RPL39 Gene
protein-coding GIFtS : 53
GCID: GC0X M118920
ribosomal protein L39
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Aliasesfor RPL39 gene
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc ,
7 Ensembl ,
8 DME ,
9 miRBase ,
and/or 10 fRNAdb )About This Section Aliases Ribosomal Protein L39 1 2 L391 2 60S Ribosomal Protein L392
Export aliases for RPL39 gene to outside databases Previous GC identifers: GC0XM113738 GC0XM115906 GC0XM116895 GC0XM117674 GC0XM118702 GC0XM118804 GC0XM108414
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Summariesfor RPL39 gene (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 RPL39 : 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 S39E family of ribosomal proteins. It is located in the cytoplasm. In rat, the protein is the smallest, and one of the most basic, proteins of the ribosome. This gene is co-transcribed with the U69 small nucleolar RNA gene, which is located in its second intron. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. (provided by RefSeq, Jul 2008) Gene Wiki entry for RPL39
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Genomic Viewsfor RPL39 gene
(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_000023.10 NC_018934.1 NT_011786.16 Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the RPL39 gene promoter: RP58 NCX/Ncx CUTL1 GATA-1 GATA-2 Ik-2 FOXJ2 (long isoform) FOXJ2 Ik-1 En-1 Other transcription factors Search SABiosciences Chromatin IP Primers for RPL39 Epigenetics: QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human , mouse , rat RPL39
Genomic Location: Genomic View : UCSC Golden Path with GeneCards custom track Entrez Gene cytogenetic band: Xq24 Ensembl cytogenetic band: Xq24 HGNC cytogenetic band: Xq24 RPL39 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc information about chromosome X GeneLoc Exon Structure
GeneLoc location for GC0XM118920: view genomic region
(about GC identifiers )
Start:
118,920,467 bp from pter
End:
118,925,606 bp from pter
Size:
5,140 bases
Orientation:
minus strand
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Proteinsfor RPL39 gene
(According to
1 UniProtKB ,
HORDE ,
neXtProt ,
Ensembl ,
and/or Reactome ,
Modification sites according to 2 PhosphoSitePlus ,
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: RL39_HUMAN, P62891 (See
protein sequence )Recommended Name: 60S ribosomal protein L39 Size : 51 amino acids; 6407 Da
Miscellaneous : This protein is the smallest and one of the most basic of the proteins in liver ribosomes (Bysimilarity)
Secondary accessions : P02404 P39025 Q9BYF2Explore the universe of human proteins at neXtProt for RPL39: NX_P62891 Post-translational modifications:
View modification sites using PhosphoSitePlus 2 View neXtProt modification sites for NX_P62891 RPL39 Protein expression data from MOPED and PaxDb : About this image
REFSEQ proteins: NP_000991.1 ENSEMBL proteins: ENSP00000355315 Reactome Protein details: P62891 Human Recombinant Protein Products: Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view) : About this table
RPL39 for ontologies About GeneDecksing RPL39 Antibody Products: Assay Products for RPL39:
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Protein
Domains / Familiesfor RPL39 gene (According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
About This Section
RPL39 for domains About GeneDecksing 3 InterPro domains/families :
Graphical View of Domain Structure for InterPro Entry P62891 ProtoNet protein and cluster: P62891
UniProtKB/Swiss-Prot: RL39_HUMAN, P62891 Similarity : Belongs to the ribosomal protein L39e family
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Functionfor RPL39 gene
(According to 1 UniProtKB ,
Genatlas ,
LifeMap Discovery™ ,
IUBMB , and/or
2 DME ,
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 Clone Products: Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human , mouse , rat for RPL39 (see all 3 ) OriGene untagged cDNA clones in CMV expression vector in human , mouse , rat for RPL39OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling GenScript: all cDNA clones in your preferred vector: RPL39 (NM_001000 ) Browse Sino Biological Human cDNA Clones DNA2.0 Custom Codon Optimized Gene
Synthesis Service for RPL39 Vector BioLabs ready-to-use adenovirus/AAV for human , mouse , rat RPL39
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view) : About this table
RPL39 for ontologies About GeneDecksing 2 GenomeRNAi human phenotypes for RPL39 :
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Pathways & Interactionsfor RPL39 gene
(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 1 UniProtKB ,
2 MINT ,
3 I2D , and/or
4 STRING ,
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-pathway contained gene-specific pathways 1 Synthesis of PB1-F2 2 Metabolism of mRNA 3 Disease 4 Generic Transcription Pathway 5 Asparagine N-linked glycosylation
Pathway sources See GeneCards unified pathways Show all pathways 1 GeneGo (Thomson Reuters) Pathway for RPL39 1 BioSystems Pathway for RPL39 5/28
Reactome Pathways for RPL39 (see all 28 )1
Kegg Pathway (Kegg details for RPL39) :
RPL39 for pathways About GeneDecksing Interactions: Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RPL39 STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)5/51 Interacting proteins for RPL39 (ENSP00000355315 4 ) via UniProtKB, MINT, STRING , and/or I2D (see all 51 )About this table Gene Ontology (GO): 5/13 biological process terms (GO ID links to tree view) (see all 13 ): About this table
