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

RPL9 Gene

protein-coding   GIFtS: 55
GCID: GC04M039457

ribosomal protein L9

 Explore 4 diseases affiliated with
RPL9 via our new
 Human Malady Compendium 
Biological research products
for RPL9
    

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

Aliases
Ribosomal Protein L91 2
L91 2
60S Ribosomal Protein L92
NPC-A-162

External Ids:    HGNC: 103691   Entrez Gene: 61332   Ensembl: ENSG000001636827   OMIM: 6036865   UniProtKB: P329693   

Export aliases for RPL9 gene to outside databases

Previous GC identifers: GC04M039630 GC04M039290 GC04M039352 GC04M039278 GC04M039131 GC04M038780


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

Entrez Gene summary for RPL9:
Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit.
Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene
encodes a ribosomal protein that is a component of the 60S subunit. The protein belongs to the L6P family of ribosomal
proteins. It is located in the cytoplasm. As is typical for genes encoding ribosomal proteins, there are multiple
processed pseudogenes of this gene dispersed through the genome. Two alternatively spliced transcript variants
encoding the same protein have been found for this gene. (provided by RefSeq, Jul 2008)

Gene Wiki entry for RPL9


(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_000004.11  NC_018915.1  NT_016297.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the RPL9 gene promoter:
         ER-alpha   PPAR-gamma1   AML1a   PPAR-gamma2   Nkx2-5   Gfi-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRPL9 promoter sequence
   Search SABiosciences Chromatin IP Primers for RPL9

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RPL9


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

Entrez Gene cytogenetic band: 4p13   Ensembl cytogenetic band:  4p14   HGNC cytogenetic band: 4p13

RPL9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RPL9 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M039457:  view genomic region     (about GC identifiers)

Start:
39,455,744 bp from pter      End:
39,460,568 bp from pter
Size:
4,825 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: RL9_HUMAN, P32969 (See protein sequence)
Recommended Name: 60S ribosomal protein L9  
Size: 192 amino acids; 21863 Da
1 PDB 3D structure from and Proteopedia for RPL9:
2CQL (3D)    

Explore the universe of human proteins at neXtProt for RPL9: NX_P32969

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P32969

  • RPL9 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_000652.2  NP_001020092.1  

    ENSEMBL proteins: 
     ENSP00000346022   ENSP00000400467   ENSP00000425250   ENSP00000424796   ENSP00000421872  
     ENSP00000422191  
    Reactome Protein details: P32969
    Human Recombinant Protein Products: 
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    Novus Biologicals RPL9 Proteins
    Novus Biologicals RPL9 Lysates
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for RPL9

    Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005730nucleolus IDA--
    GO:0005737cytoplasm IDA--
    GO:0005829cytosol TAS--
    GO:0005840ribosome TAS8597601
    GO:0022625cytosolic large ribosomal subunit IDA12962325


    RPL9 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

    RPL9 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR000702 Ribosomal_L6
     IPR002359 Ribosomal_L6_CS2
     IPR020040 Ribosomal_L6_a/b-dom

    Graphical View of Domain Structure for InterPro Entry P32969

    ProtoNet protein and cluster: P32969

    1 Blocks protein family: IPB002359 Ribosomal protein L6

    UniProtKB/Swiss-Prot: RL9_HUMAN, P32969
    Similarity: Belongs to the ribosomal protein L6P 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:
         Genatlas biochemistry entry for RPL9:
    ribosomal protein L9

    miRNA
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    hsa-miR-551b*
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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 TAS8597601
    GO:0003735structural constituent of ribosome NAS12962325
    GO:0019843rRNA binding IEA--


    RPL9 for ontologies           About GeneDecksing


    3 GenomeRNAi human phenotypes for RPL9:
     Decreased viability of wild-ty  Nuclear 60S biogenesis defects  Nucleolar pre-40S maturation d 


    (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
    1Synthesis of PB1-F2
    Ribosome0.87
    CFTR translational fidelity (class I mutations)0.83
    Cytoplasmic Ribosomal Proteins0.86

