Atlas of Genetics and Cytogenetics in Oncology and Haematology


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RPS13 (ribosomal protein S13)

Identity

Alias_symbol (synonym)S13
Other alias
HGNC (Hugo) RPS13
LocusID (NCBI) 6207
Atlas_Id 43734
Location 11p15.1  [Link to chromosome band 11p15]
Location_base_pair Starts at 17074392 and ends at 17077673 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ATXN7L3B (12q21.1) / RPS13 (11p15.1)RPS13 (11p15.1) / HDGF (1q23.1)RPS13 (11p15.1) / RPS13 (11p15.1)
SNRPD1 (18q11.2) / RPS13 (11p15.1)

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)RPS13   10386
Cards
Entrez_Gene (NCBI)RPS13  6207  ribosomal protein S13
AliasesS13
GeneCards (Weizmann)RPS13
Ensembl hg19 (Hinxton)ENSG00000110700 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000110700 [Gene_View]  chr11:17074392-17077673 [Contig_View]  RPS13 [Vega]
ICGC DataPortalENSG00000110700
TCGA cBioPortalRPS13
AceView (NCBI)RPS13
Genatlas (Paris)RPS13
WikiGenes6207
SOURCE (Princeton)RPS13
Genetics Home Reference (NIH)RPS13
Genomic and cartography
GoldenPath hg38 (UCSC)RPS13  -     chr11:17074392-17077673 -  11p15.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RPS13  -     11p15.1   [Description]    (hg19-Feb_2009)
EnsemblRPS13 - 11p15.1 [CytoView hg19]  RPS13 - 11p15.1 [CytoView hg38]
Mapping of homologs : NCBIRPS13 [Mapview hg19]  RPS13 [Mapview hg38]
OMIM180476   
Gene and transcription
Genbank (Entrez)AK312060 BC000475 BC006772 BC029732 BC066322
RefSeq transcript (Entrez)NM_001017
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RPS13
Cluster EST : UnigeneHs.446588 [ NCBI ]
CGAP (NCI)Hs.446588
Alternative Splicing GalleryENSG00000110700
Gene ExpressionRPS13 [ NCBI-GEO ]   RPS13 [ EBI - ARRAY_EXPRESS ]   RPS13 [ SEEK ]   RPS13 [ MEM ]
Gene Expression Viewer (FireBrowse)RPS13 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6207
GTEX Portal (Tissue expression)RPS13
Protein : pattern, domain, 3D structure
UniProt/SwissProtP62277   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP62277  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP62277
Splice isoforms : SwissVarP62277
PhosPhoSitePlusP62277
Domaine pattern : Prosite (Expaxy)RIBOSOMAL_S15 (PS00362)   
Domains : Interpro (EBI)Ribosomal_S13/S15_N    Ribosomal_S15    Ribosomal_S15P    S15_NS1_RNA-bd   
Domain families : Pfam (Sanger)Ribosomal_S13_N (PF08069)    Ribosomal_S15 (PF00312)   
Domain families : Pfam (NCBI)pfam08069    pfam00312   
Domain families : Smart (EMBL)Ribosomal_S13_N (SM01386)  Ribosomal_S15 (SM01387)  
Conserved Domain (NCBI)RPS13
DMDM Disease mutations6207
Blocks (Seattle)RPS13
PDB (SRS)4UG0    4V6X    5A2Q    5AJ0    5FLX    5T2C   
PDB (PDBSum)4UG0    4V6X    5A2Q    5AJ0    5FLX    5T2C   
PDB (IMB)4UG0    4V6X    5A2Q    5AJ0    5FLX    5T2C   
PDB (RSDB)4UG0    4V6X    5A2Q    5AJ0    5FLX    5T2C   
Structural Biology KnowledgeBase4UG0    4V6X    5A2Q    5AJ0    5FLX    5T2C   
SCOP (Structural Classification of Proteins)4UG0    4V6X    5A2Q    5AJ0    5FLX    5T2C   
CATH (Classification of proteins structures)4UG0    4V6X    5A2Q    5AJ0    5FLX    5T2C   
SuperfamilyP62277
Human Protein AtlasENSG00000110700
Peptide AtlasP62277
HPRD01604
IPIIPI00221089   IPI00980940   IPI00977844   
Protein Interaction databases
DIP (DOE-UCLA)P62277
IntAct (EBI)P62277
FunCoupENSG00000110700
BioGRIDRPS13
STRING (EMBL)RPS13
ZODIACRPS13
Ontologies - Pathways
QuickGOP62277
Ontology : AmiGOnuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  mRNA binding  structural constituent of ribosome  protein binding  nucleus  nucleoplasm  nucleolus  cytosol  ribosome  focal adhesion  rRNA processing  translation  translation  translational initiation  SRP-dependent cotranslational protein targeting to membrane  membrane  viral transcription  cytosolic small ribosomal subunit  extracellular matrix  negative regulation of RNA splicing  mRNA 5'-UTR binding  extracellular exosome  small ribosomal subunit rRNA binding  5.8S rRNA binding  
Ontology : EGO-EBInuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  mRNA binding  structural constituent of ribosome  protein binding  nucleus  nucleoplasm  nucleolus  cytosol  ribosome  focal adhesion  rRNA processing  translation  translation  translational initiation  SRP-dependent cotranslational protein targeting to membrane  membrane  viral transcription  cytosolic small ribosomal subunit  extracellular matrix  negative regulation of RNA splicing  mRNA 5'-UTR binding  extracellular exosome  small ribosomal subunit rRNA binding  5.8S rRNA binding  
Pathways : KEGGRibosome   
NDEx NetworkRPS13
Atlas of Cancer Signalling NetworkRPS13
Wikipedia pathwaysRPS13
Orthology - Evolution
OrthoDB6207
GeneTree (enSembl)ENSG00000110700
Phylogenetic Trees/Animal Genes : TreeFamRPS13
HOVERGENP62277
HOGENOMP62277
Homologs : HomoloGeneRPS13
Homology/Alignments : Family Browser (UCSC)RPS13
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRPS13 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RPS13
dbVarRPS13
ClinVarRPS13
1000_GenomesRPS13 
Exome Variant ServerRPS13
ExAC (Exome Aggregation Consortium)RPS13 (select the gene name)
Genetic variants : HAPMAP6207
Genomic Variants (DGV)RPS13 [DGVbeta]
DECIPHERRPS13 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRPS13 
Mutations
ICGC Data PortalRPS13 
TCGA Data PortalRPS13 
Broad Tumor PortalRPS13
OASIS PortalRPS13 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRPS13  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRPS13
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch RPS13
DgiDB (Drug Gene Interaction Database)RPS13
DoCM (Curated mutations)RPS13 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RPS13 (select a term)
intoGenRPS13
Cancer3DRPS13(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM180476   
Orphanet
MedgenRPS13
Genetic Testing Registry RPS13
NextProtP62277 [Medical]
TSGene6207
GENETestsRPS13
Target ValidationRPS13
Huge Navigator RPS13 [HugePedia]
snp3D : Map Gene to Disease6207
BioCentury BCIQRPS13
ClinGenRPS13
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6207
Chemical/Pharm GKB GenePA34785
Clinical trialRPS13
Miscellaneous
canSAR (ICR)RPS13 (select the gene name)
Probes
Litterature
PubMed74 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRPS13
EVEXRPS13
GoPubMedRPS13
iHOPRPS13
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Aug 1 17:13:25 CEST 2017

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