GO ID Qualified GO term Evidence PubMed IDs GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
TAS -- GO:0006412 translation
TAS -- GO:0006413 translational initiation
TAS -- GO:0006414 translational elongation
TAS -- GO:0006415 translational termination
TAS --
RPL39 for ontologies About GeneDecksing
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Drugs & Compoundsfor RPL39 gene (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 Tocris compounds for RPL39 Search CenterWatch for drugs/clinical trials and news about RPL39 / RL39
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Transcriptsfor RPL39 gene (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 RPL39 gene: NM_001000.2 Unigene Clusters for RPL39:
Ribosomal protein L39 Hs.300141 [show with all ESTs ] , Hs.558387 [show with all ESTs ] Unigene Representative Sequences: CD556052 , BU566074 3 Ensembl transcripts including schematic representations, and UCSC links where relevant : ENST00000477403 ENST00000468844 ENST00000361575 (uc004erx.1 ) Clone Products: OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human , mouse , rat for RPL39 (see all 3 ) OriGene untagged cDNA clones in CMV expression vector in human , mouse , rat for RPL39OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling GenScript: all cDNA clones in your preferred vector: RPL39 (NM_001000 ) DNA2.0 Custom Codon Optimized Gene
Synthesis Service for RPL39 Vector BioLabs ready-to-use adenovirus/AAV for human , mouse , rat RPL39
Additional cDNA sequence: BC070205.1
24/35 DOTS entries (see all 35 ): DT.95137965 DT.100741480
DT.92038448 DT.95120025 DT.100859048 DT.97800524 DT.91914786 DT.100741485 DT.100741503 DT.120990764 DT.121304871 DT.91942842 DT.95331017 DT.98131909 DT.100638469 DT.100741512 DT.121355960 DT.91769537 DT.100741475 DT.100741499 DT.100741505 DT.102822622 DT.121304859 DT.121304893 24/1120 AceView cDNA sequences (see all 1120 ):
BE220782 BE910355 F27699 BM705322 BM741688 BM836269 BU543568 AI805128 AJ573240 F24404 CB108196 F30375 BU186971 BI859684 T49725 BE122893 N29613 NM_001000 AW020426 F28164 C14339 BM768382 D55370 AA507131 GeneLoc Exon Structure
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Expression for RPL39 gene
(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 RPL39 expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this image BioGPS CGAP TAG: TTACCATATC
About this image RPL39 expression in embryonic tissues and stem cells Expression by the Database of Embryonic development, Stem cell research, and
Regenerative medicine About this table Stem Cell Differentiation: 1 LifeMap Cell Name Category Endoderm-like cells (Generation of hepato... )Expression: Positive Negative
Selective markerExperimental details:
Curated
Microarrays
In-situ hybridization
See RPL39 Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for RPL39 SOURCE GeneReport for Unigene clusters: Hs.300141 Hs.558387 SABiosciences Custom PCR Arrays for RPL39 Primer Products: Browse OriGene genome-wide validated SYBR primer pairs Browse OriGene validated miRNA SYBR primer pairs SABiosciences RT2 qPCR Primer Assay in human , mouse , rat RPL39 QIAGEN QuantiTect SYBR Green Assays in human , mouse , rat RPL39 QIAGEN QuantiFast Probe-based Assays in human , mouse , rat RPL39
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Orthologsfor RPL39 gene
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
,
5 MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase ,
and/or
6 Ensembl 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 RPL39 gene from 8/28 species (see all 28 ) About this table
ENSEMBL Gene Tree for RPL39 (if available)TreeFam Gene Tree for RPL39 (if available)
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Paralogsfor RPL39 gene (Paralogs according to
1 HomoloGene , 2 Ensembl , and 3 SIMAP , Pseudogenes according to 4 Pseudogene.org Build 68)About This Section Paralogs for RPL39 gene RPL39L 2 2 SIMAP similar genes for RPL39 using alignment to 1 protein entry: RL39_HUMAN :RPL39P5 RPL39L
RPL39 for paralogs About GeneDecksing 5/44 Pseudogenes.org Pseudogenes for RPL39 (see all 44 )PGOHUM00000238541 PGOHUM00000261108 PGOHUM00000239510 PGOHUM00000248489 PGOHUM00000247747
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Genomic Variantsfor RPL39 gene (SNPs/Variants according to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE ,
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
Genomic Data Transcription Related Data Allele Frequencies SNP ID Valid Clinical significance Chr X pos Sequence # AA Chg Type More # Allele freq Pop Total sample More
HapMap Linkage Disequilibrium report for RPL39 (118920467 - 118925606 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV) variations for RPL39: -- Locus Specific Mutation Databases (LSDB): RPL39
SABiosciences Cancer Mutation PCR Assays
QIAGEN SeqTarget long-range PCR primers in human , mouse , rat for resequencing RPL39
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Disorders
/ Diseasesfor RPL39 gene
(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
RPL39 for disorders About GeneDecksing
OMIM gene information: 601904
OMIM disorders : --4 diseases for RPL39 : About MalaCards pure red-cell aplasia diamond-blackfan anemia anemia malaria 1 disease from the University of Copenhagen DISEASES database for RPL39 :Diamond-Blackfan anemia Export disorders for RPL39 gene to outside databases
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Publicationsfor RPL39 gene (in
PubMed .
