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RPL39 (ribosomal protein L39)

Identity

Alias_namesRPL39P42
ribosomal protein L39 pseudogene 42
Alias_symbol (synonym)L39
Other aliasRPL39_23_1806
HGNC (Hugo) RPL39
LocusID (NCBI) 6170
Atlas_Id 54879
Location Xq24  [Link to chromosome band Xq24]
Location_base_pair Starts at 119786504 and ends at 119791659 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ELF3 (1q32.1) / RPL39 (Xq24)FKTN (9q31.2) / RPL39 (Xq24)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)RPL39   10350
Cards
Entrez_Gene (NCBI)RPL39  6170  ribosomal protein L39
AliasesL39; RPL39P42; RPL39_23_1806
GeneCards (Weizmann)RPL39
Ensembl hg19 (Hinxton)ENSG00000198918 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000198918 [Gene_View]  chrX:119786504-119791659 [Contig_View]  RPL39 [Vega]
ICGC DataPortalENSG00000198918
TCGA cBioPortalRPL39
AceView (NCBI)RPL39
Genatlas (Paris)RPL39
WikiGenes6170
SOURCE (Princeton)RPL39
Genetics Home Reference (NIH)RPL39
Genomic and cartography
GoldenPath hg38 (UCSC)RPL39  -     chrX:119786504-119791659 -  Xq24   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RPL39  -     Xq24   [Description]    (hg19-Feb_2009)
EnsemblRPL39 - Xq24 [CytoView hg19]  RPL39 - Xq24 [CytoView hg38]
Mapping of homologs : NCBIRPL39 [Mapview hg19]  RPL39 [Mapview hg38]
OMIM300899   
Gene and transcription
Genbank (Entrez)AK098280 BC001019 BC070205 BX476041 D28397
RefSeq transcript (Entrez)NM_001000
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RPL39
Cluster EST : UnigeneHs.558387 [ NCBI ]
CGAP (NCI)Hs.558387
Alternative Splicing GalleryENSG00000198918
Gene ExpressionRPL39 [ NCBI-GEO ]   RPL39 [ EBI - ARRAY_EXPRESS ]   RPL39 [ SEEK ]   RPL39 [ MEM ]
Gene Expression Viewer (FireBrowse)RPL39 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6170
GTEX Portal (Tissue expression)RPL39
Protein : pattern, domain, 3D structure
UniProt/SwissProtP62891   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP62891  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP62891
Splice isoforms : SwissVarP62891
PhosPhoSitePlusP62891
Domaine pattern : Prosite (Expaxy)RIBOSOMAL_L39E (PS00051)   
Domains : Interpro (EBI)Ribosomal_L39    Ribosomal_L39_CS    Ribosomal_L39e_dom   
Domain families : Pfam (Sanger)Ribosomal_L39 (PF00832)   
Domain families : Pfam (NCBI)pfam00832   
Conserved Domain (NCBI)RPL39
DMDM Disease mutations6170
Blocks (Seattle)RPL39
PDB (SRS)4UG0    4V6X    5AJ0    5T2C   
PDB (PDBSum)4UG0    4V6X    5AJ0    5T2C   
PDB (IMB)4UG0    4V6X    5AJ0    5T2C   
PDB (RSDB)4UG0    4V6X    5AJ0    5T2C   
Structural Biology KnowledgeBase4UG0    4V6X    5AJ0    5T2C   
SCOP (Structural Classification of Proteins)4UG0    4V6X    5AJ0    5T2C   
CATH (Classification of proteins structures)4UG0    4V6X    5AJ0    5T2C   
SuperfamilyP62891
Human Protein AtlasENSG00000198918
Peptide AtlasP62891
HPRD03546
IPIIPI00219162   
Protein Interaction databases
DIP (DOE-UCLA)P62891
IntAct (EBI)P62891
FunCoupENSG00000198918
BioGRIDRPL39
STRING (EMBL)RPL39
ZODIACRPL39
Ontologies - Pathways
QuickGOP62891
Ontology : AmiGOnuclear-transcribed mRNA catabolic process, nonsense-mediated decay  innate immune response in mucosa  RNA binding  structural constituent of ribosome  structural constituent of ribosome  extracellular space  cytosol  rRNA processing  translation  translation  translational initiation  SRP-dependent cotranslational protein targeting to membrane  viral transcription  antibacterial humoral response  cytosolic large ribosomal subunit  cytosolic large ribosomal subunit  defense response to Gram-positive bacterium  
Ontology : EGO-EBInuclear-transcribed mRNA catabolic process, nonsense-mediated decay  innate immune response in mucosa  RNA binding  structural constituent of ribosome  structural constituent of ribosome  extracellular space  cytosol  rRNA processing  translation  translation  translational initiation  SRP-dependent cotranslational protein targeting to membrane  viral transcription  antibacterial humoral response  cytosolic large ribosomal subunit  cytosolic large ribosomal subunit  defense response to Gram-positive bacterium  
Pathways : KEGGRibosome   
NDEx NetworkRPL39
Atlas of Cancer Signalling NetworkRPL39
Wikipedia pathwaysRPL39
Orthology - Evolution
OrthoDB6170
GeneTree (enSembl)ENSG00000198918
Phylogenetic Trees/Animal Genes : TreeFamRPL39
HOVERGENP62891
HOGENOMP62891
Homologs : HomoloGeneRPL39
Homology/Alignments : Family Browser (UCSC)RPL39
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRPL39 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RPL39
dbVarRPL39
ClinVarRPL39
1000_GenomesRPL39 
Exome Variant ServerRPL39
ExAC (Exome Aggregation Consortium)RPL39 (select the gene name)
Genetic variants : HAPMAP6170
Genomic Variants (DGV)RPL39 [DGVbeta]
DECIPHERRPL39 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRPL39 
Mutations
ICGC Data PortalRPL39 
TCGA Data PortalRPL39 
Broad Tumor PortalRPL39
OASIS PortalRPL39 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRPL39  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRPL39
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)X-chromosome gene database
BioMutasearch RPL39
DgiDB (Drug Gene Interaction Database)RPL39
DoCM (Curated mutations)RPL39 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RPL39 (select a term)
intoGenRPL39
Cancer3DRPL39(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM300899   
Orphanet
MedgenRPL39
Genetic Testing Registry RPL39
NextProtP62891 [Medical]
TSGene6170
GENETestsRPL39
Target ValidationRPL39
Huge Navigator RPL39 [HugePedia]
snp3D : Map Gene to Disease6170
BioCentury BCIQRPL39
ClinGenRPL39
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6170
Chemical/Pharm GKB GenePA34743
Clinical trialRPL39
Miscellaneous
canSAR (ICR)RPL39 (select the gene name)
Probes
Litterature
PubMed19 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRPL39
EVEXRPL39
GoPubMedRPL39
iHOPRPL39
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:53:49 CEST 2017

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