nucleolar ribonuclease P complex TAS9630247

    RPP38 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

    RPP38 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR004038 Ribosomal_L7Ae/L30e/S12e/Gad45

    Graphical View of Domain Structure for InterPro Entry P78345

    ProtoNet protein and cluster: P78345

    1 Blocks protein family: IPB004038 Ribosomal protein L7Ae/L30e/S12e/Gadd45

    UniProtKB/Swiss-Prot: RPP38_HUMAN, P78345
    Similarity: Belongs to the ribosomal protein L7Ae family


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

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: RPP38_HUMAN, P78345
    Function: Component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their
    5'-ends. RPP38 may associate transiently with RNase P RNA as a factor involved in the transport of H1 RNA to the
    putative site of its assembly in the cell, the nucleolus
    Catalytic activity: Endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor

         Enzyme Number (IUBMB): EC 3.1.26.51

         Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004526ribonuclease P activity IEA--
    GO:0005515protein binding IPI17474147
         
    RPP38 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for RPP38:
     Synthetic lethal with Ras 

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for RPP38 

    miRNA
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    hsa-let-7b (MIRT001597)

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RPP38


    (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
    1RNA transport
    RNA transport1.00
    2Ribosome biogenesis in eukaryotes
    Ribosome biogenesis in eukaryotes1.00
    3Integrated Breast Cancer Pathway
    Integrated Breast Cancer Pathway1.00

    Pathway sources
    See GeneCards unified pathways
    Show all pathways


    1 BioSystems Pathway for RPP38 
        Integrated Breast Cancer Pathway


    2         Kegg Pathways  (Kegg details for RPP38):
        Ribosome biogenesis in eukaryotes
    RNA transport


    RPP38 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for RPP38

    STRING Interaction Network Preview (showing 5 interactants - click image to see 21)

    5/22 Interacting proteins for RPP38 (P783451, 3 ENSP000003674394) via UniProtKB, MINT, STRING, and/or I2D (see all 22)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    POP4O957071, 3, ENSP000002217704EBI-366493,EBI-366477 I2D: score=5 STRING: ENSP00000221770
    NCK1P163331, 3, ENSP000002889864EBI-366493,EBI-3448658 I2D: score=1 STRING: ENSP00000288986
    POP7O758173, ENSP000003043534I2D: score=3 STRING: ENSP00000304353
    RPP30P783463, ENSP000003891824I2D: score=2 STRING: ENSP00000389182
    ABL1P005193, ENSP000003614234I2D: score=1 STRING: ENSP00000361423
    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--

    RPP38 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 RPP38
    Search CenterWatch for drugs/clinical trials and news about RPP38 

    (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, Sirion Biotech, 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 RPP38 gene (4 alternative transcripts): 
    NM_001097590.2  NM_001265601.1  NM_006414.4  NM_183005.4  

    Unigene Cluster for RPP38:

    Ribonuclease P/MRP 38kDa subunit
    Hs.94986  [show with all ESTs]
    Unigene Representative Sequence: NM_183005
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000378203(uc009xjm.3 uc001inx.4) ENST00000378201 ENST00000378202
    ENST00000378197(uc001iny.4) ENST00000441850

    miRNA
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    Additional cDNA sequence: 

    AF079567.1 AK057006.1 AK223418.1 BC029494.1 CR541816.1 U77664.1 

    6 DOTS entries:

    DT.100008423  DT.309451  DT.99943905  DT.100648588  DT.121229568  DT.121229585 

    24/80 AceView cDNA sequences (see all 80):

    BF222678 AW292674 BU616848 CA414693 AI638697 AI433471 CR600741 BE671046 
    AW611895 AI434778 BU180901 AI798684 AA480681 BE773996 AW405964 BU949052 
    BX112877 AI926198 BM680914 BQ181588 BI462117 AI566040 BM975685 CD050516 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for RPP38 (see all 6)    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3 ^ 4
    SP1:                                -     -               
    SP2:                          -     -     -               
    SP3:                                      -               
    SP4:                                -     -     -         
    SP5:                                                      


    ECgene alternative splicing isoforms for RPP38

    (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

    RPP38 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TCATACAGTT
    RPP38 Expression
    About this image
    See RPP38 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for RPP38

    SOURCE GeneReport for Unigene cluster: Hs.94986
        SABiosciences Custom PCR Arrays for RPP38

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RPP38

    (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 chordates.