Associations of this gene to articles via
1 Entrez Gene ,
2 UniProtKB/Swiss-Prot ,
3 HGNC ,
4 GAD ,
5 PharmGKB ,
6 HMDB ,
7 DrugBank ,
8 UniProtKB/TrEMBL ,
9 Novoseek , and/or
10 fRNAdb )
About This Section PubMed articles for RPL39 gene, integrated from 9 sources (see all 15 ): (articles sorted by number of sources associating them with RPL39) Utopia : connect your pdf to the dynamic world of online information
Molecular cloning of a cDNA encoding human ribosomal protein L39. (PubMed id 8764829) 1 , 2 , 3, 9 Otsuka S.... Itakura M. (1996) Primary structures and sequence analysis of human ribosomal proteins L39 and S27. (PubMed id 8908372) 1 , 2 , 9 Tsui S.K.W.... Lee C.Y. (1996) 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) The human ribosomal protein genes: sequencing and comparative analysis of 73 genes. (PubMed id 11875025) 1 , 2 Yoshihama M.... Kenmochi N. (2002) A complete map of the human ribosomal protein genes: assignment of 80 genes to the cytogenetic map and implications for human disorders. (PubMed id 11401437) 1 , 2 Uechi T.... Kenmochi N. (2001) A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883) 1 Kristensen A.R....Foster L.J. (2012) The molecular mechanics of eukaryotic translation. (PubMed id 15189156) 1 Kapp L.D. and Lorsch J.R. (2004) Regulated release of L13a from the 60S ribosomal subunit as a mechanism of transcript-specific translational control. (PubMed id 14567916) 1 Mazumder B....Fox P.L. (2003) Characterization and analysis of posttranslational modifications of the human large cytoplasmic ribosomal subunit proteins by mass spectrometry and Edman sequencing. (PubMed id 12962325) 1 Odintsova T.I....Karpova G.G. (2003) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932) 1 Strausberg R.L....Marra M.A. (2002)
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External Searches for RPL39 gene
(in PubMed ,
OMIM , and NCBI Bookshelf ) About This Section
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Genome Databases showing RPL39 gene
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
Kegg ,
and/or
H-InvDB )
About This Section
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Other Databases showing RPL39 gene
(According to HUGE )
About This Section --
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Specialized Databases showing RPL39 gene (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
Name Description
PharmGKB entry for RPL39 Pharmacogenomics, SNPs, Pathways
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About This Section Patent Information for RPL39 gene: Search GeneIP for patents involving RPL39 GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Productsfor RPL39 gene (Antibodies, recombinant proteins, and assays from EMD Millipore , R&D Systems , OriGene , QIAGEN , GenScript , Cell Signaling Technology , SABiosciences , Novus Biologicals , Sino Biological , Enzo Life Sciences , Abcam , ProSpec , Uscn , Thermo Fisher Scientific , Gene Editing from DNA2.0 , Clones from EMD Millipore , OriGene , GenScript , Sino Biological , DNA2.0 , SwitchGear Genomics , Vector BioLabs , Cell lines from GenScript and LifeMap BioReagents , PCR Arrays from SABiosciences , Drugs and/or compounds from EMD Millipore , Tocris Bioscience , and/or
Enzo Life Sciences ), In Situ Hybridization Assays from Advanced Cell Diagnostics About This Section
Browse OriGene Antibodies OriGene shRNA RFP for RPL39 OriGene 29mer shRNA kits in GFP-retroviral vector in human , mouse , rat for RPL39 Browse OriGene genome-wide validated SYBR primer pairs Browse OriGene Protein Over-expression Lysates Browse OriGene Fluorogenic Cell Assay Kits OriGene siRNA for RPL39 OriGene 3'-UTR Clone for RPL39 OriGene untagged cDNA clones in CMV expression vector in human , mouse , rat for RPL39 OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human , mouse , rat for RPL39 Browse OriGene GFP tagged cDNA clones in CMV expression vector Browse OriGene MicroRNA Expression Plasmids Browse OriGene basic RS shRNAs Browse OriGene validated miRNA SYBR primer pairs Browse OriGene full length recombinant human proteins expressed in human HEK293 cells OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling OriGene Custom Antibody Services for RPL39 OriGene Custom Protein Services for RPL39 OriGene Custom Immunoassay Development
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat RPL39 QIAGEN SeqTarget long-range PCR primers in human , mouse , rat for resequencing RPL39 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human , mouse , rat RPL39 QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human , mouse , rat RPL39 QIAGEN QuantiFast Probe-based Assays in human , mouse , rat RPL39 QIAGEN QuantiTect SYBR Green Assays in human , mouse , rat RPL39
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RPL39 Proteins, Antibodies, CLIAs, and ELISAs
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Vector BioLabs ready-to-use adenovirus/AAV for human , mouse , rat RPL39
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Aliases for RPL39
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