    Pathway sources
    See GeneCards unified pathways
    Show all pathways


    1 GeneGo (Thomson Reuters) Pathway for RPL9
        CFTR translational fidelity (class I mutations)

    1 BioSystems Pathway for RPL9 
        Cytoplasmic Ribosomal Proteins

    5/28        Reactome Pathways for RPL9 (see all 28)
        Nonsense Mediated Decay Independent of the Exon Junction Complex
    Nonsense-Mediated Decay
    Translation
    SRP-dependent cotranslational protein targeting to membrane
    Eukaryotic Translation Initiation


    1         Kegg Pathway  (Kegg details for RPL9):
        Ribosome


    RPL9 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RPL9

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/331 Interacting proteins for RPL9 (P329692, 3 ENSP000003460224) via UniProtKB, MINT, STRING, and/or I2D (see all 331)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    RPS3P233962, 3, ENSP000002785724MINT-6542674 I2D: score=4 STRING: ENSP00000278572
    SORBS2O948752, 3, ENSP000002847764MINT-63671 I2D: score=4 STRING: ENSP00000284776
    MOCS2O960332, 3MINT-63672 I2D: score=1 I2D: score=3 
    RPL5P467772, 3, ENSP000003593454MINT-6542674 I2D: score=1 STRING: ENSP00000359345
    RPL8P629172, 3, ENSP000002625844MINT-6542674 I2D: score=1 STRING: ENSP00000262584
    About this table

    Gene Ontology (GO): 5/13 biological process terms (GO ID links to tree view) (see all 13):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000184nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS--
    GO:0006412translation TAS--
    GO:0006413translational initiation TAS--
    GO:0006414translational elongation TAS--
    GO:0006415translational termination TAS--


    RPL9 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

    RPL9 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for RPL9
    3 Novoseek chemical compound relationships for RPL9 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    urea 48.2 2 15890362 (1), 18707127 (1)
    guanidine hydrochloride 38.7 2 10769155 (1)
    amide 25.1 1 16834323 (1)

    Search CenterWatch for drugs/clinical trials and news about RPL9 / RL9 

    (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 RPL9 gene (2 alternative transcripts): 
    NM_000661.4  NM_001024921.2  

    Unigene Clusters for RPL9:

    Ribosomal protein L9
    Hs.412370  [show with all ESTs], Hs.513083  [show with all ESTs], Hs.730597  [show with all ESTs]
    Unigene Representative Sequences: BM455207, BQ057285, CD388526
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000295955(uc003guc.3 uc011byk.2) ENST00000503277 ENST00000449470(uc003gub.3)
    ENST00000508595 ENST00000511643 ENST00000506581 ENST00000514842 ENST00000503040
    ENST00000504470 ENST00000511075(uc011byl.1) ENST00000437992(uc003gud.1)


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    hsa-miR-551b*
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    Inhib. RNA
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    Additional cDNA sequence: 

    AB062431.1 AK312241.1 BC000483.2 BC004156.2 BC004206.2 BC007967.2 BC012149.1 BC031906.1 
    BC066318.1 BC070214.1 U09953.1 

    24/111 DOTS entries (see all 111):

    DT.95368454  DT.92324133  DT.100742904  DT.100865537  DT.100742876  DT.91782393  DT.75112970  DT.100742863 
    DT.102843796  DT.121021769  DT.121022052  DT.100862052  DT.91782433  DT.95368581  DT.100862674  DT.99926501 
    DT.91782369  DT.102831161  DT.121021500  DT.102826574  DT.95368649  DT.97852590  DT.91726121  DT.100742894 

    24/2298 AceView cDNA sequences (see all 2298):

    CA396699 AA732943 AL697281 BQ430076 T61911 BM353408 BU193370 CB139494 
    BM424127 BM738023 CB269107 BP341693 BM997391 C14678 BM706438 BM822288 
    BP343084 N87883 AA040445 BQ949456 BG281038 BU501118 BM912056 CB123091 

    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

    RPL9 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ATCAAGGGTG

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

    About this image
    See RPL9 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for RPL9

    SOURCE GeneReport for Unigene clusters: Hs.412370 Hs.513083 Hs.730597
        SABiosciences Custom PCR Arrays for RPL9
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    In Situ
    Assay Products:
     

     
    Search Advanced Cell Diagnostics for RNAscope RNA in situ hybridization assays for RPL9

