The protein encoded by this gene is a ribosomal protein that is highly similar to RPS4Y1. This gene is located in the male-specific region of the Y chromosome. [provided by RefSeq, Aug 2012] See more...

Aliases for RPS4Y2 Gene

Aliases for RPS4Y2 Gene

  • Ribosomal Protein S4 Y-Linked 2 2 3 5
  • Ribosomal Protein S4, Y-Linked 2 Pseudogene 2 3
  • 40S Ribosomal Protein S4, Y Isoform 2 3 4
  • Small Ribosomal Subunit Protein ES4 3 4
  • RPS4Y2P 3 4
  • 40S Ribosomal Protein S4, Y 3
  • RPS4Y2 5

External Ids for RPS4Y2 Gene

Previous HGNC Symbols for RPS4Y2 Gene

  • RPS4Y2P

Previous GeneCards Identifiers for RPS4Y2 Gene

  • GC0YP022073
  • GC0YP021763
  • GC0YP021256
  • GC0YP021327
  • GC0YP022917
  • GC0YP016504

Summaries for RPS4Y2 Gene

Entrez Gene Summary for RPS4Y2 Gene

  • The protein encoded by this gene is a ribosomal protein that is highly similar to RPS4Y1. This gene is located in the male-specific region of the Y chromosome. [provided by RefSeq, Aug 2012]

GeneCards Summary for RPS4Y2 Gene

RPS4Y2 (Ribosomal Protein S4 Y-Linked 2) is a Protein Coding gene. Diseases associated with RPS4Y2 include Spermatogenic Failure, Y-Linked, 2 and Y Chromosome Infertility. Among its related pathways are Viral mRNA Translation and Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S. Gene Ontology (GO) annotations related to this gene include RNA binding and rRNA binding. An important paralog of this gene is RPS4Y1.

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RPS4Y2 Gene

Genomics for RPS4Y2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RPS4Y2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH0YJ020574 Promoter/Enhancer 1.1 EPDnew ENCODE 0.1 -180.3 -180276 2.8 POLR2A THAP11 MAFF SAP130 KMT2B GABPB1 YY1 DMAP1 BCL6 TBP EIF1AY TTTY10 HSALNG0141406 RPS4Y2 MK280073-735
GH0YJ020798 Enhancer 0.2 Ensembl 0.3 +42.8 42793 0.2 HSALNG0141409 MK280073-735 RPS4Y2 RBMY1B
GH0YJ021021 Enhancer 0.7 Ensembl 0.1 +265.8 265793 0.2 CEBPA HOMEZ SAP130 RARA TEAD3 BCL6 SOX5 HMG20A RFX1 CEBPG piR-33422-499 piR-33432-590 RPS4Y2 RBMY1B
GH0YJ021239 Enhancer 0.6 FANTOM5 Ensembl ENCODE 0 +485.2 485245 3.8 HSALNG0141419 LOC107987346 HSALNG0141420 LOC107987347 RBMY1B RPS4Y2
GH0YJ021174 Enhancer 0.7 FANTOM5 ENCODE 0 +419.0 418959 1.9 MAFF MAFK CTCF HSALNG0141417 TTTY3-001 LOC105377225 RBMY1B RPS4Y2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RPS4Y2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RPS4Y2

Top Transcription factor binding sites by QIAGEN in the RPS4Y2 gene promoter:
  • Elk-1
  • FOXL1
  • GATA-1
  • HOXA3
  • Ik-1
  • Nkx2-5
  • Pax-6
  • RORalpha1
  • RORalpha2

Genomic Locations for RPS4Y2 Gene

Latest Assembly
chrY:20,756,108-20,781,032
(GRCh38/hg38)
Size:
24,925 bases
Orientation:
Plus strand

Previous Assembly
chrY:22,917,994-22,942,918
(GRCh37/hg19 by Entrez Gene)
Size:
24,925 bases
Orientation:
Plus strand

Genomic View for RPS4Y2 Gene

Genes around RPS4Y2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPS4Y2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPS4Y2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPS4Y2 Gene

Proteins for RPS4Y2 Gene

  • Protein details for RPS4Y2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TD47-RS4Y2_HUMAN
    Recommended name:
    40S ribosomal protein S4, Y isoform 2
    Protein Accession:
    Q8TD47
    Secondary Accessions:
    • A6NIR6

    Protein attributes for RPS4Y2 Gene

    Size:
    263 amino acids
    Molecular mass:
    29295 Da
    Quaternary structure:
    No Data Available

neXtProt entry for RPS4Y2 Gene

Post-translational modifications for RPS4Y2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RPS4Y2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RPS4Y2 Gene

Domains & Families for RPS4Y2 Gene

Gene Families for RPS4Y2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Ribosomal proteins

Protein Domains for RPS4Y2 Gene

InterPro:
Blocks:
  • Ribosomal protein S4E
  • RNA-binding S4
  • KOW (Kyprides, Ouzounis, Woese) motif
ProtoNet:

Suggested Antigen Peptide Sequences for RPS4Y2 Gene

GenScript: Design optimal peptide antigens:
  • 40S ribosomal protein S4, Y isoform 2 (RS4Y2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8TD47

UniProtKB/Swiss-Prot:

RS4Y2_HUMAN :
  • Belongs to the eukaryotic ribosomal protein eS4 family.
Family:
  • Belongs to the eukaryotic ribosomal protein eS4 family.
genes like me logo Genes that share domains with RPS4Y2: view