    Orthologs for RPP38 gene from 4/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rpp381 , 5 ribonuclease P/MRP 38 subunit (human)5
    ribonuclease P/MRP 38 subunit1
    79.62(n)1
    77.7(a)1
      2 (1.87 cM)5
    2275221  NM_001013376.21  NP_001013394.21 
     33289495 
    chicken
    (Gallus gallus)
    Aves RPP381 ribonuclease P/MRP 38kDa subunit 58.8(n)
    53.18(a)
      420530  NM_001199590.1  NP_001186519.1 
    African clawed frog
    (Xenopus laevis)
    Amphibia CA793682.12   -- 71.61(n)    CA793682.1 
    zebrafish
    (Danio rerio)
    Actinopterygii rpp381 ribonuclease P/MRP 38 subunit 48.7(n)
    48.83(a)
      436798  NM_001002525.2  NP_001002525.2 


    ENSEMBL Gene Tree for RPP38 (if available)
    TreeFam Gene Tree for RPP38 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (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

    10/197 NCBI SNPs in RPP38 are shown (see all 197    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs79091091,2
    C,A--15051543(+) ggctaC/Tgggat 1 -- us2k12Minor allele frequency- T:0.21CSA WA 120
    rs1120039971,2
    C--15051548(+) CGGGAT/ATGCCT 1 -- us2k12Minor allele frequency- A:0.06WA 120
    rs1508511321,2
    --15137302(+) ACTTTC/TGAAAT 5 -- us2k1 int10--------
    rs1382420751,2
    --15137342(+) GGAAAC/TTATAC 5 -- us2k1 int10--------
    rs70994791,2
    C,F,A,H--15137347(+) TTATAC/GTGCTA 5 -- us2k1 int118Minor allele frequency- G:0.24NS EA NA CSA WA 2224
    rs1144623471,2
    --15137510(+) GGAACA/TTGTCT 5 -- us2k1 ut311Minor allele frequency- T:0.01WA 118
    rs1495561661,2
    --15137522(+) CTAATC/TCGCAC 5 -- us2k1 ut310--------
    rs1460507111,2
    --15137596(+) TCAGTC/TGATGA 5 -- us2k1 ut310--------
    rs736024691,2
    C--15137715(+) AAAAAC/GGTATG 5 -- us2k1 ut312Minor allele frequency- G:0.06WA 120
    rs1400315491,2
    --15137742(+) TACTTC/TAGCAT 5 -- us2k1 ut310--------

    HapMap Linkage Disequilibrium report for RPP38 (15139179 - 15148129 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for RPP38: --

    SABiosciences Cancer Mutation PCR Assays
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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

    RPP38 for disorders           About GeneDecksing

    OMIM gene information: 606116    OMIM disorders: --

    2 diseases for RPP38:    About MalaCards
    scleroderma    alzheimer's disease

    Human Genome Epidemiology (HuGE) Navigator: RPP38 (1 document)

    Export disorders for RPP38 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 RPP38 gene, integrated from 9 sources (see all 29):
    (articles sorted by number of sources associating them with RPP38)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Characterization of two scleroderma autoimmune antigens that copurify with human ribonuclease P. (PubMed id 9037013)1, 2, 3, 9 Eder P.S.... Altman S. (1997)
    2. Autoantigenic properties of some protein subunits of catalytically active complexes of human ribonuclease P. (PubMed id 9630247)1, 3, 9 Jarrous N.... Altman S. (1998)
    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. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (2004)
    6. Localization in the nucleolus and coiled bodies of protein subunits of the ribonucleoprotein ribonuclease P. (PubMed id 10444065)1, 9 Jarrous N....Altman S. (1999)
    7. A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
    8. Interactome study suggests multiple cellular functions of hepatoma-derived growth factor (HDGF). (PubMed id 21907836)1 Zhao J....Yang P. (2011)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    10. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10557 HGNC: 30329 AceView: RPP38 Ensembl:ENSG00000152464 euGenes: HUgn10557
    ECgene: RPP38 Kegg: 10557 H-InvDB: RPP38

    (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 RPP38 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for RPP38 gene:
    Search GeneIP for patents involving RPP38

    GeneCards and IP:
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