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RPS4Y1 (ribosomal protein S4, Y-linked 1)

Identity

Alias_namesRPS4Y
ribosomal protein S4, Y-linked
Alias_symbol (synonym)MGC5070
MGC119100
S4
Other alias
HGNC (Hugo) RPS4Y1
LocusID (NCBI) 6192
Atlas_Id 72870
Location Yp11.2  [Link to chromosome band Yp11]
Location_base_pair Starts at 2841582 and ends at 2866956 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ALB (4q13.3) / RPS4Y1 (Yp11.31)DCLK1 (13q13.3) / RPS4Y1 (Yp11.31)PLAG1 (8q12.1) / RPS4Y1 (Yp11.31)
RPS19 (19q13.2) / RPS4Y1 (Yp11.31)RPS4Y1 (Yp11.31) / ARGLU1 (13q33.3)RPS4Y1 (Yp11.31) / RPS4Y1 (Yp11.31)
SRCAP (16p11.2) / RPS4Y1 (Yp11.31)

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)RPS4Y1   10425
Cards
Entrez_Gene (NCBI)RPS4Y1  6192  ribosomal protein S4, Y-linked 1
AliasesRPS4Y; S4
GeneCards (Weizmann)RPS4Y1
Ensembl hg19 (Hinxton) [Gene_View]
Ensembl hg38 (Hinxton) [Gene_View]  chrY:2841582-2866956 [Contig_View]  RPS4Y1 [Vega]
TCGA cBioPortalRPS4Y1
AceView (NCBI)RPS4Y1
Genatlas (Paris)RPS4Y1
WikiGenes6192
SOURCE (Princeton)RPS4Y1
Genetics Home Reference (NIH)RPS4Y1
Genomic and cartography
GoldenPath hg38 (UCSC)RPS4Y1  -     chrY:2841582-2866956 +  Yp11.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RPS4Y1  -     Yp11.2   [Description]    (hg19-Feb_2009)
EnsemblRPS4Y1 - Yp11.2 [CytoView hg19]  RPS4Y1 - Yp11.2 [CytoView hg38]
Mapping of homologs : NCBIRPS4Y1 [Mapview hg19]  RPS4Y1 [Mapview hg38]
OMIM470000   
Gene and transcription
Genbank (Entrez)AI167386 AK222594 AK292819 BC010286 BC100905
RefSeq transcript (Entrez)NM_001008
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RPS4Y1
Cluster EST : UnigeneHs.282376 [ NCBI ]
CGAP (NCI)Hs.282376
Gene ExpressionRPS4Y1 [ NCBI-GEO ]   RPS4Y1 [ EBI - ARRAY_EXPRESS ]   RPS4Y1 [ SEEK ]   RPS4Y1 [ MEM ]
Gene Expression Viewer (FireBrowse)RPS4Y1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6192
GTEX Portal (Tissue expression)RPS4Y1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP22090   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP22090  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP22090
Splice isoforms : SwissVarP22090
PhosPhoSitePlusP22090
Domaine pattern : Prosite (Expaxy)RIBOSOMAL_S4E (PS00528)    S4 (PS50889)   
Domains : Interpro (EBI)40S_S4_C    KOW    Ribosomal_S4e    Ribosomal_S4e_central_region    Ribosomal_S4e_N    Ribosomal_S4e_N_CS    S4_RNA-bd   
Domain families : Pfam (Sanger)40S_S4_C (PF16121)    KOW (PF00467)    Ribosomal_S4e (PF00900)    RS4NT (PF08071)   
Domain families : Pfam (NCBI)pfam16121    pfam00467    pfam00900    pfam08071   
Domain families : Smart (EMBL)S4 (SM00363)  
Domain structure : Prodom (Prabi Lyon)Ribosomal_S4e_central (PD002667)   
Conserved Domain (NCBI)RPS4Y1
DMDM Disease mutations6192
Blocks (Seattle)RPS4Y1
PDB (SRS)5AJ0    5FLX   
PDB (PDBSum)5AJ0    5FLX   
PDB (IMB)5AJ0    5FLX   
PDB (RSDB)5AJ0    5FLX   
Structural Biology KnowledgeBase5AJ0    5FLX   
SCOP (Structural Classification of Proteins)5AJ0    5FLX   
CATH (Classification of proteins structures)5AJ0    5FLX   
SuperfamilyP22090
Peptide AtlasP22090
HPRD15963
IPIIPI00302740   IPI00643830   
Protein Interaction databases
DIP (DOE-UCLA)P22090
IntAct (EBI)P22090
BioGRIDRPS4Y1
STRING (EMBL)RPS4Y1
ZODIACRPS4Y1
Ontologies - Pathways
QuickGOP22090
Ontology : AmiGOnuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  structural constituent of ribosome  nucleus  nucleoplasm  cytosol  polysome  rRNA processing  translation  translational initiation  SRP-dependent cotranslational protein targeting to membrane  multicellular organism development  membrane  viral transcription  rRNA binding  cytosolic small ribosomal subunit  cytosolic small ribosomal subunit  
Ontology : EGO-EBInuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  structural constituent of ribosome  nucleus  nucleoplasm  cytosol  polysome  rRNA processing  translation  translational initiation  SRP-dependent cotranslational protein targeting to membrane  multicellular organism development  membrane  viral transcription  rRNA binding  cytosolic small ribosomal subunit  cytosolic small ribosomal subunit  
Pathways : KEGGRibosome   
NDEx NetworkRPS4Y1
Atlas of Cancer Signalling NetworkRPS4Y1
Wikipedia pathwaysRPS4Y1
Orthology - Evolution
OrthoDB6192
Phylogenetic Trees/Animal Genes : TreeFamRPS4Y1
HOVERGENP22090
HOGENOMP22090
Homologs : HomoloGeneRPS4Y1
Homology/Alignments : Family Browser (UCSC)RPS4Y1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRPS4Y1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RPS4Y1
dbVarRPS4Y1
ClinVarRPS4Y1
1000_GenomesRPS4Y1 
Exome Variant ServerRPS4Y1
ExAC (Exome Aggregation Consortium)RPS4Y1 (select the gene name)
Genetic variants : HAPMAP6192
Genomic Variants (DGV)RPS4Y1 [DGVbeta]
DECIPHERRPS4Y1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRPS4Y1 
Mutations
ICGC Data PortalRPS4Y1 
TCGA Data PortalRPS4Y1 
Broad Tumor PortalRPS4Y1
OASIS PortalRPS4Y1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRPS4Y1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRPS4Y1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch RPS4Y1
DgiDB (Drug Gene Interaction Database)RPS4Y1
DoCM (Curated mutations)RPS4Y1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RPS4Y1 (select a term)
intoGenRPS4Y1
Cancer3DRPS4Y1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM470000   
Orphanet
MedgenRPS4Y1
Genetic Testing Registry RPS4Y1
NextProtP22090 [Medical]
TSGene6192
GENETestsRPS4Y1
Target ValidationRPS4Y1
Huge Navigator RPS4Y1 [HugePedia]
snp3D : Map Gene to Disease6192
BioCentury BCIQRPS4Y1
ClinGenRPS4Y1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6192
Chemical/Pharm GKB GenePA34840
Clinical trialRPS4Y1
Miscellaneous
canSAR (ICR)RPS4Y1 (select the gene name)
Probes
Litterature
PubMed28 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRPS4Y1
EVEXRPS4Y1
GoPubMedRPS4Y1
iHOPRPS4Y1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 13:36:54 CEST 2017

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