Function for RPS4Y2 Gene

Gene Ontology (GO) - Molecular Function for RPS4Y2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0003723 RNA binding IBA 21873635
GO:0003735 structural constituent of ribosome IBA 21873635
GO:0019843 rRNA binding IEA --
genes like me logo Genes that share ontologies with RPS4Y2: view
genes like me logo Genes that share phenotypes with RPS4Y2: view

Human Phenotype Ontology for RPS4Y2 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RPS4Y2

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RPS4Y2 Gene

Localization for RPS4Y2 Gene

Gene Ontology (GO) - Cellular Components for RPS4Y2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005840 ribosome IEA --
GO:0022627 cytosolic small ribosomal subunit IBA 21873635
genes like me logo Genes that share ontologies with RPS4Y2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Subcellular locations from the Human Protein Atlas (HPA) for RPS4Y2 Gene

Pathways & Interactions for RPS4Y2 Gene

PathCards logo

SuperPathways for RPS4Y2 Gene

SuperPathway Contained pathways
1 Viral mRNA Translation
.79
.53
2 Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S
3 Influenza Viral RNA Transcription and Replication
4 rRNA processing in the nucleus and cytosol
5 HIV Life Cycle
.45
genes like me logo Genes that share pathways with RPS4Y2: view

Pathways by source for RPS4Y2 Gene

1 GeneGo (Thomson Reuters) pathway for RPS4Y2 Gene
  • CFTR translational fidelity (class I mutations)

Interacting Proteins for RPS4Y2 Gene

Gene Ontology (GO) - Biological Process for RPS4Y2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006412 translation IBA 21873635
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with RPS4Y2: view

No data available for SIGNOR curated interactions for RPS4Y2 Gene

Drugs & Compounds for RPS4Y2 Gene

No Compound Related Data Available

Transcripts for RPS4Y2 Gene

mRNA/cDNA for RPS4Y2 Gene

1 REFSEQ mRNAs :
1 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RPS4Y2

Alternative Splicing Database (ASD) splice patterns (SP) for RPS4Y2 Gene

No ASD Table

Relevant External Links for RPS4Y2 Gene

GeneLoc Exon Structure for
RPS4Y2

Expression for RPS4Y2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RPS4Y2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RPS4Y2 Gene

This gene is overexpressed in Testis (x22.4) and Prostate (x17.2).

Protein differential expression in normal tissues from HIPED for RPS4Y2 Gene

This gene is overexpressed in Heart (39.7) and Brain (29.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RPS4Y2 Gene



Protein tissue co-expression partners for RPS4Y2 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RPS4Y2

SOURCE GeneReport for Unigene cluster for RPS4Y2 Gene:

Hs.367761
genes like me logo Genes that share expression patterns with RPS4Y2: view

Primer products for research

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for RPS4Y2 Gene

Orthologs for RPS4Y2 Gene

This gene was present in the common ancestor of animals.

Orthologs for RPS4Y2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia RPS4Y2 30
  • 98.99 (n)
Dog
(Canis familiaris)
Mammalia RPS4X 30
  • 80.86 (n)
Cow
(Bos Taurus)
Mammalia RPS4Y1 30
  • 79.72 (n)
Rat
(Rattus norvegicus)
Mammalia Rps4y2 30
  • 73.82 (n)
Fruit Fly
(Drosophila melanogaster)
Insecta RpS4 32
  • 72 (a)
Worm
(Caenorhabditis elegans)
Secernentea Y43B11AR.4 32
  • 61 (a)
Species where no ortholog for RPS4Y2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Mouse (Mus musculus)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Zebrafish (Danio rerio)

Evolution for RPS4Y2 Gene

ENSEMBL:
Gene Tree for RPS4Y2 (if available)
TreeFam:
Gene Tree for RPS4Y2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RPS4Y2: view image

Paralogs for RPS4Y2 Gene

Paralogs for RPS4Y2 Gene

(2) SIMAP similar genes for RPS4Y2 Gene using alignment to 1 proteins:

  • RS4Y2_HUMAN

Pseudogenes.org Pseudogenes for RPS4Y2 Gene

genes like me logo Genes that share paralogs with RPS4Y2: view

Variants for RPS4Y2 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for RPS4Y2 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for RPS4Y2 Gene

Variant ID Type Subtype PubMed ID
nsv10025 CNV gain 18304495

Variation tolerance for RPS4Y2 Gene

Gene Damage Index Score: 0.14; 3.08% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RPS4Y2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPS4Y2

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RPS4Y2 Gene

Disorders for RPS4Y2 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RPS4Y2 Gene - From: GTR and GCD

Disorder Aliases PubMed IDs
spermatogenic failure, y-linked, 2
  • spgfy2
y chromosome infertility
  • y chromosome-related azoospermia
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for RPS4Y2

genes like me logo Genes that share disorders with RPS4Y2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RPS4Y2 Gene

Publications for RPS4Y2 Gene

  1. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PMID: 12815422) Skaletsky H … Page DC (Nature 2003) 2 3 4
  2. The midbody interactome reveals unexpected roles for PP1 phosphatases in cytokinesis. (PMID: 31586073) Capalbo L … D'Avino PP (Nature communications 2019) 3
  3. The HIV-1 Tat protein recruits a ubiquitin ligase to reorganize the 7SK snRNP for transcriptional activation. (PMID: 29845934) Faust TB … Frankel AD (eLife 2018) 3
  4. SNIP1 Recruits TET2 to Regulate c-MYC Target Genes and Cellular DNA Damage Response. (PMID: 30404004) Chen LL … Guan KL (Cell reports 2018) 3
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3

Products for RPS4Y2 Gene

Sources for RPS4Y2 Gene