    (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 RPL9 gene from 10/41 species (see all 41)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rpl91 , 5 ribosomal protein L91, 5 89.93(n)1
    98.96(a)1
      5 (33.66 cM)5
    200051  NM_011292.21  NP_035422.11 
     653883645 
    chicken
    (Gallus gallus)
    Aves RPL91 ribosomal protein L9 81.77(n)
    94.79(a)
      425468  XM_003641246.1  XP_003641294.1 
    lizard
    (Anolis carolinensis)
    Reptilia RPL96
    --
    95(a)
    1 ↔ 1
    5(99645724-99649686)
    African clawed frog
    (Xenopus laevis)
    Amphibia rpl9-prov2 ribosomal protein L9 82.6(n)    BC046581.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.248102 Danio rerio ribosomal protein L9 mRNA, partial cds 76.08(n)    AY141976.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta RpL91 , 3 protein biosynthesis structural constituent
    of more3
    Ribosomal protein L91
    65(a)3
    61.8(n)1
    65.95(a)1
      2 32C53
    345261  NM_057813.31  NP_477161.11 
    worm
    (Caenorhabditis elegans)
    Secernentea rpl-91 , 3 Ribosomal protein L93
    Protein RPL-91
    62(a)3
    58.38(n)1
    63.49(a)1
      III(7643793-7644645)3
    1760711  NM_066259.41  NP_498660.11 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes RPL9B(YNL067W)4
    RPL9B1
    Protein component of the large (60S) ribosomal subunit, more4
    Rpl9bp1
    57.66(n)1
    51.35(a)1
      14(499681-500256)4
    8556581, 4  NP_014332.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G104501 60S ribosomal protein L9-2 58.82(n)
    58.29(a)
      826637  NM_117113.3  NP_192783.1 
    rice
    (Oryza sativa)
    Liliopsida Os.49822 Oryza sativa (japonica cultivar-group) mRNA for ribosomal more 76.57(n)    AK062502.1 


    ENSEMBL Gene Tree for RPL9 (if available)
    TreeFam Gene Tree for RPL9 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for RPL9 gene
    3 SIMAP similar genes for RPL9 using alignment to 7 protein entries:     RL9_HUMAN (see all proteins):
    RPL9P7    RPL9P8    RPL9P9

    RPL9 for paralogs           About GeneDecksing


    5/32 Pseudogenes.org Pseudogenes for RPL9 (see all 32)
    PGOHUM00000238440 PGOHUM00000242647 PGOHUM00000242829 PGOHUM00000239907 PGOHUM00000247758


    (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
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RPL9
    DNA2.0 Custom Variant and Variant Library Synthesis for RPL9

    (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

    RPL9 for disorders           About GeneDecksing

    OMIM gene information: 603686    OMIM disorders: --

    4 diseases for RPL9:    About MalaCards
    diamond-blackfan anemia    treacher collins syndrome    anemia    malaria


    Export disorders for RPL9 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 RPL9 gene, integrated from 9 sources (see all 69):
    (articles sorted by number of sources associating them with RPL9)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Structural organization and chromosomal localization of the human ribosomal protein L9 gene. (PubMed id 8597601)1, 2, 3, 9 Mazuruk K.... Rodriguez I.R. (1996)
    2. A new human ribosomal protein sequence, homologue of rat L9. (PubMed id 8415001)1, 2, 3 Hori N....Matsubara K. (1993)
    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. A map of 75 human ribosomal protein genes. (PubMed id 9582194)1, 2 Kenmochi N.... Page D.C. (1998)
    5. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    6. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    7. Functional proteomics establishes the interaction of S IRT7 with chromatin remodeling complexes and expands its role in regulation of R NA polymerase I transcription. (PubMed id 22586326)1 Tsai Y.C....Cristea I.M. (2012)
    8. A catalogue of putative HIV-1 protease host cell subst rates. (PubMed id 22944692)1 Impens F....Gevaert K. (2012)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    10. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (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: 6133 HGNC: 10369 AceView: RPL9 Ensembl:ENSG00000163682 euGenes: HUgn6133
    ECgene: RPL9 Kegg: 6133 H-InvDB: RPL9

    (According to HUGE)
    About This Section
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for RPL9 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    IP news from LifeMap Sciences, Inc.)
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    Patent Information for RPL9 gene:
    Search GeneIP for patents involving RPL9

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